Datasets:
vgainullin
/
xciting_data

Dataset card Data Studio Files
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 Community
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6
DISCUSSION
1
35
[ "B35", "B36", "B37" ]
17,329,376
pmid-2067019|pmid-2067020|pmid-11268201
This filament, together with a hook, forms the flagellum, the rotary motor for bacterial motility.
[ "35", "36", "37" ]
98
11,400
0
false
This filament, together with a hook, forms the flagellum, the rotary motor for bacterial motility.
[]
This filament, together with a hook, forms the flagellum, the rotary motor for bacterial motility.
true
true
true
true
true
1,824
6
DISCUSSION
1
36
[ "B35", "B36", "B37" ]
17,329,376
pmid-2067019|pmid-2067020|pmid-11268201
Point mutations of flagellin, the building block of the flagellar filament, lock flagellar filaments in either right-handed or left-handed conformations (36), and analysis of the crystal structure of the Salmonella flagellar protofilament revealed a Ξ²-hairpin to be the SRM (37).
[ "35", "36", "37" ]
279
11,401
1
false
Point mutations of flagellin, the building block of the flagellar filament, lock flagellar filaments in either right-handed or left-handed conformations, and analysis of the crystal structure of the Salmonella flagellar protofilament revealed a Ξ²-hairpin to be the SRM.
[ "36", "37" ]
Point mutations of flagellin, the building block of the flagellar filament, lock flagellar filaments in either right-handed or left-handed conformations, and analysis of the crystal structure of the Salmonella flagellar protofilament revealed a Ξ²-hairpin to be the SRM.
true
true
true
true
true
1,824
6
DISCUSSION
1
35
[ "B35", "B36", "B37" ]
17,329,376
pmid-2067019|pmid-2067020|pmid-11268201
This scenario very closely resembles our identification of the SRM in RecA family proteins.
[ "35", "36", "37" ]
91
11,402
0
false
This scenario very closely resembles our identification of the SRM in RecA family proteins.
[]
This scenario very closely resembles our identification of the SRM in RecA family proteins.
true
true
true
true
true
1,824
6
DISCUSSION
1
35
[ "B35", "B36", "B37" ]
17,329,376
pmid-2067019|pmid-2067020|pmid-11268201
Taking all these data together, we propose that subunit rotation may be a general molecular mechanism for switching and assembling helical protein filaments.
[ "35", "36", "37" ]
157
11,403
0
false
Taking all these data together, we propose that subunit rotation may be a general molecular mechanism for switching and assembling helical protein filaments.
[]
Taking all these data together, we propose that subunit rotation may be a general molecular mechanism for switching and assembling helical protein filaments.
true
true
true
true
true
1,824
0
INTRODUCTION
1
1–3
[ "B1 B2 B3", "B4 B5 B6", "B7" ]
17,251,199
NA|pmid-10702896|pmid-11257111|NA|pmid-10468847|pmid-11216918|pmid-11781220
Chromosomal translocations have a primary role in the pathogenesis of leukemia because they affect specific genes encoding transcription factors or other cell-cycle regulators.
[ "1–3", "4–6", "7" ]
176
11,404
0
false
Chromosomal translocations have a primary role in the pathogenesis of leukemia because they affect specific genes encoding transcription factors or other cell-cycle regulators.
[]
Chromosomal translocations have a primary role in the pathogenesis of leukemia because they affect specific genes encoding transcription factors or other cell-cycle regulators.
true
true
true
true
true
1,825
0
INTRODUCTION
1
1–3
[ "B1 B2 B3", "B4 B5 B6", "B7" ]
17,251,199
NA|pmid-10702896|pmid-11257111|NA|pmid-10468847|pmid-11216918|pmid-11781220
The structural and functional characterization of these rearrangements has provided valuable insight into the mechanisms of malignant transformation of the hematopoietic cells (1–3).
[ "1–3", "4–6", "7" ]
182
11,405
1
false
The structural and functional characterization of these rearrangements has provided valuable insight into the mechanisms of malignant transformation of the hematopoietic cells.
[ "1–3" ]
The structural and functional characterization of these rearrangements has provided valuable insight into the mechanisms of malignant transformation of the hematopoietic cells.
true
true
true
true
true
1,825
0
INTRODUCTION
1
4–6
[ "B1 B2 B3", "B4 B5 B6", "B7" ]
17,251,199
NA|pmid-10702896|pmid-11257111|NA|pmid-10468847|pmid-11216918|pmid-11781220
Moreover, the fusion genes that are formed as a result of the translocations constitute important tumor markers whose detection and/or quantification assist in the diagnosis, prognosis, monitoring the response to treatment and detection of minimal residual disease (4–6).
[ "1–3", "4–6", "7" ]
271
11,406
1
false
Moreover, the fusion genes that are formed as a result of the translocations constitute important tumor markers whose detection and/or quantification assist in the diagnosis, prognosis, monitoring the response to treatment and detection of minimal residual disease.
[ "4–6" ]
Moreover, the fusion genes that are formed as a result of the translocations constitute important tumor markers whose detection and/or quantification assist in the diagnosis, prognosis, monitoring the response to treatment and detection of minimal residual disease.
true
true
true
true
true
1,825
0
INTRODUCTION
1
7
[ "B1 B2 B3", "B4 B5 B6", "B7" ]
17,251,199
NA|pmid-10702896|pmid-11257111|NA|pmid-10468847|pmid-11216918|pmid-11781220
The chimeric proteins that are encoded by the fusion genes in the leukemic cells could in principle serve as tumor markers but there is a lack of suitable antibodies for the development of immunoassays (7).
[ "1–3", "4–6", "7" ]
206
11,407
1
false
The chimeric proteins that are encoded by the fusion genes in the leukemic cells could in principle serve as tumor markers but there is a lack of suitable antibodies for the development of immunoassays.
[ "7" ]
The chimeric proteins that are encoded by the fusion genes in the leukemic cells could in principle serve as tumor markers but there is a lack of suitable antibodies for the development of immunoassays.
true
true
true
true
true
1,825
1
INTRODUCTION
1
1
[ "B1", "B4", "B5" ]
17,251,199
NA|NA|pmid-10468847
Conventional cytogenetics and fluorescence in situ hybridization (FISH) are used widely for the detection of chromosomal rearrangements albeit their sensitivity is limited to 1–5% of leukemic cells in the total cell population (1,4,5).
[ "1", "4", "5" ]
235
11,408
0
false
Conventional cytogenetics and fluorescence in situ hybridization (FISH) are used widely for the detection of chromosomal rearrangements albeit their sensitivity is limited to 1–5% of leukemic cells in the total cell population.
[ "1,4,5" ]
Conventional cytogenetics and fluorescence in situ hybridization (FISH) are used widely for the detection of chromosomal rearrangements albeit their sensitivity is limited to 1–5% of leukemic cells in the total cell population.
true
true
true
true
true
1,826
1
INTRODUCTION
1
1
[ "B1", "B4", "B5" ]
17,251,199
NA|NA|pmid-10468847
To date the highest detectability is achieved by methods that are based on the exponential amplification of translocation-specific nucleic acid sequences, e.g.
[ "1", "4", "5" ]
159
11,409
0
false
To date the highest detectability is achieved by methods that are based on the exponential amplification of translocation-specific nucleic acid sequences, e.g.
[]
To date the highest detectability is achieved by methods that are based on the exponential amplification of translocation-specific nucleic acid sequences, e.g.
true
true
true
true
true
1,826
1
INTRODUCTION
1
1
[ "B1", "B4", "B5" ]
17,251,199
NA|NA|pmid-10468847
via the polymerase chain reaction (PCR).
[ "1", "4", "5" ]
40
11,410
0
false
via the polymerase chain reaction (PCR).
[]
via the polymerase chain reaction (PCR).
false
true
true
true
false
1,826
1
INTRODUCTION
1
1
[ "B1", "B4", "B5" ]
17,251,199
NA|NA|pmid-10468847
Molecular studies of chromosomal rearrangements have shown that the breakpoints in various patients are spread over a large segment of genomic DNA, which is difficult to amplify by PCR on a routine basis.
[ "1", "4", "5" ]
204
11,411
0
false
Molecular studies of chromosomal rearrangements have shown that the breakpoints in various patients are spread over a large segment of genomic DNA, which is difficult to amplify by PCR on a routine basis.
[]
Molecular studies of chromosomal rearrangements have shown that the breakpoints in various patients are spread over a large segment of genomic DNA, which is difficult to amplify by PCR on a routine basis.
true
true
true
true
true
1,826
1
INTRODUCTION
1
1
[ "B1", "B4", "B5" ]
17,251,199
NA|NA|pmid-10468847
The resulting fusion mRNA transcripts, however, are the same in most patients and consequently RNA is preferred as a starting template for the molecular assays of chromosomal translocations (1–6).
[ "1", "4", "5" ]
196
11,412
0
false
The resulting fusion mRNA transcripts, however, are the same in most patients and consequently RNA is preferred as a starting template for the molecular assays of chromosomal translocations.
[ "1–6" ]
The resulting fusion mRNA transcripts, however, are the same in most patients and consequently RNA is preferred as a starting template for the molecular assays of chromosomal translocations.
true
true
true
true
true
1,826
1
INTRODUCTION
1
1
[ "B1", "B4", "B5" ]
17,251,199
NA|NA|pmid-10468847
PCR primers are designed to hybridize at opposite sides of the junction region so that exponential amplification occurs only when the fusion sequence is present in the sample.
[ "1", "4", "5" ]
175
11,413
0
false
PCR primers are designed to hybridize at opposite sides of the junction region so that exponential amplification occurs only when the fusion sequence is present in the sample.
[]
PCR primers are designed to hybridize at opposite sides of the junction region so that exponential amplification occurs only when the fusion sequence is present in the sample.
true
true
true
true
true
1,826
2
INTRODUCTION
1
8
[ "B8", "B9", "B10", "B11", "B1", "B4", "B5" ]
17,251,199
pmid-7847630|pmid-7729047|pmid-11840274|pmid-15491975|NA|NA|pmid-10468847
Currently, the most widely used method for the detection of PCR products entails separation by agarose gel electrophoresis followed by ethidium bromide staining.
[ "8", "9", "10", "11", "1", "4", "5" ]
161
11,414
0
false
Currently, the most widely used method for the detection of PCR products entails separation by agarose gel electrophoresis followed by ethidium bromide staining.
[]
Currently, the most widely used method for the detection of PCR products entails separation by agarose gel electrophoresis followed by ethidium bromide staining.
true
true
true
true
true
1,827
2
INTRODUCTION
1
8
[ "B8", "B9", "B10", "B11", "B1", "B4", "B5" ]
17,251,199
pmid-7847630|pmid-7729047|pmid-11840274|pmid-15491975|NA|NA|pmid-10468847
Hybridization assays that are performed in microtitration wells have been proposed for the post-PCR detection of amplified products because they are easily automatable (8,9).
[ "8", "9", "10", "11", "1", "4", "5" ]
174
11,415
0
false
Hybridization assays that are performed in microtitration wells have been proposed for the post-PCR detection of amplified products because they are easily automatable.
[ "8,9" ]
Hybridization assays that are performed in microtitration wells have been proposed for the post-PCR detection of amplified products because they are easily automatable.
true
true
true
true
true
1,827
2
INTRODUCTION
1
8
[ "B8", "B9", "B10", "B11", "B1", "B4", "B5" ]
17,251,199
pmid-7847630|pmid-7729047|pmid-11840274|pmid-15491975|NA|NA|pmid-10468847
However, they require specialized instrumentation and multiple pipetting, incubation and washing steps in order to capture the amplified sequence, hybridize with a specific probe, remove the excess of probe, add the appropriate substrate and read the generated signal.
[ "8", "9", "10", "11", "1", "4", "5" ]
268
11,416
0
false
However, they require specialized instrumentation and multiple pipetting, incubation and washing steps in order to capture the amplified sequence, hybridize with a specific probe, remove the excess of probe, add the appropriate substrate and read the generated signal.
[]
However, they require specialized instrumentation and multiple pipetting, incubation and washing steps in order to capture the amplified sequence, hybridize with a specific probe, remove the excess of probe, add the appropriate substrate and read the generated signal.
true
true
true
true
true
1,827
2
INTRODUCTION
1
8
[ "B8", "B9", "B10", "B11", "B1", "B4", "B5" ]
17,251,199
pmid-7847630|pmid-7729047|pmid-11840274|pmid-15491975|NA|NA|pmid-10468847
Alternatively, flow cytometry can be used for post-PCR detection of amplification products that are fluorescently labeled or have been subjected to an oligonucleotide ligation reaction and are captured on polystyrene beads (10,11).
[ "8", "9", "10", "11", "1", "4", "5" ]
231
11,417
0
false
Alternatively, flow cytometry can be used for post-PCR detection of amplification products that are fluorescently labeled or have been subjected to an oligonucleotide ligation reaction and are captured on polystyrene beads.
[ "10,11" ]
Alternatively, flow cytometry can be used for post-PCR detection of amplification products that are fluorescently labeled or have been subjected to an oligonucleotide ligation reaction and are captured on polystyrene beads.
true
true
true
true
true
1,827
2
INTRODUCTION
1
8
[ "B8", "B9", "B10", "B11", "B1", "B4", "B5" ]
17,251,199
pmid-7847630|pmid-7729047|pmid-11840274|pmid-15491975|NA|NA|pmid-10468847
Flow cytometry is suitable for the development of multiplex assays but requires expensive instrumentation.
[ "8", "9", "10", "11", "1", "4", "5" ]
106
11,418
0
false
Flow cytometry is suitable for the development of multiplex assays but requires expensive instrumentation.
[]
Flow cytometry is suitable for the development of multiplex assays but requires expensive instrumentation.
true
true
true
true
true
1,827
2
INTRODUCTION
1
8
[ "B8", "B9", "B10", "B11", "B1", "B4", "B5" ]
17,251,199
pmid-7847630|pmid-7729047|pmid-11840274|pmid-15491975|NA|NA|pmid-10468847
On the other hand, real-time PCR allows continuous monitoring of the amplified fragments during PCR by a homogeneous fluorometric hybridization assay and is used widely for quantification of the fusion transcripts.
[ "8", "9", "10", "11", "1", "4", "5" ]
214
11,419
0
false
On the other hand, real-time PCR allows continuous monitoring of the amplified fragments during PCR by a homogeneous fluorometric hybridization assay and is used widely for quantification of the fusion transcripts.
[]
On the other hand, real-time PCR allows continuous monitoring of the amplified fragments during PCR by a homogeneous fluorometric hybridization assay and is used widely for quantification of the fusion transcripts.
true
true
true
true
true
1,827
2
INTRODUCTION
1
8
[ "B8", "B9", "B10", "B11", "B1", "B4", "B5" ]
17,251,199
pmid-7847630|pmid-7729047|pmid-11840274|pmid-15491975|NA|NA|pmid-10468847
Real-time PCR, however, requires highly specialized, expensive equipment along with costly reagents (1,4,5).
[ "8", "9", "10", "11", "1", "4", "5" ]
108
11,420
0
false
Real-time PCR, however, requires highly specialized, expensive equipment along with costly reagents.
[ "1,4,5" ]
Real-time PCR, however, requires highly specialized, expensive equipment along with costly reagents.
true
true
true
true
true
1,827
3
INTRODUCTION
1
12
[ "B12", "B1", "B3", "B13", "B1", "B3", "B13", "B16", "B14", "B15" ]
17,251,199
pmid-12707370|NA|pmid-11257111|pmid-10500192|NA|pmid-11257111|pmid-10500192|pmid-14632129|pmid-12895392|pmid-15156186
In this work, we report the first dry-reagent, disposable, dipstick test for the molecular screening of chromosomal translocations.
[ "12", "1", "3", "13", "1", "3", "13", "16", "14", "15" ]
131
11,421
0
false
In this work, we report the first dry-reagent, disposable, dipstick test for the molecular screening of chromosomal translocations.
[]
In this work, we report the first dry-reagent, disposable, dipstick test for the molecular screening of chromosomal translocations.
true
true
true
true
true
1,828
3
INTRODUCTION
1
12
[ "B12", "B1", "B3", "B13", "B1", "B3", "B13", "B16", "B14", "B15" ]
17,251,199
pmid-12707370|NA|pmid-11257111|pmid-10500192|NA|pmid-11257111|pmid-10500192|pmid-14632129|pmid-12895392|pmid-15156186
The test allows visual detection and confirmation of PCR-amplified leukemia-specific transcripts by hybridization within minutes.
[ "12", "1", "3", "13", "1", "3", "13", "16", "14", "15" ]
129
11,422
0
false
The test allows visual detection and confirmation of PCR-amplified leukemia-specific transcripts by hybridization within minutes.
[]
The test allows visual detection and confirmation of PCR-amplified leukemia-specific transcripts by hybridization within minutes.
true
true
true
true
true
1,828
3
INTRODUCTION
1
12
[ "B12", "B1", "B3", "B13", "B1", "B3", "B13", "B16", "B14", "B15" ]
17,251,199
pmid-12707370|NA|pmid-11257111|pmid-10500192|NA|pmid-11257111|pmid-10500192|pmid-14632129|pmid-12895392|pmid-15156186
The test is simple and does not require special instrumentation.
[ "12", "1", "3", "13", "1", "3", "13", "16", "14", "15" ]
64
11,423
0
false
The test is simple and does not require special instrumentation.
[]
The test is simple and does not require special instrumentation.
true
true
true
true
true
1,828
3
INTRODUCTION
1
12
[ "B12", "B1", "B3", "B13", "B1", "B3", "B13", "B16", "B14", "B15" ]
17,251,199
pmid-12707370|NA|pmid-11257111|pmid-10500192|NA|pmid-11257111|pmid-10500192|pmid-14632129|pmid-12895392|pmid-15156186
A total of seven well-defined chromosomal rearrangements were selected.
[ "12", "1", "3", "13", "1", "3", "13", "16", "14", "15" ]
71
11,424
0
false
A total of seven well-defined chromosomal rearrangements were selected.
[]
A total of seven well-defined chromosomal rearrangements were selected.
true
true
true
true
true
1,828
3
INTRODUCTION
1
12
[ "B12", "B1", "B3", "B13", "B1", "B3", "B13", "B16", "B14", "B15" ]
17,251,199
pmid-12707370|NA|pmid-11257111|pmid-10500192|NA|pmid-11257111|pmid-10500192|pmid-14632129|pmid-12895392|pmid-15156186
The Philadelphia translocation, t(9;22)(q34;q11), which is present in >95% of patients with chronic myeloid leukemia (CML), involves the movement of most of the ABL (Abelson murine leukemia) protooncogene from chromosome 9 to the BCR (breakpoint cluster region) gene on chromosome 22, thus resulting in the BCR-ABL fusio...
[ "12", "1", "3", "13", "1", "3", "13", "16", "14", "15" ]
332
11,425
1
false
The Philadelphia translocation, t(9;22), which is present in >95% of patients with chronic myeloid leukemia (CML), involves the movement of most of the ABL (Abelson murine leukemia) protooncogene from chromosome 9 to the BCR (breakpoint cluster region) gene on chromosome 22, thus resulting in the BCR-ABL fusion gene.
[ "q34;q11", "12" ]
The Philadelphia translocation, t, which is present in >95% of patients with chronic myeloid leukemia (CML), involves the movement of most of the ABL (Abelson murine leukemia) protooncogene from chromosome 9 to the BCR (breakpoint cluster region) gene on chromosome 22, thus resulting in the BCR-ABL fusion gene.
true
true
true
true
true
1,828
3
INTRODUCTION
1
12
[ "B12", "B1", "B3", "B13", "B1", "B3", "B13", "B16", "B14", "B15" ]
17,251,199
pmid-12707370|NA|pmid-11257111|pmid-10500192|NA|pmid-11257111|pmid-10500192|pmid-14632129|pmid-12895392|pmid-15156186
The t(15;17)(q22;q21) translocation, which is the diagnostic hallmark of acute promyelocytic leukemia (APL), joins the PML (promyelocytic leukemia) gene on chromosome 15 with the retinoic acid receptor alpha gene (RARa) on 17q to produce the PML-RARa fusion gene (1,3,13).
[ "12", "1", "3", "13", "1", "3", "13", "16", "14", "15" ]
272
11,426
0
false
The t translocation, which is the diagnostic hallmark of acute promyelocytic leukemia (APL), joins the PML (promyelocytic leukemia) gene on chromosome 15 with the retinoic acid receptor alpha gene (RARa) on 17q to produce the PML-RARa fusion gene.
[ "15;17", "q22;q21", "1,3,13" ]
The t translocation, which is the diagnostic hallmark of acute promyelocytic leukemia (APL), joins the PML (promyelocytic leukemia) gene on chromosome 15 with the retinoic acid receptor alpha gene (RARa) on 17q to produce the PML-RARa fusion gene.
true
true
true
true
true
1,828
3
INTRODUCTION
1
12
[ "B12", "B1", "B3", "B13", "B1", "B3", "B13", "B16", "B14", "B15" ]
17,251,199
pmid-12707370|NA|pmid-11257111|pmid-10500192|NA|pmid-11257111|pmid-10500192|pmid-14632129|pmid-12895392|pmid-15156186
Three other chromosomal translocations, associated with acute myeloid leukemia (AML), disrupt the RARa gene, namely, the t(11;17)(q23;q21) that involves the PLZF (promyelocytic leukaemia zinc finger) gene, the t(5;17)(q32;q21) implicating the NPM (nucleophosmin) gene and the t(11;17)(q13;q21) that involves the gene enc...
[ "12", "1", "3", "13", "1", "3", "13", "16", "14", "15" ]
371
11,427
0
false
Three other chromosomal translocations, associated with acute myeloid leukemia (AML), disrupt the RARa gene, namely, the t that involves the PLZF (promyelocytic leukaemia zinc finger) gene, the t implicating the NPM (nucleophosmin) gene and the t that involves the gene encoding the nuclear mitotic apparatus protein (Nu...
[ "11;17", "q23;q21", "5;17", "q32;q21", "11;17", "q13;q21" ]
Three other chromosomal translocations, associated with acute myeloid leukemia (AML), disrupt the RARa gene, namely, the t that involves the PLZF (promyelocytic leukaemia zinc finger) gene, the t implicating the NPM (nucleophosmin) gene and the t that involves the gene encoding the nuclear mitotic apparatus protein (Nu...
true
true
true
true
true
1,828
3
INTRODUCTION
1
12
[ "B12", "B1", "B3", "B13", "B1", "B3", "B13", "B16", "B14", "B15" ]
17,251,199
pmid-12707370|NA|pmid-11257111|pmid-10500192|NA|pmid-11257111|pmid-10500192|pmid-14632129|pmid-12895392|pmid-15156186
The generated fusion transcripts are PLZF-RARa, NPM-RARa and NuMA-RARa, respectively (1,3,13).
[ "12", "1", "3", "13", "1", "3", "13", "16", "14", "15" ]
94
11,428
0
false
The generated fusion transcripts are PLZF-RARa, NPM-RARa and NuMA-RARa, respectively.
[ "1,3,13" ]
The generated fusion transcripts are PLZF-RARa, NPM-RARa and NuMA-RARa, respectively.
true
true
true
true
true
1,828
3
INTRODUCTION
1
16
[ "B12", "B1", "B3", "B13", "B1", "B3", "B13", "B16", "B14", "B15" ]
17,251,199
pmid-12707370|NA|pmid-11257111|pmid-10500192|NA|pmid-11257111|pmid-10500192|pmid-14632129|pmid-12895392|pmid-15156186
Also two other common translocations with a significant prognostic value for AML were detected: The t(8,21)(q22;q22), that fuses the acute myeloid leukaemia 1 (AML1) gene with the ETO (eight twenty one) gene (generating the AML1-ETO fusion gene) and the inv(16)(p13;q22) that joins the CBFΞ² (core binding factor beta) ge...
[ "12", "1", "3", "13", "1", "3", "13", "16", "14", "15" ]
447
11,429
1
false
Also two other common translocations with a significant prognostic value for AML were detected: The t(q22;q22), that fuses the acute myeloid leukaemia 1 gene with the ETO (eight twenty one) gene and the inv that joins the CBFΞ² (core binding factor beta) gene on 16q22 and the MYH11 (myosin smooth muscle heavy chain) gen...
[ "8,21", "AML1", "generating the AML1-ETO fusion gene", "16", "p13;q22", "14,15" ]
Also two other common translocations with a significant prognostic value for AML were detected: The t(q22;q22), that fuses the acute myeloid leukaemia 1 gene with the ETO (eight twenty one) gene and the inv that joins the CBFΞ² (core binding factor beta) gene on 16q22 and the MYH11 (myosin smooth muscle heavy chain) gen...
true
true
true
true
true
1,828
0
INTRODUCTION
1
1
[ "B1", "B2", "B3", "B4 B5 B6 B7 B8", "B9 B10 B11", "B7", "B12", "B13", "B14", "B15", "B16", "B17", "B18" ]
17,452,369
pmid-9080773|pmid-15189154|pmid-12878006|pmid-16464005|NA|pmid-14726017|pmid-8090225|pmid-9034344|pmid-9188507|pmid-9360969|pmid-10026181|pmid-8090225|pmid-7651464|pmid-12644470|pmid-7961795|pmid-8530463|pmid-7876218|pmid-11825897|pmid-11438646
FEN-1 and XPG belong to the FEN-1 family of structure-specific nucleases, the members of which fulfill diverse biological roles and cleave branched DNA structures with conserved polarity at the junction of single-stranded (ss) and duplex (ds) DNA (1).
[ "1", "2", "3", "4–8", "9–11", "7", "12", "13", "14", "15", "16", "17", "18" ]
251
11,430
1
false
FEN-1 and XPG belong to the FEN-1 family of structure-specific nucleases, the members of which fulfill diverse biological roles and cleave branched DNA structures with conserved polarity at the junction of single-stranded (ss) and duplex (ds) DNA.
[ "1" ]
FEN-1 and XPG belong to the FEN-1 family of structure-specific nucleases, the members of which fulfill diverse biological roles and cleave branched DNA structures with conserved polarity at the junction of single-stranded (ss) and duplex (ds) DNA.
true
true
true
true
true
1,829
0
INTRODUCTION
1
1
[ "B1", "B2", "B3", "B4 B5 B6 B7 B8", "B9 B10 B11", "B7", "B12", "B13", "B14", "B15", "B16", "B17", "B18" ]
17,452,369
pmid-9080773|pmid-15189154|pmid-12878006|pmid-16464005|NA|pmid-14726017|pmid-8090225|pmid-9034344|pmid-9188507|pmid-9360969|pmid-10026181|pmid-8090225|pmid-7651464|pmid-12644470|pmid-7961795|pmid-8530463|pmid-7876218|pmid-11825897|pmid-11438646
FEN-1 has an essential role in DNA replication in the processing of Okazaki fragments and has additional functions in base excision repair and in other pathways contributing to the maintenance of genome stability (2,3).
[ "1", "2", "3", "4–8", "9–11", "7", "12", "13", "14", "15", "16", "17", "18" ]
219
11,431
0
false
FEN-1 has an essential role in DNA replication in the processing of Okazaki fragments and has additional functions in base excision repair and in other pathways contributing to the maintenance of genome stability.
[ "2,3" ]
FEN-1 has an essential role in DNA replication in the processing of Okazaki fragments and has additional functions in base excision repair and in other pathways contributing to the maintenance of genome stability.
true
true
true
true
true
1,829
0
INTRODUCTION
1
4–8
[ "B1", "B2", "B3", "B4 B5 B6 B7 B8", "B9 B10 B11", "B7", "B12", "B13", "B14", "B15", "B16", "B17", "B18" ]
17,452,369
pmid-9080773|pmid-15189154|pmid-12878006|pmid-16464005|NA|pmid-14726017|pmid-8090225|pmid-9034344|pmid-9188507|pmid-9360969|pmid-10026181|pmid-8090225|pmid-7651464|pmid-12644470|pmid-7961795|pmid-8530463|pmid-7876218|pmid-11825897|pmid-11438646
XPG plays a central role in nucleotide excision repair (NER) where it makes the incision on the 3β€² side of the DNA lesion (4–8).
[ "1", "2", "3", "4–8", "9–11", "7", "12", "13", "14", "15", "16", "17", "18" ]
128
11,432
1
false
XPG plays a central role in nucleotide excision repair (NER) where it makes the incision on the 3β€² side of the DNA lesion.
[ "4–8" ]
XPG plays a central role in nucleotide excision repair (NER) where it makes the incision on the 3β€² side of the DNA lesion.
true
true
true
true
true
1,829
0
INTRODUCTION
1
9–11
[ "B1", "B2", "B3", "B4 B5 B6 B7 B8", "B9 B10 B11", "B7", "B12", "B13", "B14", "B15", "B16", "B17", "B18" ]
17,452,369
pmid-9080773|pmid-15189154|pmid-12878006|pmid-16464005|NA|pmid-14726017|pmid-8090225|pmid-9034344|pmid-9188507|pmid-9360969|pmid-10026181|pmid-8090225|pmid-7651464|pmid-12644470|pmid-7961795|pmid-8530463|pmid-7876218|pmid-11825897|pmid-11438646
XPG also fulfills a structural role in the assembly of NER complexes since its presence, but not its catalytic activity, is required for the 5β€² incision by ERCC1-XPF (9–11).
[ "1", "2", "3", "4–8", "9–11", "7", "12", "13", "14", "15", "16", "17", "18" ]
173
11,433
1
false
XPG also fulfills a structural role in the assembly of NER complexes since its presence, but not its catalytic activity, is required for the 5β€² incision by ERCC1-XPF.
[ "9–11" ]
XPG also fulfills a structural role in the assembly of NER complexes since its presence, but not its catalytic activity, is required for the 5β€² incision by ERCC1-XPF.
true
true
true
true
true
1,829
0
INTRODUCTION
1
1
[ "B1", "B2", "B3", "B4 B5 B6 B7 B8", "B9 B10 B11", "B7", "B12", "B13", "B14", "B15", "B16", "B17", "B18" ]
17,452,369
pmid-9080773|pmid-15189154|pmid-12878006|pmid-16464005|NA|pmid-14726017|pmid-8090225|pmid-9034344|pmid-9188507|pmid-9360969|pmid-10026181|pmid-8090225|pmid-7651464|pmid-12644470|pmid-7961795|pmid-8530463|pmid-7876218|pmid-11825897|pmid-11438646
Consistent with the contribution of FEN-1 and XPG to different DNA repair and replication pathways, they show similar but distinct substrate specificities in vitro.
[ "1", "2", "3", "4–8", "9–11", "7", "12", "13", "14", "15", "16", "17", "18" ]
164
11,434
0
false
Consistent with the contribution of FEN-1 and XPG to different DNA repair and replication pathways, they show similar but distinct substrate specificities in vitro.
[]
Consistent with the contribution of FEN-1 and XPG to different DNA repair and replication pathways, they show similar but distinct substrate specificities in vitro.
true
true
true
true
true
1,829
0
INTRODUCTION
1
1
[ "B1", "B2", "B3", "B4 B5 B6 B7 B8", "B9 B10 B11", "B7", "B12", "B13", "B14", "B15", "B16", "B17", "B18" ]
17,452,369
pmid-9080773|pmid-15189154|pmid-12878006|pmid-16464005|NA|pmid-14726017|pmid-8090225|pmid-9034344|pmid-9188507|pmid-9360969|pmid-10026181|pmid-8090225|pmid-7651464|pmid-12644470|pmid-7961795|pmid-8530463|pmid-7876218|pmid-11825897|pmid-11438646
XPG shows structure-specific properties cleaving artificial DNA structures that contain ss/ds DNA junctions, including bubbles and splayed arm substrates with the same polarity as in the NER reaction (7,12,13).
[ "1", "2", "3", "4–8", "9–11", "7", "12", "13", "14", "15", "16", "17", "18" ]
210
11,435
0
false
XPG shows structure-specific properties cleaving artificial DNA structures that contain ss/ds DNA junctions, including bubbles and splayed arm substrates with the same polarity as in the NER reaction.
[ "7,12,13" ]
XPG shows structure-specific properties cleaving artificial DNA structures that contain ss/ds DNA junctions, including bubbles and splayed arm substrates with the same polarity as in the NER reaction.
true
true
true
true
true
1,829
0
INTRODUCTION
1
1
[ "B1", "B2", "B3", "B4 B5 B6 B7 B8", "B9 B10 B11", "B7", "B12", "B13", "B14", "B15", "B16", "B17", "B18" ]
17,452,369
pmid-9080773|pmid-15189154|pmid-12878006|pmid-16464005|NA|pmid-14726017|pmid-8090225|pmid-9034344|pmid-9188507|pmid-9360969|pmid-10026181|pmid-8090225|pmid-7651464|pmid-12644470|pmid-7961795|pmid-8530463|pmid-7876218|pmid-11825897|pmid-11438646
In contrast, FEN-1 only acts on substrates that have free 5β€² ss DNA ends and does not process DNA bubble structures or loops that are substrates for XPG (14,15).
[ "1", "2", "3", "4–8", "9–11", "7", "12", "13", "14", "15", "16", "17", "18" ]
161
11,436
0
false
In contrast, FEN-1 only acts on substrates that have free 5β€² ss DNA ends and does not process DNA bubble structures or loops that are substrates for XPG.
[ "14,15" ]
In contrast, FEN-1 only acts on substrates that have free 5β€² ss DNA ends and does not process DNA bubble structures or loops that are substrates for XPG.
true
true
true
true
true
1,829
0
INTRODUCTION
1
1
[ "B1", "B2", "B3", "B4 B5 B6 B7 B8", "B9 B10 B11", "B7", "B12", "B13", "B14", "B15", "B16", "B17", "B18" ]
17,452,369
pmid-9080773|pmid-15189154|pmid-12878006|pmid-16464005|NA|pmid-14726017|pmid-8090225|pmid-9034344|pmid-9188507|pmid-9360969|pmid-10026181|pmid-8090225|pmid-7651464|pmid-12644470|pmid-7961795|pmid-8530463|pmid-7876218|pmid-11825897|pmid-11438646
In addition, the nuclease activity of FEN-1 is greatly increased on a double-flap structure containing a 1-nt 3β€² flap adjacent to the 5β€² flap compared to the conventional 5β€² flap substrate (16,17).
[ "1", "2", "3", "4–8", "9–11", "7", "12", "13", "14", "15", "16", "17", "18" ]
197
11,437
0
false
In addition, the nuclease activity of FEN-1 is greatly increased on a double-flap structure containing a 1-nt 3β€² flap adjacent to the 5β€² flap compared to the conventional 5β€² flap substrate.
[ "16,17" ]
In addition, the nuclease activity of FEN-1 is greatly increased on a double-flap structure containing a 1-nt 3β€² flap adjacent to the 5β€² flap compared to the conventional 5β€² flap substrate.
true
true
true
true
true
1,829
0
INTRODUCTION
1
18
[ "B1", "B2", "B3", "B4 B5 B6 B7 B8", "B9 B10 B11", "B7", "B12", "B13", "B14", "B15", "B16", "B17", "B18" ]
17,452,369
pmid-9080773|pmid-15189154|pmid-12878006|pmid-16464005|NA|pmid-14726017|pmid-8090225|pmid-9034344|pmid-9188507|pmid-9360969|pmid-10026181|pmid-8090225|pmid-7651464|pmid-12644470|pmid-7961795|pmid-8530463|pmid-7876218|pmid-11825897|pmid-11438646
Such double-flap structures might be the real in vivo substrates for FEN-1 during replication (18).
[ "1", "2", "3", "4–8", "9–11", "7", "12", "13", "14", "15", "16", "17", "18" ]
99
11,438
1
false
Such double-flap structures might be the real in vivo substrates for FEN-1 during replication.
[ "18" ]
Such double-flap structures might be the real in vivo substrates for FEN-1 during replication.
true
true
true
true
true
1,829
1
INTRODUCTION
1
1
[ "B1", "B19 B20 B21 B22", "B23", "B24", "B25" ]
17,452,369
pmid-9080773|pmid-8657312|pmid-8674116|pmid-9778254|pmid-9699635|pmid-12411510|pmid-14718165|pmid-15131255|pmid-14718165|pmid-15590680|pmid-16246722|pmid-9699635|pmid-11258937|pmid-12644470
Members of the FEN-1 family of nucleases have a conserved nuclease core composed of the N-terminal (N-) and internal (I-) regions (1).
[ "1", "19–22", "23", "24", "25" ]
134
11,439
1
false
Members of the FEN-1 family of nucleases have a conserved nuclease core composed of the N-terminal (N-) and internal (I-) regions.
[ "1" ]
Members of the FEN-1 family of nucleases have a conserved nuclease core composed of the N-terminal (N-) and internal (I-) regions.
true
true
true
true
true
1,830
1
INTRODUCTION
1
19–22
[ "B1", "B19 B20 B21 B22", "B23", "B24", "B25" ]
17,452,369
pmid-9080773|pmid-8657312|pmid-8674116|pmid-9778254|pmid-9699635|pmid-12411510|pmid-14718165|pmid-15131255|pmid-14718165|pmid-15590680|pmid-16246722|pmid-9699635|pmid-11258937|pmid-12644470
Crystal structures of FEN-1 family proteins from different species revealed that the N- and I- regions form a conserved globular domain containing the active site (19–22).
[ "1", "19–22", "23", "24", "25" ]
171
11,440
1
false
Crystal structures of FEN-1 family proteins from different species revealed that the N- and I- regions form a conserved globular domain containing the active site.
[ "19–22" ]
Crystal structures of FEN-1 family proteins from different species revealed that the N- and I- regions form a conserved globular domain containing the active site.
true
true
true
true
true
1,830
1
INTRODUCTION
1
1
[ "B1", "B19 B20 B21 B22", "B23", "B24", "B25" ]
17,452,369
pmid-9080773|pmid-8657312|pmid-8674116|pmid-9778254|pmid-9699635|pmid-12411510|pmid-14718165|pmid-15131255|pmid-14718165|pmid-15590680|pmid-16246722|pmid-9699635|pmid-11258937|pmid-12644470
In most FEN-1 family members, the N- and I- regions are separated by <70 amino acids.
[ "1", "19–22", "23", "24", "25" ]
85
11,441
0
false
In most FEN-1 family members, the N- and I- regions are separated by <70 amino acids.
[]
In most FEN-1 family members, the N- and I- regions are separated by <70 amino acids.
true
true
true
true
true
1,830
1
INTRODUCTION
1
23
[ "B1", "B19 B20 B21 B22", "B23", "B24", "B25" ]
17,452,369
pmid-9080773|pmid-8657312|pmid-8674116|pmid-9778254|pmid-9699635|pmid-12411510|pmid-14718165|pmid-15131255|pmid-14718165|pmid-15590680|pmid-16246722|pmid-9699635|pmid-11258937|pmid-12644470
This region forms a helical arch that is located above the active site and plays a role in DNA binding and catalysis (23).
[ "1", "19–22", "23", "24", "25" ]
122
11,442
1
false
This region forms a helical arch that is located above the active site and plays a role in DNA binding and catalysis.
[ "23" ]
This region forms a helical arch that is located above the active site and plays a role in DNA binding and catalysis.
true
true
true
true
true
1,830
1
INTRODUCTION
1
1
[ "B1", "B19 B20 B21 B22", "B23", "B24", "B25" ]
17,452,369
pmid-9080773|pmid-8657312|pmid-8674116|pmid-9778254|pmid-9699635|pmid-12411510|pmid-14718165|pmid-15131255|pmid-14718165|pmid-15590680|pmid-16246722|pmid-9699635|pmid-11258937|pmid-12644470
In addition, FEN-1 contains a small surface-exposed hydrophobic wedge and a 1-nt-binding pocket, which provides specificity for double-flap structures and appears to contribute to the positioning of the ssDNA 5β€² flap near the active site (24,25).
[ "1", "19–22", "23", "24", "25" ]
246
11,443
0
false
In addition, FEN-1 contains a small surface-exposed hydrophobic wedge and a 1-nt-binding pocket, which provides specificity for double-flap structures and appears to contribute to the positioning of the ssDNA 5β€² flap near the active site.
[ "24,25" ]
In addition, FEN-1 contains a small surface-exposed hydrophobic wedge and a 1-nt-binding pocket, which provides specificity for double-flap structures and appears to contribute to the positioning of the ssDNA 5β€² flap near the active site.
true
true
true
true
true
1,830
2
INTRODUCTION
1
26
[ "B26", "B27", "B28", "B29 B30 B31", "B32", "B33" ]
17,452,369
pmid-8483504|pmid-8652557|pmid-7700386|pmid-11511374|pmid-11259578|pmid-14517266|pmid-15590680|pmid-15572672|pmid-15590680
XPG differs from the other FEN-1 family members in that the N- and I- regions are separated by a stretch of over 600 amino acids designated β€˜spacer region’, which shows no homology to other known proteins or motifs (26).
[ "26", "27", "28", "29–31", "32", "33" ]
220
11,444
1
false
XPG differs from the other FEN-1 family members in that the N- and I- regions are separated by a stretch of over 600 amino acids designated β€˜spacer region’, which shows no homology to other known proteins or motifs.
[ "26" ]
XPG differs from the other FEN-1 family members in that the N- and I- regions are separated by a stretch of over 600 amino acids designated β€˜spacer region’, which shows no homology to other known proteins or motifs.
true
true
true
true
true
1,831
2
INTRODUCTION
1
26
[ "B26", "B27", "B28", "B29 B30 B31", "B32", "B33" ]
17,452,369
pmid-8483504|pmid-8652557|pmid-7700386|pmid-11511374|pmid-11259578|pmid-14517266|pmid-15590680|pmid-15572672|pmid-15590680
An obvious role for this spacer region would be in conferring the substrate specificity and mediating protein–protein interactions required for NER.
[ "26", "27", "28", "29–31", "32", "33" ]
148
11,445
0
false
An obvious role for this spacer region would be in conferring the substrate specificity and mediating protein–protein interactions required for NER.
[]
An obvious role for this spacer region would be in conferring the substrate specificity and mediating protein–protein interactions required for NER.
true
true
true
true
true
1,831
2
INTRODUCTION
1
27
[ "B26", "B27", "B28", "B29 B30 B31", "B32", "B33" ]
17,452,369
pmid-8483504|pmid-8652557|pmid-7700386|pmid-11511374|pmid-11259578|pmid-14517266|pmid-15590680|pmid-15572672|pmid-15590680
Indeed, some parts of the spacer region interact with the XPB, XPD, p62 and p44 subunits of the transcription/repair factor TFIIH (27) and perhaps also with RPA (28).
[ "26", "27", "28", "29–31", "32", "33" ]
166
11,446
1
false
Indeed, some parts of the spacer region interact with the XPB, XPD, p62 and p44 subunits of the transcription/repair factor TFIIH and perhaps also with RPA.
[ "27", "28" ]
Indeed, some parts of the spacer region interact with the XPB, XPD, p62 and p44 subunits of the transcription/repair factor TFIIH and perhaps also with RPA.
true
true
true
true
true
1,831
2
INTRODUCTION
1
29–31
[ "B26", "B27", "B28", "B29 B30 B31", "B32", "B33" ]
17,452,369
pmid-8483504|pmid-8652557|pmid-7700386|pmid-11511374|pmid-11259578|pmid-14517266|pmid-15590680|pmid-15572672|pmid-15590680
The interaction between TFIIH and XPG is of particular relevance since TFIIH needs to be present at sites of DNA damage for the recruitment of XPG following the initial damage recognition by XPC-HR23B (29–31).
[ "26", "27", "28", "29–31", "32", "33" ]
209
11,447
1
false
The interaction between TFIIH and XPG is of particular relevance since TFIIH needs to be present at sites of DNA damage for the recruitment of XPG following the initial damage recognition by XPC-HR23B.
[ "29–31" ]
The interaction between TFIIH and XPG is of particular relevance since TFIIH needs to be present at sites of DNA damage for the recruitment of XPG following the initial damage recognition by XPC-HR23B.
true
true
true
true
true
1,831
2
INTRODUCTION
1
26
[ "B26", "B27", "B28", "B29 B30 B31", "B32", "B33" ]
17,452,369
pmid-8483504|pmid-8652557|pmid-7700386|pmid-11511374|pmid-11259578|pmid-14517266|pmid-15590680|pmid-15572672|pmid-15590680
To address the role of the XPG spacer region, we have generated several mutants of XPG in a previous study and showed that deletions in the spacer region can result in loss of NER activity and defective interaction with TFIIH (32,33).
[ "26", "27", "28", "29–31", "32", "33" ]
234
11,448
0
false
To address the role of the XPG spacer region, we have generated several mutants of XPG in a previous study and showed that deletions in the spacer region can result in loss of NER activity and defective interaction with TFIIH.
[ "32,33" ]
To address the role of the XPG spacer region, we have generated several mutants of XPG in a previous study and showed that deletions in the spacer region can result in loss of NER activity and defective interaction with TFIIH.
true
true
true
true
true
1,831
2
INTRODUCTION
1
26
[ "B26", "B27", "B28", "B29 B30 B31", "B32", "B33" ]
17,452,369
pmid-8483504|pmid-8652557|pmid-7700386|pmid-11511374|pmid-11259578|pmid-14517266|pmid-15590680|pmid-15572672|pmid-15590680
Furthermore, the spacer region of XPG contributes to the substrate specificity of XPG as it is required for efficient bubble cleavage activity.
[ "26", "27", "28", "29–31", "32", "33" ]
143
11,449
0
false
Furthermore, the spacer region of XPG contributes to the substrate specificity of XPG as it is required for efficient bubble cleavage activity.
[]
Furthermore, the spacer region of XPG contributes to the substrate specificity of XPG as it is required for efficient bubble cleavage activity.
true
true
true
true
true
1,831
2
INTRODUCTION
1
26
[ "B26", "B27", "B28", "B29 B30 B31", "B32", "B33" ]
17,452,369
pmid-8483504|pmid-8652557|pmid-7700386|pmid-11511374|pmid-11259578|pmid-14517266|pmid-15590680|pmid-15572672|pmid-15590680
These results demonstrate that the spacer region is, to a significant degree, responsible for the NER-specific functions of XPG.
[ "26", "27", "28", "29–31", "32", "33" ]
128
11,450
0
false
These results demonstrate that the spacer region is, to a significant degree, responsible for the NER-specific functions of XPG.
[]
These results demonstrate that the spacer region is, to a significant degree, responsible for the NER-specific functions of XPG.
true
true
true
true
true
1,831
3
INTRODUCTION
0
null
null
17,452,369
pmid-11511374|pmid-11710927|pmid-11713193|pmid-15590680|pmid-15572672|pmid-15572672|pmid-15590680
In the present study, we tested whether the spacer region is sufficient for mediating NER-specific function of XPG or whether additional parts of the protein contribute.
null
169
11,451
0
false
null
null
In the present study, we tested whether the spacer region is sufficient for mediating NER-specific function of XPG or whether additional parts of the protein contribute.
true
true
true
true
true
1,832
3
INTRODUCTION
0
null
null
17,452,369
pmid-11511374|pmid-11710927|pmid-11713193|pmid-15590680|pmid-15572672|pmid-15572672|pmid-15590680
For this purpose, we inserted the XPG spacer region between the N- and I- regions of the FEN-1 protein and investigated the biochemical and cell biological properties of this FEN-1-XPG hybrid protein.
null
200
11,452
0
false
null
null
For this purpose, we inserted the XPG spacer region between the N- and I- regions of the FEN-1 protein and investigated the biochemical and cell biological properties of this FEN-1-XPG hybrid protein.
true
true
true
true
true
1,832
3
INTRODUCTION
0
null
null
17,452,369
pmid-11511374|pmid-11710927|pmid-11713193|pmid-15590680|pmid-15572672|pmid-15572672|pmid-15590680
Our studies reveal that FEN-1-XPG displays specificities on model substrates reminiscent of both XPG and FEN-1, demonstrating that it is a gain of function modification with respect to both XPG and FEN-1.
null
204
11,453
0
false
null
null
Our studies reveal that FEN-1-XPG displays specificities on model substrates reminiscent of both XPG and FEN-1, demonstrating that it is a gain of function modification with respect to both XPG and FEN-1.
true
true
true
true
true
1,832
3
INTRODUCTION
0
null
null
17,452,369
pmid-11511374|pmid-11710927|pmid-11713193|pmid-15590680|pmid-15572672|pmid-15572672|pmid-15590680
FEN-1-XPG displayed partial NER activity in vivo, showing that the insertion of the XPG spacer region in the FEN-1 backbone allows the hybrid protein to carry out NER-related functions.
null
185
11,454
0
false
null
null
FEN-1-XPG displayed partial NER activity in vivo, showing that the insertion of the XPG spacer region in the FEN-1 backbone allows the hybrid protein to carry out NER-related functions.
true
true
true
true
true
1,832
0
DISCUSSION
0
null
null
17,452,369
pmid-9080773|pmid-15189154|pmid-12878006|pmid-16464005|NA|pmid-14726017|pmid-8090225|pmid-9034344|pmid-9188507|pmid-9360969|pmid-10026181|pmid-8090225|pmid-7651464|pmid-12644470|pmid-7961795|pmid-8530463|pmid-7876218|pmid-11825897|pmid-11438646
In this study, we have generated a hybrid human protein containing the nuclease domains of FEN-1 and the spacer region of the XPG protein to ask if the spacer region of XPG is sufficient to confer NER-specific functions to a different nuclease scaffold.
null
253
11,455
0
false
null
null
In this study, we have generated a hybrid human protein containing the nuclease domains of FEN-1 and the spacer region of the XPG protein to ask if the spacer region of XPG is sufficient to confer NER-specific functions to a different nuclease scaffold.
true
true
true
true
true
1,833
1
DISCUSSION
1
24
[ "B24", "B32", "B46", "B22", "B41", "B13" ]
17,452,369
pmid-9080773|pmid-8657312|pmid-8674116|pmid-9778254|pmid-9699635|pmid-12411510|pmid-14718165|pmid-15131255|pmid-14718165|pmid-15590680|pmid-16246722|pmid-9699635|pmid-11258937|pmid-12644470
The FEN-1-XPG protein displayed biochemical activities that are characteristic of both XPG and FEN-1.
[ "24", "32", "46", "22", "41", "13" ]
101
11,456
0
false
The FEN-1-XPG protein displayed biochemical activities that are characteristic of both XPG and FEN-1.
[]
The FEN-1-XPG protein displayed biochemical activities that are characteristic of both XPG and FEN-1.
true
true
true
true
true
1,834
1
DISCUSSION
1
24
[ "B24", "B32", "B46", "B22", "B41", "B13" ]
17,452,369
pmid-9080773|pmid-8657312|pmid-8674116|pmid-9778254|pmid-9699635|pmid-12411510|pmid-14718165|pmid-15131255|pmid-14718165|pmid-15590680|pmid-16246722|pmid-9699635|pmid-11258937|pmid-12644470
Namely, FEN1-XPG was able to cleave bubble substrates, which are not processed by FEN-1.
[ "24", "32", "46", "22", "41", "13" ]
88
11,457
0
false
Namely, FEN1-XPG was able to cleave bubble substrates, which are not processed by FEN-1.
[]
Namely, FEN1-XPG was able to cleave bubble substrates, which are not processed by FEN-1.
true
true
true
true
true
1,834
1
DISCUSSION
1
24
[ "B24", "B32", "B46", "B22", "B41", "B13" ]
17,452,369
pmid-9080773|pmid-8657312|pmid-8674116|pmid-9778254|pmid-9699635|pmid-12411510|pmid-14718165|pmid-15131255|pmid-14718165|pmid-15590680|pmid-16246722|pmid-9699635|pmid-11258937|pmid-12644470
At the same time, FEN-1-XPG showed a preference for double-flap over single-flap substrates, similar to FEN-1, while the activity of XPG is equal for single or double flaps.
[ "24", "32", "46", "22", "41", "13" ]
173
11,458
0
false
At the same time, FEN-1-XPG showed a preference for double-flap over single-flap substrates, similar to FEN-1, while the activity of XPG is equal for single or double flaps.
[]
At the same time, FEN-1-XPG showed a preference for double-flap over single-flap substrates, similar to FEN-1, while the activity of XPG is equal for single or double flaps.
true
true
true
true
true
1,834
1
DISCUSSION
1
24
[ "B24", "B32", "B46", "B22", "B41", "B13" ]
17,452,369
pmid-9080773|pmid-8657312|pmid-8674116|pmid-9778254|pmid-9699635|pmid-12411510|pmid-14718165|pmid-15131255|pmid-14718165|pmid-15590680|pmid-16246722|pmid-9699635|pmid-11258937|pmid-12644470
We found that the preference for double flaps was a result of increased binding, consistent with the presence of a defined 1-nt-binding pocket in FEN-1 revealed by structural studies (24).
[ "24", "32", "46", "22", "41", "13" ]
188
11,459
1
false
We found that the preference for double flaps was a result of increased binding, consistent with the presence of a defined 1-nt-binding pocket in FEN-1 revealed by structural studies.
[ "24" ]
We found that the preference for double flaps was a result of increased binding, consistent with the presence of a defined 1-nt-binding pocket in FEN-1 revealed by structural studies.
true
true
true
true
true
1,834
1
DISCUSSION
1
24
[ "B24", "B32", "B46", "B22", "B41", "B13" ]
17,452,369
pmid-9080773|pmid-8657312|pmid-8674116|pmid-9778254|pmid-9699635|pmid-12411510|pmid-14718165|pmid-15131255|pmid-14718165|pmid-15590680|pmid-16246722|pmid-9699635|pmid-11258937|pmid-12644470
Our studies suggest that this binding pocket acts independently of the events surrounding catalysis.
[ "24", "32", "46", "22", "41", "13" ]
100
11,460
0
false
Our studies suggest that this binding pocket acts independently of the events surrounding catalysis.
[]
Our studies suggest that this binding pocket acts independently of the events surrounding catalysis.
true
true
true
true
true
1,834
1
DISCUSSION
1
24
[ "B24", "B32", "B46", "B22", "B41", "B13" ]
17,452,369
pmid-9080773|pmid-8657312|pmid-8674116|pmid-9778254|pmid-9699635|pmid-12411510|pmid-14718165|pmid-15131255|pmid-14718165|pmid-15590680|pmid-16246722|pmid-9699635|pmid-11258937|pmid-12644470
The basis for the preferential cleavage of bubbles by XPG and FEN-1-XPG over FEN-1 is less straightforward.
[ "24", "32", "46", "22", "41", "13" ]
107
11,461
0
false
The basis for the preferential cleavage of bubbles by XPG and FEN-1-XPG over FEN-1 is less straightforward.
[]
The basis for the preferential cleavage of bubbles by XPG and FEN-1-XPG over FEN-1 is less straightforward.
true
true
true
true
true
1,834
1
DISCUSSION
1
24
[ "B24", "B32", "B46", "B22", "B41", "B13" ]
17,452,369
pmid-9080773|pmid-8657312|pmid-8674116|pmid-9778254|pmid-9699635|pmid-12411510|pmid-14718165|pmid-15131255|pmid-14718165|pmid-15590680|pmid-16246722|pmid-9699635|pmid-11258937|pmid-12644470
Our binding studies revealed that XPG and FEN-1-XPG bind bubble substrates with comparable affinities to FEN-1.
[ "24", "32", "46", "22", "41", "13" ]
111
11,462
0
false
Our binding studies revealed that XPG and FEN-1-XPG bind bubble substrates with comparable affinities to FEN-1.
[]
Our binding studies revealed that XPG and FEN-1-XPG bind bubble substrates with comparable affinities to FEN-1.
true
true
true
true
true
1,834
1
DISCUSSION
1
32
[ "B24", "B32", "B46", "B22", "B41", "B13" ]
17,452,369
pmid-9080773|pmid-8657312|pmid-8674116|pmid-9778254|pmid-9699635|pmid-12411510|pmid-14718165|pmid-15131255|pmid-14718165|pmid-15590680|pmid-16246722|pmid-9699635|pmid-11258937|pmid-12644470
Similarly, we have previously shown that the change in substrate specificity in XPG proteins with deletion in the spacer region is not due to initial binding events (32).
[ "24", "32", "46", "22", "41", "13" ]
170
11,463
1
false
Similarly, we have previously shown that the change in substrate specificity in XPG proteins with deletion in the spacer region is not due to initial binding events.
[ "32" ]
Similarly, we have previously shown that the change in substrate specificity in XPG proteins with deletion in the spacer region is not due to initial binding events.
true
true
true
true
true
1,834
1
DISCUSSION
1
24
[ "B24", "B32", "B46", "B22", "B41", "B13" ]
17,452,369
pmid-9080773|pmid-8657312|pmid-8674116|pmid-9778254|pmid-9699635|pmid-12411510|pmid-14718165|pmid-15131255|pmid-14718165|pmid-15590680|pmid-16246722|pmid-9699635|pmid-11258937|pmid-12644470
We attempted to express the spacer region separately, but were unable to obtain any soluble protein of that region using a variety of conditions in the bacterial or baculovirus expression systems (data not shown).
[ "24", "32", "46", "22", "41", "13" ]
213
11,464
0
false
We attempted to express the spacer region separately, but were unable to obtain any soluble protein of that region using a variety of conditions in the bacterial or baculovirus expression systems (data not shown).
[]
We attempted to express the spacer region separately, but were unable to obtain any soluble protein of that region using a variety of conditions in the bacterial or baculovirus expression systems (data not shown).
true
true
true
true
true
1,834
1
DISCUSSION
1
24
[ "B24", "B32", "B46", "B22", "B41", "B13" ]
17,452,369
pmid-9080773|pmid-8657312|pmid-8674116|pmid-9778254|pmid-9699635|pmid-12411510|pmid-14718165|pmid-15131255|pmid-14718165|pmid-15590680|pmid-16246722|pmid-9699635|pmid-11258937|pmid-12644470
Furthermore, we were unable to detect this XPG fragment in living cells by immunofluorescence after transduction of a lentiviral construct expressing the spacer region into XPG/CS cells (data not shown).
[ "24", "32", "46", "22", "41", "13" ]
203
11,465
0
false
Furthermore, we were unable to detect this XPG fragment in living cells by immunofluorescence after transduction of a lentiviral construct expressing the spacer region into XPG/CS cells (data not shown).
[]
Furthermore, we were unable to detect this XPG fragment in living cells by immunofluorescence after transduction of a lentiviral construct expressing the spacer region into XPG/CS cells (data not shown).
true
true
true
true
true
1,834
1
DISCUSSION
1
24
[ "B24", "B32", "B46", "B22", "B41", "B13" ]
17,452,369
pmid-9080773|pmid-8657312|pmid-8674116|pmid-9778254|pmid-9699635|pmid-12411510|pmid-14718165|pmid-15131255|pmid-14718165|pmid-15590680|pmid-16246722|pmid-9699635|pmid-11258937|pmid-12644470
The predicted high degree of disorder in that region is likely responsible for our failure to analyze its properties directly.
[ "24", "32", "46", "22", "41", "13" ]
126
11,466
0
false
The predicted high degree of disorder in that region is likely responsible for our failure to analyze its properties directly.
[]
The predicted high degree of disorder in that region is likely responsible for our failure to analyze its properties directly.
true
true
true
true
true
1,834
1
DISCUSSION
1
46
[ "B24", "B32", "B46", "B22", "B41", "B13" ]
17,452,369
pmid-9080773|pmid-8657312|pmid-8674116|pmid-9778254|pmid-9699635|pmid-12411510|pmid-14718165|pmid-15131255|pmid-14718165|pmid-15590680|pmid-16246722|pmid-9699635|pmid-11258937|pmid-12644470
Although one study has suggested a role for the spacer region in substrate binding and recognition based on the inhibition of the DNA-binding activity of XPG using a monoclonal antibody directed against the spacer region (46), we believe that a prominent role for the spacer region in the catalytic step is most consiste...
[ "24", "32", "46", "22", "41", "13" ]
349
11,467
1
false
Although one study has suggested a role for the spacer region in substrate binding and recognition based on the inhibition of the DNA-binding activity of XPG using a monoclonal antibody directed against the spacer region, we believe that a prominent role for the spacer region in the catalytic step is most consistent wi...
[ "46" ]
Although one study has suggested a role for the spacer region in substrate binding and recognition based on the inhibition of the DNA-binding activity of XPG using a monoclonal antibody directed against the spacer region, we believe that a prominent role for the spacer region in the catalytic step is most consistent wi...
true
true
true
true
true
1,834
1
DISCUSSION
1
24
[ "B24", "B32", "B46", "B22", "B41", "B13" ]
17,452,369
pmid-9080773|pmid-8657312|pmid-8674116|pmid-9778254|pmid-9699635|pmid-12411510|pmid-14718165|pmid-15131255|pmid-14718165|pmid-15590680|pmid-16246722|pmid-9699635|pmid-11258937|pmid-12644470
For example, it has previously been found that the flexible loop between the nuclease domains in FEN-1 undergoes a rearrangement to facilitate catalysis during the incision reaction (22,41).
[ "24", "32", "46", "22", "41", "13" ]
190
11,468
0
false
For example, it has previously been found that the flexible loop between the nuclease domains in FEN-1 undergoes a rearrangement to facilitate catalysis during the incision reaction.
[ "22,41" ]
For example, it has previously been found that the flexible loop between the nuclease domains in FEN-1 undergoes a rearrangement to facilitate catalysis during the incision reaction.
true
true
true
true
true
1,834
1
DISCUSSION
1
24
[ "B24", "B32", "B46", "B22", "B41", "B13" ]
17,452,369
pmid-9080773|pmid-8657312|pmid-8674116|pmid-9778254|pmid-9699635|pmid-12411510|pmid-14718165|pmid-15131255|pmid-14718165|pmid-15590680|pmid-16246722|pmid-9699635|pmid-11258937|pmid-12644470
The fact that FEN-1-XPG, in which this flexible loop has been disrupted by the introduction of the XPG spacer region, shows reduced cleavage activity of flap substrates compared to FEN-1 supports an important role of this loop in catalysis.
[ "24", "32", "46", "22", "41", "13" ]
240
11,469
0
false
The fact that FEN-1-XPG, in which this flexible loop has been disrupted by the introduction of the XPG spacer region, shows reduced cleavage activity of flap substrates compared to FEN-1 supports an important role of this loop in catalysis.
[]
The fact that FEN-1-XPG, in which this flexible loop has been disrupted by the introduction of the XPG spacer region, shows reduced cleavage activity of flap substrates compared to FEN-1 supports an important role of this loop in catalysis.
true
true
true
true
true
1,834
1
DISCUSSION
1
24
[ "B24", "B32", "B46", "B22", "B41", "B13" ]
17,452,369
pmid-9080773|pmid-8657312|pmid-8674116|pmid-9778254|pmid-9699635|pmid-12411510|pmid-14718165|pmid-15131255|pmid-14718165|pmid-15590680|pmid-16246722|pmid-9699635|pmid-11258937|pmid-12644470
Our studies suggest that this rearrangement occurs subsequent to initial binding and does not influence the binding affinity.
[ "24", "32", "46", "22", "41", "13" ]
125
11,470
0
false
Our studies suggest that this rearrangement occurs subsequent to initial binding and does not influence the binding affinity.
[]
Our studies suggest that this rearrangement occurs subsequent to initial binding and does not influence the binding affinity.
true
true
true
true
true
1,834
1
DISCUSSION
1
13
[ "B24", "B32", "B46", "B22", "B41", "B13" ]
17,452,369
pmid-9080773|pmid-8657312|pmid-8674116|pmid-9778254|pmid-9699635|pmid-12411510|pmid-14718165|pmid-15131255|pmid-14718165|pmid-15590680|pmid-16246722|pmid-9699635|pmid-11258937|pmid-12644470
This mechanism of initial binding and subsequent rearrangement to a catalytically active conformation seems to be shared by XPG, as we have previously demonstrated that it displays distinct requirement for binding and catalysis (13).
[ "24", "32", "46", "22", "41", "13" ]
233
11,471
1
false
This mechanism of initial binding and subsequent rearrangement to a catalytically active conformation seems to be shared by XPG, as we have previously demonstrated that it displays distinct requirement for binding and catalysis.
[ "13" ]
This mechanism of initial binding and subsequent rearrangement to a catalytically active conformation seems to be shared by XPG, as we have previously demonstrated that it displays distinct requirement for binding and catalysis.
true
true
true
true
true
1,834
2
DISCUSSION
1
32
[ "B32" ]
17,452,369
pmid-8483504|pmid-8652557|pmid-7700386|pmid-11511374|pmid-11259578|pmid-14517266|pmid-15590680|pmid-15572672|pmid-15590680
The low level of bubble cleavage activity of FEN-1-XPG indicates that additional regions of XPG contribute to efficient cleavage activity.
[ "32" ]
138
11,472
0
false
The low level of bubble cleavage activity of FEN-1-XPG indicates that additional regions of XPG contribute to efficient cleavage activity.
[]
The low level of bubble cleavage activity of FEN-1-XPG indicates that additional regions of XPG contribute to efficient cleavage activity.
true
true
true
true
true
1,835
2
DISCUSSION
1
32
[ "B32" ]
17,452,369
pmid-8483504|pmid-8652557|pmid-7700386|pmid-11511374|pmid-11259578|pmid-14517266|pmid-15590680|pmid-15572672|pmid-15590680
Consistent with this, XPG with a deletion in the spacer region showed reduced, but substantial bubble cleavage activity (32).
[ "32" ]
125
11,473
1
false
Consistent with this, XPG with a deletion in the spacer region showed reduced, but substantial bubble cleavage activity.
[ "32" ]
Consistent with this, XPG with a deletion in the spacer region showed reduced, but substantial bubble cleavage activity.
true
true
true
true
true
1,835
2
DISCUSSION
1
32
[ "B32" ]
17,452,369
pmid-8483504|pmid-8652557|pmid-7700386|pmid-11511374|pmid-11259578|pmid-14517266|pmid-15590680|pmid-15572672|pmid-15590680
It is, therefore, possible that the N- and I- regions of XPG make contributions to its unique substrate specificity that set it apart from other FEN-1 family members.
[ "32" ]
166
11,474
0
false
It is, therefore, possible that the N- and I- regions of XPG make contributions to its unique substrate specificity that set it apart from other FEN-1 family members.
[]
It is, therefore, possible that the N- and I- regions of XPG make contributions to its unique substrate specificity that set it apart from other FEN-1 family members.
true
true
true
true
true
1,835
2
DISCUSSION
1
32
[ "B32" ]
17,452,369
pmid-8483504|pmid-8652557|pmid-7700386|pmid-11511374|pmid-11259578|pmid-14517266|pmid-15590680|pmid-15572672|pmid-15590680
Alternatively, the fact that the spacer region is slightly shortened in FEN-1-XPG compared to XPG (it lacks 11 amino acids immediately following the N-region and 33 amino acids prior to the I-region) might limit its proficiency in cleaving bubble substrates.
[ "32" ]
258
11,475
0
false
Alternatively, the fact that the spacer region is slightly shortened in FEN-1-XPG compared to XPG (it lacks 11 amino acids immediately following the N-region and 33 amino acids prior to the I-region) might limit its proficiency in cleaving bubble substrates.
[]
Alternatively, the fact that the spacer region is slightly shortened in FEN-1-XPG compared to XPG might limit its proficiency in cleaving bubble substrates.
true
true
true
true
true
1,835
3
DISCUSSION
1
29
[ "B29", "B45", "B47", "B32", "B33", "B33", "B32" ]
17,452,369
pmid-11511374|pmid-11710927|pmid-11713193|pmid-15590680|pmid-15572672|pmid-15572672|pmid-15590680
The recruitment of NER proteins to sites of repair can readily be investigated using local UV irradiation of nuclei of living cells through polycarbonate filters and subsequent detection of the lesions induced and NER proteins recruited to them by immunohistochemistry (29,45,47).
[ "29", "45", "47", "32", "33", "33", "32" ]
280
11,476
0
false
The recruitment of NER proteins to sites of repair can readily be investigated using local UV irradiation of nuclei of living cells through polycarbonate filters and subsequent detection of the lesions induced and NER proteins recruited to them by immunohistochemistry.
[ "29,45,47" ]
The recruitment of NER proteins to sites of repair can readily be investigated using local UV irradiation of nuclei of living cells through polycarbonate filters and subsequent detection of the lesions induced and NER proteins recruited to them by immunohistochemistry.
true
true
true
true
true
1,836
3
DISCUSSION
1
29
[ "B29", "B45", "B47", "B32", "B33", "B33", "B32" ]
17,452,369
pmid-11511374|pmid-11710927|pmid-11713193|pmid-15590680|pmid-15572672|pmid-15572672|pmid-15590680
We used this method to evaluate regions in XPG that might contribute to the proper recruitment of the protein to sites of NER.
[ "29", "45", "47", "32", "33", "33", "32" ]
126
11,477
0
false
We used this method to evaluate regions in XPG that might contribute to the proper recruitment of the protein to sites of NER.
[]
We used this method to evaluate regions in XPG that might contribute to the proper recruitment of the protein to sites of NER.
true
true
true
true
true
1,836
3
DISCUSSION
1
29
[ "B29", "B45", "B47", "B32", "B33", "B33", "B32" ]
17,452,369
pmid-11511374|pmid-11710927|pmid-11713193|pmid-15590680|pmid-15572672|pmid-15572672|pmid-15590680
XPG is recruited within 30 min following irradiation, and it depends on the prior recruitment of XPC/HR23B and TFIIH.
[ "29", "45", "47", "32", "33", "33", "32" ]
117
11,478
0
false
XPG is recruited within 30 min following irradiation, and it depends on the prior recruitment of XPC/HR23B and TFIIH.
[]
XPG is recruited within 30 min following irradiation, and it depends on the prior recruitment of XPC/HR23B and TFIIH.
true
true
true
true
true
1,836
3
DISCUSSION
1
29
[ "B29", "B45", "B47", "B32", "B33", "B33", "B32" ]
17,452,369
pmid-11511374|pmid-11710927|pmid-11713193|pmid-15590680|pmid-15572672|pmid-15572672|pmid-15590680
Twenty-four hours after irradiation, NER proteins are no longer visible in foci, indicating that repair has been completed (32,33).
[ "29", "45", "47", "32", "33", "33", "32" ]
131
11,479
0
false
Twenty-four hours after irradiation, NER proteins are no longer visible in foci, indicating that repair has been completed.
[ "32,33" ]
Twenty-four hours after irradiation, NER proteins are no longer visible in foci, indicating that repair has been completed.
true
true
true
true
true
1,836
3
DISCUSSION
1
33
[ "B29", "B45", "B47", "B32", "B33", "B33", "B32" ]
17,452,369
pmid-11511374|pmid-11710927|pmid-11713193|pmid-15590680|pmid-15572672|pmid-15572672|pmid-15590680
Mutations in the spacer region of XPG can affect recruitment in two ways; in one case, XPG is recruited to UV-damaged sites with normal kinetics, but is then unable to properly execute its function in NER due to unstable association with the preincision complex (33).
[ "29", "45", "47", "32", "33", "33", "32" ]
267
11,480
1
false
Mutations in the spacer region of XPG can affect recruitment in two ways; in one case, XPG is recruited to UV-damaged sites with normal kinetics, but is then unable to properly execute its function in NER due to unstable association with the preincision complex.
[ "33" ]
Mutations in the spacer region of XPG can affect recruitment in two ways; in one case, XPG is recruited to UV-damaged sites with normal kinetics, but is then unable to properly execute its function in NER due to unstable association with the preincision complex.
true
true
true
true
true
1,836
3
DISCUSSION
1
29
[ "B29", "B45", "B47", "B32", "B33", "B33", "B32" ]
17,452,369
pmid-11511374|pmid-11710927|pmid-11713193|pmid-15590680|pmid-15572672|pmid-15572672|pmid-15590680
In the second case, the recruitment of XPG to UV-damaged sites cannot be directly observed.
[ "29", "45", "47", "32", "33", "33", "32" ]
91
11,481
0
false
In the second case, the recruitment of XPG to UV-damaged sites cannot be directly observed.
[]
In the second case, the recruitment of XPG to UV-damaged sites cannot be directly observed.
true
true
true
true
true
1,836
3
DISCUSSION
1
32
[ "B29", "B45", "B47", "B32", "B33", "B33", "B32" ]
17,452,369
pmid-11511374|pmid-11710927|pmid-11713193|pmid-15590680|pmid-15572672|pmid-15572672|pmid-15590680
However, since the damage is ultimately repaired, albeit with slower kinetics than in the wild-type situation, it can be inferred that XPG was at some point present at the damaged site (32).
[ "29", "45", "47", "32", "33", "33", "32" ]
190
11,482
1
false
However, since the damage is ultimately repaired, albeit with slower kinetics than in the wild-type situation, it can be inferred that XPG was at some point present at the damaged site.
[ "32" ]
However, since the damage is ultimately repaired, albeit with slower kinetics than in the wild-type situation, it can be inferred that XPG was at some point present at the damaged site.
true
true
true
true
true
1,836
3
DISCUSSION
1
29
[ "B29", "B45", "B47", "B32", "B33", "B33", "B32" ]
17,452,369
pmid-11511374|pmid-11710927|pmid-11713193|pmid-15590680|pmid-15572672|pmid-15572672|pmid-15590680
The fact that defects in the interaction with TFIIH caused by different mutations in XPG can influence the recruitment of XPG as well as the subsequent processing of NER substrates is a testimony to the complexity of the interaction between the two proteins.
[ "29", "45", "47", "32", "33", "33", "32" ]
258
11,483
0
false
The fact that defects in the interaction with TFIIH caused by different mutations in XPG can influence the recruitment of XPG as well as the subsequent processing of NER substrates is a testimony to the complexity of the interaction between the two proteins.
[]
The fact that defects in the interaction with TFIIH caused by different mutations in XPG can influence the recruitment of XPG as well as the subsequent processing of NER substrates is a testimony to the complexity of the interaction between the two proteins.
true
true
true
true
true
1,836
4
DISCUSSION
1
27
[ "B27", "B27", "B29", "B30" ]
17,452,369
pmid-8652557|pmid-8652557|pmid-11511374|pmid-11259578
Several years ago, it was suggested that sequences within and downstream of the I-region are also involved in mediating the interaction with TFIIH and hence contribute to the recruitment of XPG to sites of NER (27).
[ "27", "27", "29", "30" ]
215
11,484
1
false
Several years ago, it was suggested that sequences within and downstream of the I-region are also involved in mediating the interaction with TFIIH and hence contribute to the recruitment of XPG to sites of NER.
[ "27" ]
Several years ago, it was suggested that sequences within and downstream of the I-region are also involved in mediating the interaction with TFIIH and hence contribute to the recruitment of XPG to sites of NER.
true
true
true
true
true
1,837
4
DISCUSSION
1
27
[ "B27", "B27", "B29", "B30" ]
17,452,369
pmid-8652557|pmid-8652557|pmid-11511374|pmid-11259578
Indeed, in ongoing work, we have observed that replacing the C-terminus of FEN-1 in FEN-1-XPG with the C-terminus of XPG yielded a protein that displayed wild-type levels of recruitment to sites of UV damage (data not shown).
[ "27", "27", "29", "30" ]
225
11,485
0
false
Indeed, in ongoing work, we have observed that replacing the C-terminus of FEN-1 in FEN-1-XPG with the C-terminus of XPG yielded a protein that displayed wild-type levels of recruitment to sites of UV damage (data not shown).
[]
Indeed, in ongoing work, we have observed that replacing the C-terminus of FEN-1 in FEN-1-XPG with the C-terminus of XPG yielded a protein that displayed wild-type levels of recruitment to sites of UV damage (data not shown).
true
true
true
true
true
1,837
4
DISCUSSION
1
27
[ "B27", "B27", "B29", "B30" ]
17,452,369
pmid-8652557|pmid-8652557|pmid-11511374|pmid-11259578
While the first generation design of this hybrid protein containing the FEN-1 nuclease core and spacer and C-terminal regions of XPG appeared not to result in a fully functional protein and only restored UV resistance to XP-G/CS cells at levels comparable to the FEN-1-XPG protein, it provides evidence that two independ...
[ "27", "27", "29", "30" ]
456
11,486
0
false
While the first generation design of this hybrid protein containing the FEN-1 nuclease core and spacer and C-terminal regions of XPG appeared not to result in a fully functional protein and only restored UV resistance to XP-G/CS cells at levels comparable to the FEN-1-XPG protein, it provides evidence that two independ...
[ "27,29,30" ]
While the first generation design of this hybrid protein containing the FEN-1 nuclease core and spacer and C-terminal regions of XPG appeared not to result in a fully functional protein and only restored UV resistance to XP-G/CS cells at levels comparable to the FEN-1-XPG protein, it provides evidence that two independ...
true
true
true
true
true
1,837
5
DISCUSSION
1
4
[ "B4", "B31", "B48", "B49", "B27", "B50" ]
17,452,369
pmid-16464005|pmid-14517266|pmid-10320375|pmid-15090549|pmid-8652557|pmid-15195146
NER is a highly dynamic process that acts by sequential assembly of the factors involved at the site of damage (4,31,48).
[ "4", "31", "48", "49", "27", "50" ]
121
11,487
0
false
NER is a highly dynamic process that acts by sequential assembly of the factors involved at the site of damage.
[ "4,31,48" ]
NER is a highly dynamic process that acts by sequential assembly of the factors involved at the site of damage.
true
true
true
true
true
1,838
5
DISCUSSION
1
49
[ "B4", "B31", "B48", "B49", "B27", "B50" ]
17,452,369
pmid-16464005|pmid-14517266|pmid-10320375|pmid-15090549|pmid-8652557|pmid-15195146
To ensure progression through the pathway, it is advantageous to employ multiple weak interactions between the proteins and DNA intermediates involved rather than strong specific interactions such as those employed by transcription factors binding to their DNA substrates (49).
[ "4", "31", "48", "49", "27", "50" ]
277
11,488
1
false
To ensure progression through the pathway, it is advantageous to employ multiple weak interactions between the proteins and DNA intermediates involved rather than strong specific interactions such as those employed by transcription factors binding to their DNA substrates.
[ "49" ]
To ensure progression through the pathway, it is advantageous to employ multiple weak interactions between the proteins and DNA intermediates involved rather than strong specific interactions such as those employed by transcription factors binding to their DNA substrates.
true
true
true
true
true
1,838
5
DISCUSSION
1
4
[ "B4", "B31", "B48", "B49", "B27", "B50" ]
17,452,369
pmid-16464005|pmid-14517266|pmid-10320375|pmid-15090549|pmid-8652557|pmid-15195146
The transient nature of many of the interactions involved could serve as a basis for the NER machinery to assemble dynamically and pass on substrates from one subcomplex to the next.
[ "4", "31", "48", "49", "27", "50" ]
182
11,489
0
false
The transient nature of many of the interactions involved could serve as a basis for the NER machinery to assemble dynamically and pass on substrates from one subcomplex to the next.
[]
The transient nature of many of the interactions involved could serve as a basis for the NER machinery to assemble dynamically and pass on substrates from one subcomplex to the next.
true
true
true
true
true
1,838
5
DISCUSSION
1
4
[ "B4", "B31", "B48", "B49", "B27", "B50" ]
17,452,369
pmid-16464005|pmid-14517266|pmid-10320375|pmid-15090549|pmid-8652557|pmid-15195146
The modular structure of the XPG protein and the modular nature of its interaction with TFIIH and DNA fit perfectly within that paradigm.
[ "4", "31", "48", "49", "27", "50" ]
137
11,490
0
false
The modular structure of the XPG protein and the modular nature of its interaction with TFIIH and DNA fit perfectly within that paradigm.
[]
The modular structure of the XPG protein and the modular nature of its interaction with TFIIH and DNA fit perfectly within that paradigm.
true
true
true
true
true
1,838
5
DISCUSSION
1
27
[ "B4", "B31", "B48", "B49", "B27", "B50" ]
17,452,369
pmid-16464005|pmid-14517266|pmid-10320375|pmid-15090549|pmid-8652557|pmid-15195146
At least two regions of XPG, the spacer region and the C-terminus, interact with the p44, p62, XPD and XPB subunits of TFIIH (27).
[ "4", "31", "48", "49", "27", "50" ]
130
11,491
1
false
At least two regions of XPG, the spacer region and the C-terminus, interact with the p44, p62, XPD and XPB subunits of TFIIH.
[ "27" ]
At least two regions of XPG, the spacer region and the C-terminus, interact with the p44, p62, XPD and XPB subunits of TFIIH.
true
true
true
true
true
1,838
5
DISCUSSION
1
50
[ "B4", "B31", "B48", "B49", "B27", "B50" ]
17,452,369
pmid-16464005|pmid-14517266|pmid-10320375|pmid-15090549|pmid-8652557|pmid-15195146
Recent studies have shown that the first 108 amino acids of the p62 subunit of TFIIH make up a pleckstrin homology and phosphotyrosine binding (PH/PTB) domain that specifically interacts with XPG (50).
[ "4", "31", "48", "49", "27", "50" ]
201
11,492
1
false
Recent studies have shown that the first 108 amino acids of the p62 subunit of TFIIH make up a pleckstrin homology and phosphotyrosine binding (PH/PTB) domain that specifically interacts with XPG.
[ "50" ]
Recent studies have shown that the first 108 amino acids of the p62 subunit of TFIIH make up a pleckstrin homology and phosphotyrosine binding (PH/PTB) domain that specifically interacts with XPG.
true
true
true
true
true
1,838
5
DISCUSSION
1
4
[ "B4", "B31", "B48", "B49", "B27", "B50" ]
17,452,369
pmid-16464005|pmid-14517266|pmid-10320375|pmid-15090549|pmid-8652557|pmid-15195146
This PH/PTB domain is not required for transcription or the integrity of TFIIH and NMR studies showed that it forms a defined 3D structure, providing a first glimpse of a modular domain involved in the interaction between TFIIH and XPG.
[ "4", "31", "48", "49", "27", "50" ]
236
11,493
0
false
This PH/PTB domain is not required for transcription or the integrity of TFIIH and NMR studies showed that it forms a defined 3D structure, providing a first glimpse of a modular domain involved in the interaction between TFIIH and XPG.
[]
This PH/PTB domain is not required for transcription or the integrity of TFIIH and NMR studies showed that it forms a defined 3D structure, providing a first glimpse of a modular domain involved in the interaction between TFIIH and XPG.
true
true
true
true
true
1,838
5
DISCUSSION
1
4
[ "B4", "B31", "B48", "B49", "B27", "B50" ]
17,452,369
pmid-16464005|pmid-14517266|pmid-10320375|pmid-15090549|pmid-8652557|pmid-15195146
An important future challenge will be to further determine the molecular basis of the interaction of various modules of TFIIH and XPG.
[ "4", "31", "48", "49", "27", "50" ]
134
11,494
0
false
An important future challenge will be to further determine the molecular basis of the interaction of various modules of TFIIH and XPG.
[]
An important future challenge will be to further determine the molecular basis of the interaction of various modules of TFIIH and XPG.
true
true
true
true
true
1,838
0
INTRODUCTION
1
1
[ "b1", "b2", "b3", "b4", "b5", "b7" ]
17,088,286
pmid-11242102|pmid-15189136|pmid-16439205|pmid-16439204|pmid-10761921|pmid-10786799|pmid-15899791|pmid-15498778|pmid-15498778|pmid-11340626|pmid-9363683|pmid-15162010
Endogenous cellular processes and exogenous factors, such as ionizing radiation (IR) generate highly cytotoxic double strand breaks (DSBs) in the DNA that undermine genomic integrity.
[ "1", "2", "3", "4", "5", "7" ]
183
11,495
0
false
Endogenous cellular processes and exogenous factors, such as ionizing radiation (IR) generate highly cytotoxic double strand breaks (DSBs) in the DNA that undermine genomic integrity.
[]
Endogenous cellular processes and exogenous factors, such as ionizing radiation (IR) generate highly cytotoxic double strand breaks (DSBs) in the DNA that undermine genomic integrity.
true
true
true
true
true
1,839
0
INTRODUCTION
1
1
[ "b1", "b2", "b3", "b4", "b5", "b7" ]
17,088,286
pmid-11242102|pmid-15189136|pmid-16439205|pmid-16439204|pmid-10761921|pmid-10786799|pmid-15899791|pmid-15498778|pmid-15498778|pmid-11340626|pmid-9363683|pmid-15162010
Higher eukaryotes utilize a pathway of non-homologous end joining (NHEJ) to repair the majority of DSBs that employs the products of DNA-PKcs, KU70, KU80, LIG4, XRCC4 and Artemis (1,2), as well as the recently characterized factor XLF/Cernunos (3,4).
[ "1", "2", "3", "4", "5", "7" ]
250
11,496
0
false
Higher eukaryotes utilize a pathway of non-homologous end joining (NHEJ) to repair the majority of DSBs that employs the products of DNA-PKcs, KU70, KU80, LIG4, XRCC4 and Artemis, as well as the recently characterized factor XLF/Cernunos.
[ "1,2", "3,4" ]
Higher eukaryotes utilize a pathway of non-homologous end joining (NHEJ) to repair the majority of DSBs that employs the products of DNA-PKcs, KU70, KU80, LIG4, XRCC4 and Artemis, as well as the recently characterized factor XLF/Cernunos.
true
true
true
true
true
1,839
0
INTRODUCTION
1
1
[ "b1", "b2", "b3", "b4", "b5", "b7" ]
17,088,286
pmid-11242102|pmid-15189136|pmid-16439205|pmid-16439204|pmid-10761921|pmid-10786799|pmid-15899791|pmid-15498778|pmid-15498778|pmid-11340626|pmid-9363683|pmid-15162010
Proteins of this pathway are important caretakers of the mammalian genome and knock out of KU, LIG4, or XRCC4 invariably leads to cancer on a p53βˆ’/βˆ’ background (5–7).
[ "1", "2", "3", "4", "5", "7" ]
166
11,497
0
false
Proteins of this pathway are important caretakers of the mammalian genome and knock out of KU, LIG4, or XRCC4 invariably leads to cancer on a p53βˆ’/βˆ’ background.
[ "5–7" ]
Proteins of this pathway are important caretakers of the mammalian genome and knock out of KU, LIG4, or XRCC4 invariably leads to cancer on a p53βˆ’/βˆ’ background.
true
true
true
true
true
1,839
1
INTRODUCTION
1
8
[ "b8", "b10", "b5", "b11", "b12", "b13", "b14", "b17" ]
17,088,286
pmid-12110179|pmid-3025650|pmid-10761921|pmid-10607596|pmid-10823907|pmid-11779495|pmid-9252118|pmid-15084256|pmid-10761921|pmid-12110179|pmid-10607596|pmid-10823907|pmid-16400328|pmid-9252118|pmid-8548796|pmid-15084256|pmid-16400328|pmid-11930007|pmid-15899791|pmid-15498778
Tumors formed in the above mutant mice, mainly pro-B lymphomas, carry chromosomal translocations linking an amplified c-myc oncogene with the IgH locus sequences.
[ "8", "10", "5", "11", "12", "13", "14", "17" ]
162
11,498
0
false
Tumors formed in the above mutant mice, mainly pro-B lymphomas, carry chromosomal translocations linking an amplified c-myc oncogene with the IgH locus sequences.
[]
Tumors formed in the above mutant mice, mainly pro-B lymphomas, carry chromosomal translocations linking an amplified c-myc oncogene with the IgH locus sequences.
true
true
true
true
true
1,840
1
INTRODUCTION
1
8
[ "b8", "b10", "b5", "b11", "b12", "b13", "b14", "b17" ]
17,088,286
pmid-12110179|pmid-3025650|pmid-10761921|pmid-10607596|pmid-10823907|pmid-11779495|pmid-9252118|pmid-15084256|pmid-10761921|pmid-12110179|pmid-10607596|pmid-10823907|pmid-16400328|pmid-9252118|pmid-8548796|pmid-15084256|pmid-16400328|pmid-11930007|pmid-15899791|pmid-15498778
The initial non-reciprocal translocation event, as well as the subsequent steps in the amplification process requires joining of DNA ends.
[ "8", "10", "5", "11", "12", "13", "14", "17" ]
138
11,499
0
false
The initial non-reciprocal translocation event, as well as the subsequent steps in the amplification process requires joining of DNA ends.
[]
The initial non-reciprocal translocation event, as well as the subsequent steps in the amplification process requires joining of DNA ends.
true
true
true
true
true
1,840