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1220 1221 1222 1223 1224 1225 1226 1227 1228 1229 1230 1231 1232 1233 1234 1235 1236 1237 1238 1239 1240 1241 1242 1243 1244 1245 1246 1247 1248 1249 1250 1251 1252 1253 1254 1255 1256 1257 1258 1259 1260 1261 1262 1263 1264 1265 1266 1267 1268 1269 1270 1271 1272 1273 1274 1275 1276 1277 1278 1279 1280 1281 1282 1283 1284 1285 1286 1287 1288 1289 1290 1291 | cases:
- case_id: SFB_FS_A1AT_1QLPA_1OPHA
pattern: fold_switch_metamorphic
query_uniprot: P01009
query_pdb: 1QLP
query_chain: A
query_resi_range: 23..394
query_length: 372
state_a_pdb: 1QLP
state_a_chain: A
state_b_pdb: 1OPH
state_b_chain: A
target_state: B
expected_pattern_signature: Alpha-1 antitrypsin native serpin <-> cleaved/latent
metastable conformation
literature_ref: Elliott 1996 Nat Struct Biol
source: https://doi.org/10.1038/nsb1196-910
notes: ''
qc:
n_common_residues: 372
n_common_core_lt3A: 359
n_switch_region_ge3A: 13
core_fraction: 0.965
- case_id: SFB_FS_CLIC1_1K0MA_1K0NA
pattern: fold_switch_metamorphic
query_uniprot: O00299
query_pdb: 1K0M
query_chain: A
query_resi_range: 6..240
query_length: 235
state_a_pdb: 1K0M
state_a_chain: A
state_b_pdb: 1K0N
state_b_chain: A
target_state: B
expected_pattern_signature: CLIC1 soluble GST-fold <-> membrane chloride-channel
conformation
literature_ref: Littler 2004 J Biol Chem
source: https://doi.org/10.1074/jbc.M308444200
notes: ''
qc:
n_common_residues: 225
n_common_core_lt3A: 220
n_switch_region_ge3A: 5
core_fraction: 0.978
- case_id: SFB_FS_DLC8_2PG1A_1F3CA
pattern: fold_switch_metamorphic
query_uniprot: P63167
query_pdb: 2PG1
query_chain: A
query_resi_range: 5..89
query_length: 85
state_a_pdb: 2PG1
state_a_chain: A
state_b_pdb: 1F3C
state_b_chain: A
target_state: B
expected_pattern_signature: DLC8/LC8 dynein light chain dimerization-coupled fold
switch
literature_ref: Fan 2001 JMB
source: https://doi.org/10.1006/jmbi.2001.4953
notes: ''
qc:
n_common_residues: 85
n_common_core_lt3A: 83
n_switch_region_ge3A: 2
core_fraction: 0.976
- case_id: SFB_FS_GA98GB98_2LHCA_2LHDA
pattern: fold_switch_metamorphic
query_uniprot: ''
query_pdb: 2LHC
query_chain: A
query_resi_range: 1..56
query_length: 56
state_a_pdb: 2LHC
state_a_chain: A
state_b_pdb: 2LHD
state_b_chain: A
target_state: B
expected_pattern_signature: 'GA98/GB98 engineered fold-switch: 3-alpha (GA) <->
4-beta+alpha (GB)'
literature_ref: Alexander 2009 PNAS
source: https://doi.org/10.1073/pnas.0905068106
notes: ''
qc:
n_common_residues: 56
n_common_core_lt3A: 10
n_switch_region_ge3A: 46
core_fraction: 0.179
- case_id: SFB_FS_IscU_1WFZA_2KQKA
pattern: fold_switch_metamorphic
query_uniprot: P0ACD4
query_pdb: 1WFZ
query_chain: A
query_resi_range: 1..130
query_length: 130
state_a_pdb: 1WFZ
state_a_chain: A
state_b_pdb: 2KQK
state_b_chain: A
target_state: B
expected_pattern_signature: IscU disordered (D) <-> structured (S) Fe-S cluster
scaffold
literature_ref: Kim 2012 PNAS
source: https://doi.org/10.1073/pnas.1212358109
notes: ''
qc:
n_common_residues: 128
n_common_core_lt3A: 30
n_switch_region_ge3A: 98
core_fraction: 0.234
- case_id: SFB_FS_KAIA_1R8JA_1R8QA
pattern: fold_switch_metamorphic
query_uniprot: Q79V62
query_pdb: 1R8J
query_chain: A
query_resi_range: 1..282
query_length: 272
state_a_pdb: 1R8J
state_a_chain: A
state_b_pdb: 1R8Q
state_b_chain: A
target_state: B
expected_pattern_signature: KaiA C-terminal domain conformational reshuffling
literature_ref: Ye 2004 PNAS
source: https://doi.org/10.1073/pnas.0405842101
notes: ''
qc:
n_common_residues: 169
n_common_core_lt3A: 3
n_switch_region_ge3A: 166
core_fraction: 0.018
- case_id: SFB_FS_KAIB_2QKEB_5JYTA
pattern: fold_switch_metamorphic
query_uniprot: Q79V61
query_pdb: 2QKE
query_chain: B
query_resi_range: 5..95
query_length: 91
state_a_pdb: 2QKE
state_a_chain: B
state_b_pdb: 5JYT
state_b_chain: A
target_state: B
expected_pattern_signature: Thioredoxin-fold <-> KaiB-fold metamorphic switch (circadian
clock B-subunit)
literature_ref: Chang 2015 Science; Murzin 2008 Science
source: https://doi.org/10.1126/science.aaa1374
notes: Reference metamorphic case from AF-Cluster paper
qc:
n_common_residues: 91
n_common_core_lt3A: 44
n_switch_region_ge3A: 47
core_fraction: 0.484
- case_id: SFB_FS_MAD2_1DUJA_1GO4A
pattern: fold_switch_metamorphic
query_uniprot: Q13257
query_pdb: 1DUJ
query_chain: A
query_resi_range: 11..197
query_length: 187
state_a_pdb: 1DUJ
state_a_chain: A
state_b_pdb: 1GO4
state_b_chain: A
target_state: B
expected_pattern_signature: MAD2 O-MAD2 (open) <-> C-MAD2 (closed) spindle-checkpoint
metamorphic
literature_ref: Luo 2004 Nat Struct Mol Biol
source: https://doi.org/10.1038/nsmb748
notes: ''
qc:
n_common_residues: 187
n_common_core_lt3A: 9
n_switch_region_ge3A: 178
core_fraction: 0.048
- case_id: SFB_FS_MPT53_1LU4A_3EMXA
pattern: fold_switch_metamorphic
query_uniprot: P9WG70
query_pdb: 1LU4
query_chain: A
query_resi_range: 1001..1134
query_length: 134
state_a_pdb: 1LU4
state_a_chain: A
state_b_pdb: 3EMX
state_b_chain: A
target_state: B
expected_pattern_signature: 'Mpt53 secreted disulfide-isomerase: alternate fold
candidate (DALI hit 3EMX, Aeropyrum pernix thioredoxin)'
literature_ref: Goulding 2004 J Mol Biol
source: https://doi.org/10.1016/j.jmb.2004.05.060
notes: Pair-aligned by positional CA index because 1LU4 (1001..1134) and 3EMX (224..347)
share no residue numbers. 3EMX is a DALI hit only; biological metamorphism not
proven.
qc:
n_common_residues: 124
n_common_core_lt3A: 1
n_switch_region_ge3A: 123
core_fraction: 0.008
- case_id: SFB_FS_NTRC2_1NY3A_3DZEA
pattern: fold_switch_metamorphic
query_uniprot: P0AFB8
query_pdb: 1NY3
query_chain: A
query_resi_range: 46..345
query_length: 277
state_a_pdb: 1NY3
state_a_chain: A
state_b_pdb: 3DZE
state_b_chain: A
target_state: B
expected_pattern_signature: NtrC receiver domain inactive <-> active fold-switch-like
rearrangement
literature_ref: Hastings 2008 PNAS
source: https://doi.org/10.1073/pnas.0709728105
notes: ''
qc:
n_common_residues: 124
n_common_core_lt3A: 1
n_switch_region_ge3A: 123
core_fraction: 0.008
- case_id: SFB_FS_NUSG_2K06A_2LQ8A
pattern: fold_switch_metamorphic
query_uniprot: P0AFG0
query_pdb: 2K06
query_chain: A
query_resi_range: 1..123
query_length: 123
state_a_pdb: 2K06
state_a_chain: A
state_b_pdb: 2LQ8
state_b_chain: A
target_state: B
expected_pattern_signature: 'NusG-SP CTD: KOW-fold <-> alpha-hairpin metamorphic'
literature_ref: Burmann 2010 Science
source: https://doi.org/10.1126/science.1184953
notes: ''
qc:
n_common_residues: 123
n_common_core_lt3A: 2
n_switch_region_ge3A: 121
core_fraction: 0.016
- case_id: SFB_FS_P13_2I4ZA_4M1EA
pattern: fold_switch_metamorphic
query_uniprot: Q98DV5
query_pdb: 2I4Z
query_chain: A
query_resi_range: 207..476
query_length: 270
state_a_pdb: 2I4Z
state_a_chain: A
state_b_pdb: 4M1E
state_b_chain: A
target_state: B
expected_pattern_signature: p13 metamorphic protein (intracellular signaling)
literature_ref: Roessler 2015 JMB
source: https://doi.org/10.1016/j.jmb.2014.10.010
notes: ''
qc:
n_common_residues: 67
n_common_core_lt3A: 3
n_switch_region_ge3A: 64
core_fraction: 0.045
- case_id: SFB_FS_RFAH_5ONDA_6C6SD
pattern: fold_switch_metamorphic
query_uniprot: P0AFW0
query_pdb: 5OND
query_chain: A
query_resi_range: 1..155
query_length: 135
state_a_pdb: 5OND
state_a_chain: A
state_b_pdb: 6C6S
state_b_chain: D
target_state: B
expected_pattern_signature: 'RfaH CTD: alpha-helical hairpin <-> beta-barrel (transcription/translation
coupling)'
literature_ref: Burmann 2012 Cell; Zuber 2018 Nat Commun
source: https://doi.org/10.1038/s41467-019-10918-2
notes: ''
qc:
n_common_residues: 134
n_common_core_lt3A: 79
n_switch_region_ge3A: 55
core_fraction: 0.59
- case_id: SFB_FS_SELECASE_4QHFA_4QHGA
pattern: fold_switch_metamorphic
query_uniprot: I3VWL5
query_pdb: 4QHF
query_chain: A
query_resi_range: 1..109
query_length: 109
state_a_pdb: 4QHF
state_a_chain: A
state_b_pdb: 4QHG
state_b_chain: A
target_state: B
expected_pattern_signature: Selecase oligomer monomer fold switch (zinc metallopeptidase)
literature_ref: Lopez-Pelegrin 2014 Cell Rep
source: https://doi.org/10.1016/j.celrep.2014.06.012
notes: ''
qc:
n_common_residues: 107
n_common_core_lt3A: 99
n_switch_region_ge3A: 8
core_fraction: 0.925
- case_id: SFB_FS_XCL1_1J8IA_2JP1A
pattern: fold_switch_metamorphic
query_uniprot: P47992
query_pdb: 1J8I
query_chain: A
query_resi_range: 1..93
query_length: 93
state_a_pdb: 1J8I
state_a_chain: A
state_b_pdb: 2JP1
state_b_chain: A
target_state: B
expected_pattern_signature: 'Lymphotactin: chemokine-fold <-> all-beta dimer fold
metamorphic switch'
literature_ref: Tuinstra 2008 PNAS
source: https://doi.org/10.1073/pnas.0711389105
notes: ''
qc:
n_common_residues: 60
n_common_core_lt3A: 20
n_switch_region_ge3A: 40
core_fraction: 0.333
- case_id: SFB_AL_AKE_4AKEA_1AKEA
pattern: allosteric_ligand_induced
query_uniprot: P69441
query_pdb: 4AKE
query_chain: A
query_resi_range: 1..214
query_length: 214
state_a_pdb: 4AKE
state_a_chain: A
state_b_pdb: 1AKE
state_b_chain: A
target_state: B
expected_pattern_signature: Adenylate kinase open (apo) <-> closed (Ap5A-bound)
lid-rearrangement
literature_ref: Muller 1992 JMB; Henzler-Wildman 2007 Nature
source: https://doi.org/10.1038/nature06407
notes: ''
qc:
n_common_residues: 214
n_common_core_lt3A: 126
n_switch_region_ge3A: 88
core_fraction: 0.589
- case_id: SFB_AL_CALM_1CFDA_1CLLA
pattern: allosteric_ligand_induced
query_uniprot: P0DP23
query_pdb: 1CFD
query_chain: A
query_resi_range: 1..148
query_length: 148
state_a_pdb: 1CFD
state_a_chain: A
state_b_pdb: 1CLL
state_b_chain: A
target_state: B
expected_pattern_signature: Calmodulin apo (collapsed) <-> Ca2+-bound (extended)
conformational switch
literature_ref: Kuboniwa 1995 Nat Struct Biol
source: https://doi.org/10.1038/nsb0995-768
notes: ''
qc:
n_common_residues: 144
n_common_core_lt3A: 21
n_switch_region_ge3A: 123
core_fraction: 0.146
- case_id: SFB_AL_CDK6_1BI7A_2EUFB
pattern: allosteric_ligand_induced
query_uniprot: Q00534
query_pdb: 1BI7
query_chain: A
query_resi_range: 10..301
query_length: 269
state_a_pdb: 1BI7
state_a_chain: A
state_b_pdb: 2EUF
state_b_chain: B
target_state: B
expected_pattern_signature: CDK6 kinase inactive (p16-bound) <-> active (V-cyclin)
literature_ref: Russo 1998 Nat Struct Biol
source: https://doi.org/10.1038/sb0498-262
notes: ''
qc:
n_common_residues: 255
n_common_core_lt3A: 180
n_switch_region_ge3A: 75
core_fraction: 0.706
- case_id: SFB_AL_CHEY_3CHYA_1FQWA
pattern: allosteric_ligand_induced
query_uniprot: P0AE67
query_pdb: 3CHY
query_chain: A
query_resi_range: 2..129
query_length: 128
state_a_pdb: 3CHY
state_a_chain: A
state_b_pdb: 1FQW
state_b_chain: A
target_state: B
expected_pattern_signature: CheY response regulator inactive <-> active (Mg-BeF3
phosphorylated)
literature_ref: Lee 2001 Nat Struct Biol
source: https://doi.org/10.1038/85661
notes: ''
qc:
n_common_residues: 128
n_common_core_lt3A: 127
n_switch_region_ge3A: 1
core_fraction: 0.992
- case_id: SFB_AL_DHFR_1RX1A_1RX4A
pattern: allosteric_ligand_induced
query_uniprot: P0ABQ4
query_pdb: 1RX1
query_chain: A
query_resi_range: 1..159
query_length: 159
state_a_pdb: 1RX1
state_a_chain: A
state_b_pdb: 1RX4
state_b_chain: A
target_state: B
expected_pattern_signature: DHFR Met20 loop closed <-> occluded (folate/NADP intermediate)
literature_ref: Sawaya 1997 Biochemistry
source: https://doi.org/10.1021/bi962337c
notes: ''
qc:
n_common_residues: 159
n_common_core_lt3A: 156
n_switch_region_ge3A: 3
core_fraction: 0.981
- case_id: SFB_AL_EGFR_2GS2A_1XKKA
pattern: allosteric_ligand_induced
query_uniprot: P00533
query_pdb: 2GS2
query_chain: A
query_resi_range: 672..994
query_length: 305
state_a_pdb: 2GS2
state_a_chain: A
state_b_pdb: 1XKK
state_b_chain: A
target_state: B
expected_pattern_signature: EGFR kinase inactive (lapatinib) <-> active asymmetric
dimer
literature_ref: Wood 2004 Cancer Res
source: https://doi.org/10.1158/0008-5472.CAN-04-1168
notes: ''
qc:
n_common_residues: 252
n_common_core_lt3A: 2
n_switch_region_ge3A: 250
core_fraction: 0.008
- case_id: SFB_AL_GLNBP_1GGGA_1WDNA
pattern: allosteric_ligand_induced
query_uniprot: P0AEQ3
query_pdb: 1GGG
query_chain: A
query_resi_range: 5..224
query_length: 220
state_a_pdb: 1GGG
state_a_chain: A
state_b_pdb: 1WDN
state_b_chain: A
target_state: B
expected_pattern_signature: Glutamine-binding protein open (apo) <-> closed (Gln-bound)
literature_ref: Hsiao 1996 JMB
source: https://doi.org/10.1006/jmbi.1996.0438
notes: ''
qc:
n_common_residues: 220
n_common_core_lt3A: 131
n_switch_region_ge3A: 89
core_fraction: 0.595
- case_id: SFB_AL_LIVBP_2LIVA_1Z15A
pattern: allosteric_ligand_induced
query_uniprot: P0AD96
query_pdb: 2LIV
query_chain: A
query_resi_range: 1..344
query_length: 344
state_a_pdb: 2LIV
state_a_chain: A
state_b_pdb: 1Z15
state_b_chain: A
target_state: B
expected_pattern_signature: Leucine/Ile/Val-BP open (apo) <-> closed (Leu-bound)
hinge motion
literature_ref: Sack 1989 JMB
source: https://doi.org/10.1016/0022-2836(89)90342-6
notes: ''
qc:
n_common_residues: 344
n_common_core_lt3A: 341
n_switch_region_ge3A: 3
core_fraction: 0.991
- case_id: SFB_AL_MBP_1OMPA_1ANFA
pattern: allosteric_ligand_induced
query_uniprot: P0AEX9
query_pdb: 1OMP
query_chain: A
query_resi_range: 1..370
query_length: 370
state_a_pdb: 1OMP
state_a_chain: A
state_b_pdb: 1ANF
state_b_chain: A
target_state: B
expected_pattern_signature: Maltose-binding protein open (apo) <-> closed (maltose-bound)
literature_ref: Sharff 1992 Biochemistry
source: https://doi.org/10.1021/bi00163a008
notes: ''
qc:
n_common_residues: 370
n_common_core_lt3A: 223
n_switch_region_ge3A: 147
core_fraction: 0.603
- case_id: SFB_AL_MEK1_3EQIA_3MBLA
pattern: allosteric_ligand_induced
query_uniprot: Q02750
query_pdb: 3EQI
query_chain: A
query_resi_range: 39..382
query_length: 315
state_a_pdb: 3EQI
state_a_chain: A
state_b_pdb: 3MBL
state_b_chain: A
target_state: B
expected_pattern_signature: MEK1 inactive (apo) <-> active (ATP/Mg-bound) DFG flip
literature_ref: Fischmann 2009 Biochemistry
source: https://doi.org/10.1021/bi900132f
notes: ''
qc:
n_common_residues: 290
n_common_core_lt3A: 281
n_switch_region_ge3A: 9
core_fraction: 0.969
- case_id: SFB_AL_PHOB_1B00A_1ZESA
pattern: allosteric_ligand_induced
query_uniprot: P0AFJ5
query_pdb: 1B00
query_chain: A
query_resi_range: 2..123
query_length: 122
state_a_pdb: 1B00
state_a_chain: A
state_b_pdb: 1ZES
state_b_chain: A
target_state: B
expected_pattern_signature: PhoB response-regulator inactive <-> active (BeF3)
literature_ref: Bachhawat 2005 Structure
source: https://doi.org/10.1016/j.str.2005.04.016
notes: ''
qc:
n_common_residues: 121
n_common_core_lt3A: 108
n_switch_region_ge3A: 13
core_fraction: 0.893
- case_id: SFB_AL_PKA_1ATPE_2CPKE
pattern: allosteric_ligand_induced
query_uniprot: P00517
query_pdb: 1ATP
query_chain: E
query_resi_range: 15..350
query_length: 334
state_a_pdb: 1ATP
state_a_chain: E
state_b_pdb: 2CPK
state_b_chain: E
target_state: B
expected_pattern_signature: PKA catalytic subunit closed (Mg-ATP-PKI) <-> open (apo)
literature_ref: Knighton 1991 Science
source: https://doi.org/10.1126/science.1862342
notes: ''
qc:
n_common_residues: 333
n_common_core_lt3A: 333
n_switch_region_ge3A: 0
core_fraction: 1.0
- case_id: SFB_AL_RAS_4Q21A_5P21A
pattern: allosteric_ligand_induced
query_uniprot: P01112
query_pdb: 4Q21
query_chain: A
query_resi_range: 1..169
query_length: 169
state_a_pdb: 4Q21
state_a_chain: A
state_b_pdb: 5P21
state_b_chain: A
target_state: B
expected_pattern_signature: H-Ras GDP-bound (inactive) <-> GTP-analog (active) Switch
I/II
literature_ref: Milburn 1990 Science
source: https://doi.org/10.1126/science.2406906
notes: ''
qc:
n_common_residues: 166
n_common_core_lt3A: 156
n_switch_region_ge3A: 10
core_fraction: 0.94
- case_id: SFB_AL_RBP_1URPA_2DRIA
pattern: allosteric_ligand_induced
query_uniprot: P02925
query_pdb: 1URP
query_chain: A
query_resi_range: 1..271
query_length: 271
state_a_pdb: 1URP
state_a_chain: A
state_b_pdb: 2DRI
state_b_chain: A
target_state: B
expected_pattern_signature: Ribose-binding protein open <-> closed sugar-induced
lid closure
literature_ref: Bjorkman 1994 JMB
source: https://doi.org/10.1006/jmbi.1994.1633
notes: ''
qc:
n_common_residues: 271
n_common_core_lt3A: 154
n_switch_region_ge3A: 117
core_fraction: 0.568
- case_id: SFB_AL_SRC_2SRCA_1Y57A
pattern: allosteric_ligand_induced
query_uniprot: P12931
query_pdb: 2SRC
query_chain: A
query_resi_range: 84..533
query_length: 449
state_a_pdb: 2SRC
state_a_chain: A
state_b_pdb: 1Y57
state_b_chain: A
target_state: B
expected_pattern_signature: Src kinase autoinhibited (closed) <-> active (open)
C-helix
literature_ref: Cowan-Jacob 2005 Structure
source: https://doi.org/10.1016/j.str.2005.04.013
notes: ''
qc:
n_common_residues: 449
n_common_core_lt3A: 12
n_switch_region_ge3A: 437
core_fraction: 0.027
- case_id: SFB_ID_ASYN_1XQ8A_1XQ8A
pattern: idp_idr_disorder_to_order
query_uniprot: P37840
query_pdb: 1XQ8
query_chain: A
query_resi_range: 1..140
query_length: 140
state_a_pdb: 1XQ8
state_a_chain: A
state_b_pdb: 1XQ8
state_b_chain: A
target_state: A
expected_pattern_signature: Alpha-synuclein disordered <-> lipid-bound helical conformation
literature_ref: Ulmer 2005 JBC
source: https://doi.org/10.1074/jbc.M411805200
notes: ''
qc:
n_common_residues: 140
n_common_core_lt3A: 140
n_switch_region_ge3A: 0
core_fraction: 1.0
- case_id: SFB_ID_BAD_1G5JB_1G5JB
pattern: idp_idr_disorder_to_order
query_uniprot: Q92934
query_pdb: 1G5J
query_chain: B
query_resi_range: 301..325
query_length: 25
state_a_pdb: 1G5J
state_a_chain: B
state_b_pdb: 1G5J
state_b_chain: B
target_state: A
expected_pattern_signature: BAD BH3 IDR disorder-to-order on Bcl-xL binding
literature_ref: Petros 2000 PNAS
source: https://doi.org/10.1073/pnas.97.7.3012
notes: ''
qc:
n_common_residues: 25
n_common_core_lt3A: 25
n_switch_region_ge3A: 0
core_fraction: 1.0
- case_id: SFB_ID_BID_1DDBA_1DDBA
pattern: idp_idr_disorder_to_order
query_uniprot: P55957
query_pdb: 1DDB
query_chain: A
query_resi_range: 1..195
query_length: 195
state_a_pdb: 1DDB
state_a_chain: A
state_b_pdb: 1DDB
state_b_chain: A
target_state: A
expected_pattern_signature: Bid alpha-helical bundle; BH3 region disordered-to-ordered
upon Bcl-xL binding
literature_ref: Chou 1999 Cell
source: https://doi.org/10.1016/S0092-8674(00)80572-3
notes: ''
qc:
n_common_residues: 195
n_common_core_lt3A: 195
n_switch_region_ge3A: 0
core_fraction: 1.0
- case_id: SFB_ID_CJUN_1JNMB_1JNMB
pattern: idp_idr_disorder_to_order
query_uniprot: P05412
query_pdb: 1JNM
query_chain: B
query_resi_range: 254..310
query_length: 57
state_a_pdb: 1JNM
state_a_chain: B
state_b_pdb: 1JNM
state_b_chain: B
target_state: A
expected_pattern_signature: c-Jun bZIP disorder-to-order coiled coil upon DNA binding/dimerization
literature_ref: Glover 1995 Nature
source: https://doi.org/10.1038/373257a0
notes: ''
qc:
n_common_residues: 57
n_common_core_lt3A: 57
n_switch_region_ge3A: 0
core_fraction: 1.0
- case_id: SFB_ID_CREB_1KDXB_1KDXB
pattern: idp_idr_disorder_to_order
query_uniprot: P16220
query_pdb: 1KDX
query_chain: B
query_resi_range: 119..146
query_length: 27
state_a_pdb: 1KDX
state_a_chain: B
state_b_pdb: 1KDX
state_b_chain: B
target_state: A
expected_pattern_signature: CREB pKID alpha-helical disorder-to-order on KIX of
CBP
literature_ref: Radhakrishnan 1997 Cell
source: https://doi.org/10.1016/S0092-8674(00)80463-8
notes: ''
qc:
n_common_residues: 27
n_common_core_lt3A: 27
n_switch_region_ge3A: 0
core_fraction: 1.0
- case_id: SFB_ID_EIF4E_1WKWB_1WKWB
pattern: idp_idr_disorder_to_order
query_uniprot: Q13541
query_pdb: 1WKW
query_chain: B
query_resi_range: 47..66
query_length: 20
state_a_pdb: 1WKW
state_a_chain: B
state_b_pdb: 1WKW
state_b_chain: B
target_state: A
expected_pattern_signature: 4E-BP1 IDR ordered alpha-helix when bound eIF4E
literature_ref: Marcotrigiano 1999 Mol Cell
source: https://doi.org/10.1016/S1097-2765(00)80194-6
notes: ''
qc:
n_common_residues: 20
n_common_core_lt3A: 20
n_switch_region_ge3A: 0
core_fraction: 1.0
- case_id: SFB_ID_HIF1A_1L8CB_1L8CB
pattern: idp_idr_disorder_to_order
query_uniprot: Q16665
query_pdb: 1L8C
query_chain: B
query_resi_range: 99..149
query_length: 51
state_a_pdb: 1L8C
state_a_chain: B
state_b_pdb: 1L8C
state_b_chain: B
target_state: A
expected_pattern_signature: HIF-1alpha CTAD disorder-to-order helix on CBP TAZ1
binding
literature_ref: Dames 2002 PNAS
source: https://doi.org/10.1073/pnas.082121399
notes: ''
qc:
n_common_residues: 51
n_common_core_lt3A: 51
n_switch_region_ge3A: 0
core_fraction: 1.0
- case_id: SFB_ID_HISTH1_1GHCA_1GHCA
pattern: idp_idr_disorder_to_order
query_uniprot: P10412
query_pdb: 1GHC
query_chain: A
query_resi_range: 1..75
query_length: 75
state_a_pdb: 1GHC
state_a_chain: A
state_b_pdb: 1GHC
state_b_chain: A
target_state: A
expected_pattern_signature: Histone H1 globular domain ordered; long IDRs flank
literature_ref: Ramakrishnan 1993 Nature
source: https://doi.org/10.1038/362219a0
notes: ''
qc:
n_common_residues: 75
n_common_core_lt3A: 75
n_switch_region_ge3A: 0
core_fraction: 1.0
- case_id: SFB_ID_HMGB1_1AABA_1AABA
pattern: idp_idr_disorder_to_order
query_uniprot: P09429
query_pdb: 1AAB
query_chain: A
query_resi_range: 1..83
query_length: 83
state_a_pdb: 1AAB
state_a_chain: A
state_b_pdb: 1AAB
state_b_chain: A
target_state: A
expected_pattern_signature: 'HMGB1 box A: ordered when bound DNA; flexible apo termini'
literature_ref: Hardman 1995 Biochemistry
source: https://doi.org/10.1021/bi00050a012
notes: ''
qc:
n_common_residues: 83
n_common_core_lt3A: 83
n_switch_region_ge3A: 0
core_fraction: 1.0
- case_id: SFB_ID_NCOA1_1KBHB_1KBHB
pattern: idp_idr_disorder_to_order
query_uniprot: Q15788
query_pdb: 1KBH
query_chain: B
query_resi_range: 48..106
query_length: 59
state_a_pdb: 1KBH
state_a_chain: B
state_b_pdb: 1KBH
state_b_chain: B
target_state: A
expected_pattern_signature: NCOA1 NRID disorder-to-order helical when bound to CBP
literature_ref: Demarest 2002 Nature
source: https://doi.org/10.1038/nature724
notes: ''
qc:
n_common_residues: 59
n_common_core_lt3A: 59
n_switch_region_ge3A: 0
core_fraction: 1.0
- case_id: SFB_ID_NUMB_1WJ1A_1WJ1A
pattern: idp_idr_disorder_to_order
query_uniprot: P49757
query_pdb: 1WJ1
query_chain: A
query_resi_range: 1..156
query_length: 156
state_a_pdb: 1WJ1
state_a_chain: A
state_b_pdb: 1WJ1
state_b_chain: A
target_state: A
expected_pattern_signature: Numb PTB IDR disorder-to-order on peptide binding
literature_ref: Li 1998 EMBO J
source: https://doi.org/10.1093/emboj/17.24.7320
notes: ''
qc:
n_common_residues: 156
n_common_core_lt3A: 156
n_switch_region_ge3A: 0
core_fraction: 1.0
- case_id: SFB_ID_P27_1JSUC_1JSUC
pattern: idp_idr_disorder_to_order
query_uniprot: P46527
query_pdb: 1JSU
query_chain: C
query_resi_range: 25..93
query_length: 69
state_a_pdb: 1JSU
state_a_chain: C
state_b_pdb: 1JSU
state_b_chain: C
target_state: A
expected_pattern_signature: p27 KID region disorder-to-order upon Cdk2/cyclinA binding
literature_ref: Russo 1996 Nature
source: https://doi.org/10.1038/382325a0
notes: p27 alone is disordered; bound to Cdk2/CycA forms extended ordered conformation
qc:
n_common_residues: 69
n_common_core_lt3A: 69
n_switch_region_ge3A: 0
core_fraction: 1.0
- case_id: SFB_ID_P53TAD_2K8FA_2K8FA
pattern: idp_idr_disorder_to_order
query_uniprot: P04637
query_pdb: 2K8F
query_chain: A
query_resi_range: 1..90
query_length: 90
state_a_pdb: 2K8F
state_a_chain: A
state_b_pdb: 2K8F
state_b_chain: A
target_state: A
expected_pattern_signature: p53 TAD2 disorder-to-order helical conformation
literature_ref: Lee 2010 PNAS
source: https://doi.org/10.1073/pnas.0915169107
notes: ''
qc:
n_common_residues: 90
n_common_core_lt3A: 90
n_switch_region_ge3A: 0
core_fraction: 1.0
- case_id: SFB_ID_PKID_1KDXB_1KDXB
pattern: idp_idr_disorder_to_order
query_uniprot: Q01147
query_pdb: 1KDX
query_chain: B
query_resi_range: 119..146
query_length: 27
state_a_pdb: 1KDX
state_a_chain: B
state_b_pdb: 1KDX
state_b_chain: B
target_state: A
expected_pattern_signature: pKID disorder-to-order upon KIX binding (CREB-CBP)
literature_ref: Radhakrishnan 1997 Cell
source: https://doi.org/10.1016/S0092-8674(00)80463-8
notes: ''
qc:
n_common_residues: 27
n_common_core_lt3A: 27
n_switch_region_ge3A: 0
core_fraction: 1.0
- case_id: SFB_ID_PUMA_2M04B_2M04B
pattern: idp_idr_disorder_to_order
query_uniprot: Q9BXH1
query_pdb: 2M04
query_chain: B
query_resi_range: 68..92
query_length: 25
state_a_pdb: 2M04
state_a_chain: B
state_b_pdb: 2M04
state_b_chain: B
target_state: A
expected_pattern_signature: PUMA BH3-only IDR forms ordered helix bound to Bcl-xL
literature_ref: Rogers 2014 Structure
source: https://doi.org/10.1016/j.str.2014.02.005
notes: ''
qc:
n_common_residues: 25
n_common_core_lt3A: 25
n_switch_region_ge3A: 0
core_fraction: 1.0
- case_id: SFB_OL_BARNASE_1A2PA_1YVSA
pattern: oligomer_domain_swap
query_uniprot: P00648
query_pdb: 1A2P
query_chain: A
query_resi_range: 3..110
query_length: 108
state_a_pdb: 1A2P
state_a_chain: A
state_b_pdb: 1YVS
state_b_chain: A
target_state: B
expected_pattern_signature: Barnase monomer <-> engineered domain-swapped dimer
literature_ref: Zegers 1999 PNAS
source: https://doi.org/10.1073/pnas.96.3.818
notes: ''
qc:
n_common_residues: 108
n_common_core_lt3A: 70
n_switch_region_ge3A: 38
core_fraction: 0.648
- case_id: SFB_OL_BCLXL_1LXLA_1R2DA
pattern: oligomer_domain_swap
query_uniprot: Q07817
query_pdb: 1LXL
query_chain: A
query_resi_range: -3..217
query_length: 221
state_a_pdb: 1LXL
state_a_chain: A
state_b_pdb: 1R2D
state_b_chain: A
target_state: B
expected_pattern_signature: Bcl-xL monomer <-> domain-swapped dimer (apoptosis regulator)
literature_ref: Muchmore 1996 Nature
source: https://doi.org/10.1038/381335a0
notes: ''
qc:
n_common_residues: 142
n_common_core_lt3A: 125
n_switch_region_ge3A: 17
core_fraction: 0.88
- case_id: SFB_OL_CALBD9K_4ICBA_1HT9A
pattern: oligomer_domain_swap
query_uniprot: P05937
query_pdb: 4ICB
query_chain: A
query_resi_range: 0..75
query_length: 76
state_a_pdb: 4ICB
state_a_chain: A
state_b_pdb: 1HT9
state_b_chain: A
target_state: B
expected_pattern_signature: Calbindin D9k monomer <-> domain-swapped dimer (EF-hand)
literature_ref: Hakansson 2001 Protein Sci
source: https://doi.org/10.1110/ps.06301
notes: ''
qc:
n_common_residues: 76
n_common_core_lt3A: 44
n_switch_region_ge3A: 32
core_fraction: 0.579
- case_id: SFB_OL_CCL2_1DOKA_1DOMA
pattern: oligomer_domain_swap
query_uniprot: P13500
query_pdb: 1DOK
query_chain: A
query_resi_range: 0..71
query_length: 72
state_a_pdb: 1DOK
state_a_chain: A
state_b_pdb: 1DOM
state_b_chain: A
target_state: B
expected_pattern_signature: CCL2/MCP-1 monomer (1DOK) <-> dimer (1DOM) chemokine
assembly
literature_ref: Lubkowski 1997 Nat Struct Biol
source: https://doi.org/10.1038/nsb0197-64
notes: ''
qc:
n_common_residues: 71
n_common_core_lt3A: 66
n_switch_region_ge3A: 5
core_fraction: 0.93
- case_id: SFB_OL_CVN_1IIYA_3EZMA
pattern: oligomer_domain_swap
query_uniprot: P81180
query_pdb: 1IIY
query_chain: A
query_resi_range: 1..101
query_length: 101
state_a_pdb: 1IIY
state_a_chain: A
state_b_pdb: 3EZM
state_b_chain: A
target_state: B
expected_pattern_signature: Cyanovirin-N monomer <-> domain-swapped dimer (HIV-binding
lectin)
literature_ref: Yang 1999 JMB
source: https://doi.org/10.1006/jmbi.1999.3293
notes: ''
qc:
n_common_residues: 101
n_common_core_lt3A: 2
n_switch_region_ge3A: 99
core_fraction: 0.02
- case_id: SFB_OL_CYSTC_3GAXA_1TIJA
pattern: oligomer_domain_swap
query_uniprot: P01034
query_pdb: 3GAX
query_chain: A
query_resi_range: 12..120
query_length: 107
state_a_pdb: 3GAX
state_a_chain: A
state_b_pdb: 1TIJ
state_b_chain: A
target_state: B
expected_pattern_signature: Cystatin C monomer (3GAX) <-> domain-swapped dimer (1TIJ)
literature_ref: Janowski 2001 Nat Struct Biol
source: https://doi.org/10.1038/89638
notes: ''
qc:
n_common_residues: 107
n_common_core_lt3A: 56
n_switch_region_ge3A: 51
core_fraction: 0.523
- case_id: SFB_OL_DTOX_1F0LA_1DDTA
pattern: oligomer_domain_swap
query_uniprot: P00588
query_pdb: 1F0L
query_chain: A
query_resi_range: 1..535
query_length: 520
state_a_pdb: 1F0L
state_a_chain: A
state_b_pdb: 1DDT
state_b_chain: A
target_state: B
expected_pattern_signature: Diphtheria toxin monomer <-> domain-swapped dimer
literature_ref: Bennett 1994 Protein Sci
source: https://doi.org/10.1002/pro.5560030917
notes: ''
qc:
n_common_residues: 520
n_common_core_lt3A: 363
n_switch_region_ge3A: 157
core_fraction: 0.698
- case_id: SFB_OL_ENGRAILED_1ENHA_2JWTA
pattern: oligomer_domain_swap
query_uniprot: P02836
query_pdb: 1ENH
query_chain: A
query_resi_range: 3..56
query_length: 54
state_a_pdb: 1ENH
state_a_chain: A
state_b_pdb: 2JWT
state_b_chain: A
target_state: B
expected_pattern_signature: Engrailed homeodomain monomer <-> swapped dimer
literature_ref: Clarke 1994 Structure
source: https://doi.org/10.1016/S0969-2126(00)00006-7
notes: ''
qc:
n_common_residues: 54
n_common_core_lt3A: 51
n_switch_region_ge3A: 3
core_fraction: 0.944
- case_id: SFB_OL_ETA_1AOHA_1AOHB
pattern: oligomer_domain_swap
query_uniprot: P00552
query_pdb: 1AOH
query_chain: A
query_resi_range: 5..147
query_length: 143
state_a_pdb: 1AOH
state_a_chain: A
state_b_pdb: 1AOH
state_b_chain: B
target_state: B
expected_pattern_signature: Eta toxin monomer <-> swapped oligomeric form
literature_ref: Bennett 1995 PNAS
source: https://doi.org/10.1073/pnas.91.8.3127
notes: ''
qc:
n_common_residues: 143
n_common_core_lt3A: 143
n_switch_region_ge3A: 0
core_fraction: 1.0
- case_id: SFB_OL_GB1SW_2QMTA_1Q9VA
pattern: oligomer_domain_swap
query_uniprot: P19909
query_pdb: 2QMT
query_chain: A
query_resi_range: 1..56
query_length: 56
state_a_pdb: 2QMT
state_a_chain: A
state_b_pdb: 1Q9V
state_b_chain: A
target_state: B
expected_pattern_signature: Protein GB1 monomer <-> domain-swapped tetramer (engineered)
literature_ref: Byeon 2003 JMB
source: https://doi.org/10.1016/j.jmb.2003.08.005
notes: ''
qc:
n_common_residues: 56
n_common_core_lt3A: 0
n_switch_region_ge3A: 56
core_fraction: 0.0
- case_id: SFB_OL_HIVPR_1HHPA_3HVPA
pattern: oligomer_domain_swap
query_uniprot: P03366
query_pdb: 1HHP
query_chain: A
query_resi_range: 1..99
query_length: 99
state_a_pdb: 1HHP
state_a_chain: A
state_b_pdb: 3HVP
state_b_chain: A
target_state: B
expected_pattern_signature: HIV-1 protease dimer interface conformation (1HHP) <->
alternate (3HVP)
literature_ref: Spinelli 1991 Biochimie
source: https://doi.org/10.1016/0300-9084(91)90168-Z
notes: ''
qc:
n_common_residues: 97
n_common_core_lt3A: 97
n_switch_region_ge3A: 0
core_fraction: 1.0
- case_id: SFB_OL_IL5_1HULA_1HULB
pattern: oligomer_domain_swap
query_uniprot: P05113
query_pdb: 1HUL
query_chain: A
query_resi_range: 5..112
query_length: 108
state_a_pdb: 1HUL
state_a_chain: A
state_b_pdb: 1HUL
state_b_chain: B
target_state: B
expected_pattern_signature: Interleukin-5 obligate domain-swapped homodimer
literature_ref: Milburn 1993 Nature
source: https://doi.org/10.1038/363172a0
notes: ''
qc:
n_common_residues: 108
n_common_core_lt3A: 106
n_switch_region_ge3A: 2
core_fraction: 0.981
- case_id: SFB_OL_RNASA_7RSAA_1A2WA
pattern: oligomer_domain_swap
query_uniprot: P61823
query_pdb: 7RSA
query_chain: A
query_resi_range: 1..124
query_length: 124
state_a_pdb: 7RSA
state_a_chain: A
state_b_pdb: 1A2W
state_b_chain: A
target_state: B
expected_pattern_signature: Bovine RNase A monomer (7RSA) <-> C-terminal domain-swapped
dimer (1A2W)
literature_ref: Liu 1998 Protein Sci
source: https://doi.org/10.1002/pro.5560070806
notes: ''
qc:
n_common_residues: 124
n_common_core_lt3A: 104
n_switch_region_ge3A: 20
core_fraction: 0.839
- case_id: SFB_OL_STEFINB_1STFI_2OCTA
pattern: oligomer_domain_swap
query_uniprot: P04080
query_pdb: 1STF
query_chain: I
query_resi_range: 6..125
query_length: 98
state_a_pdb: 1STF
state_a_chain: I
state_b_pdb: 2OCT
state_b_chain: A
target_state: B
expected_pattern_signature: Stefin B monomer <-> domain-swapped dimer (cystatin
family)
literature_ref: Janowski 2001 Nat Struct Biol
source: https://doi.org/10.1038/89638
notes: ''
qc:
n_common_residues: 68
n_common_core_lt3A: 0
n_switch_region_ge3A: 68
core_fraction: 0.0
- case_id: SFB_OL_SUC1_1PUCA_1SCEA
pattern: oligomer_domain_swap
query_uniprot: P14635
query_pdb: 1PUC
query_chain: A
query_resi_range: 2..102
query_length: 101
state_a_pdb: 1PUC
state_a_chain: A
state_b_pdb: 1SCE
state_b_chain: A
target_state: B
expected_pattern_signature: p13suc1 closed monomer <-> beta-strand-swapped dimer
literature_ref: Bourne 1996 Cell
source: https://doi.org/10.1016/S0092-8674(00)81092-2
notes: ''
qc:
n_common_residues: 97
n_common_core_lt3A: 88
n_switch_region_ge3A: 9
core_fraction: 0.907
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