{ "archetype": { "ID": "GS00019", "name": "DNeup5Gca2-6DGalpb1-4DGlcpNAcb1-2DManpa1-3[DGlcpNAcb1-2DManpa1-6]DManpb1-4DGlcpNAcb1-4DGlcpNAca1-OH", "glycam": "DNeup5Gca2-6DGalpb1-4DGlcpNAcb1-2DManpa1-3[DGlcpNAcb1-2DManpa1-6]DManpb1-4DGlcpNAcb1-4DGlcpNAc", "iupac": "Neu5Gc(a2-6)Gal(b1-4)GlcNAc(b1-2)Man(a1-3)[GlcNAc(b1-2)Man(a1-6)]Man(b1-4)GlcNAc(b1-4)GlcNAc", "iupac_extended": "α-D-Neup5Gc-(2→6)-β-D-Galp-(1→4)-β-D-GlcpNAc-(1→2)-α-D-Manp-(1→3)[β-D-GlcpNAc-(1→2)-α-D-Manp-(1→6)]-β-D-Manp-(1→4)-β-D-GlcpNAc-(1→4)-D-GlcNAc", "glytoucan": "G23023HU", "wurcs": "WURCS=2.0/6,9,8/[u2122h_2*NCC/3=O][a2122h-1b_1-5_2*NCC/3=O][a1122h-1b_1-5][a1122h-1a_1-5][a2112h-1b_1-5][Aad21122h-2a_2-6_5*NCCO/3=O]/1-2-3-4-2-5-6-4-2/a4-b1_b4-c1_c3-d1_c6-h1_d2-e1_e4-f1_f6-g2_h2-i1", "glycoct": "RES\n1b:b-dglc-HEX-1:5\n2s:n-acetyl\n3b:b-dglc-HEX-1:5\n4s:n-acetyl\n5b:b-dman-HEX-1:5\n6b:a-dman-HEX-1:5\n7b:b-dglc-HEX-1:5\n8s:n-acetyl\n9b:b-dgal-HEX-1:5\n10b:a-dgro-dgal-NON-2:6|1:a|2:keto|3:d\n11s:n-glycolyl\n12b:a-dman-HEX-1:5\n13b:b-dglc-HEX-1:5\n14s:n-acetyl\nLIN\n1:1d(2+1)2n\n2:1o(4+1)3d\n3:3d(2+1)4n\n4:3o(4+1)5d\n5:5o(3+1)6d\n6:6o(2+1)7d\n7:7d(2+1)8n\n8:7o(4+1)9d\n9:9o(6+2)10d\n10:10d(5+1)11n\n11:5o(6+1)12d\n12:12o(2+1)13d\n13:13d(2+1)14n\n", "smiles": "O1C(O)[C@H](NC(C)=O)[C@@H](O)[C@H](O[C@@H]2O[C@H](CO)[C@@H](O[C@@H]3O[C@H](CO[C@H]4O[C@H](CO)[C@@H](O)[C@H](O)[C@@H]4O[C@@H]5O[C@H](CO)[C@@H](O)[C@H](O)[C@H]5NC(C)=O)[C@@H](O)[C@H](O[C@H]4O[C@H](CO)[C@@H](O)[C@H](O)[C@@H]4O[C@@H]5O[C@H](CO)[C@@H](O[C@@H]6O[C@H](CO[C@]7(C(=O)O)C[C@H](O)[C@@H](NC(=O)CO)[C@H]([C@H](O)[C@H](O)CO)O7)[C@H](O)[C@H](O)[C@H]6O)[C@H](O)[C@H]5NC(C)=O)[C@@H]3O)[C@H](O)[C@H]2NC(C)=O)[C@H]1CO", "oxford": null, "mass": 1785.63, "motifs": [ { "motif": "G00030MO", "motif_label": "N-Glycan complex" }, { "motif": "G00055MO", "motif_label": "Type 2 LN" }, { "motif": "G00055MO", "motif_label": "N-acetyllactosamine" } ], "termini": [ "GlcNAc(b1-2)", "Neu5Gc(a2-6)" ], "components": { "GlcNAc": 4, "Man": 3, "Neu5Gc": 1, "Gal": 1 }, "composition": { "Hex": 4, "HexNAc": 4, "Neu5Gc": 1 }, "rot_bonds": 1, "hbond_donor": 5, "hbond_acceptor": 6, "entropy": 13.578370580203336, "clusters": { "Cluster 0": 29.72, "Cluster 1": 24.68, "Cluster 2": 18.22, "Cluster 3": 17.02, "Cluster 4": 10.36 }, "coverage_clusters": { "Cluster 0": 19.6043, "Cluster 1": 14.1273, "Cluster 2": 9.9228, "Cluster 3": 7.9567, "Cluster 4": 7.063, "Cluster 5": 6.3331, "Cluster 6": 3.3759, "Cluster 7": 3.3072, "Cluster 8": 3.2984, "Cluster 9": 2.9097, "Cluster 10": 2.8235, "Cluster 11": 2.3085, "Cluster 12": 1.9048, "Cluster 13": 1.7273, "Cluster 14": 1.6811, "Cluster 15": 1.6198, "Cluster 16": 1.4336, "Cluster 17": 1.3349, "Cluster 18": 1.1561, "Cluster 19": 1.1474, "Cluster 20": 1.1036, "Cluster 21": 0.9987, "Cluster 22": 0.8724, "Cluster 23": 0.7737, "Cluster 24": 0.7387, "Cluster 25": 0.2375, "Cluster 26": 0.21, "Cluster 27": 0.03 }, "silhouette_scores": { "2": 0.43158670921810566, "3": 0.3588668879014211, "4": 0.3325790721785507, "5": 0.303202285345029, "6": 0.29323713091414066, "7": 0.24061436524995045, "8": 0.24991580708883745 }, "coverage_clusters_per_main": { "0": [ 2, 4, 9, 13, 15, 26, 27 ], "1": [ 7, 14, 16 ], "2": [ 5, 6, 11, 19, 21, 25 ], "3": [ 1, 3, 8, 12, 20, 22 ], "4": [ 0, 10, 17, 18, 23, 24 ] }, "pca_variance": { "explained_variance_ratio": [ 0.21062201203287406, 0.08399851794237596, 0.07812276284223975, 0.0624928098734692, 0.04590484636940545, 0.03587936497773684, 0.02572732836264793, 0.024457574330042944, 0.02128763926594429, 0.018215600215338048 ], "cumulative_variance": [ 0.21062201203287406, 0.29462052997525, 0.37274329281748975, 0.43523610269095897, 0.4811409490603644, 0.5170203140381012, 0.5427476424007491, 0.567205216730792, 0.5884928559967364, 0.6067084562120745 ], "n_components": 10 }, "length": 4.0, "package": "GROMACS", "forcefield": "GLYCAM_06j", "temperature": 300.0, "pressure": 1.0, "salt": "150" }, "alpha": { "ID": "GS00019", "name": "DNeup5Gca2-6DGalpb1-4DGlcpNAcb1-2DManpa1-3[DGlcpNAcb1-2DManpa1-6]DManpb1-4DGlcpNAcb1-4DGlcpNAca1-OH", "glycam": "DNeup5Gca2-6DGalpb1-4DGlcpNAcb1-2DManpa1-3[DGlcpNAcb1-2DManpa1-6]DManpb1-4DGlcpNAcb1-4DGlcpNAca1-OH", "iupac": "Neu5Gc(a2-6)Gal(b1-4)GlcNAc(b1-2)Man(a1-3)[GlcNAc(b1-2)Man(a1-6)]Man(b1-4)GlcNAc(b1-4)GlcNAc(a1-", "iupac_extended": "α-D-Neup5Gc-(2→6)-β-D-Galp-(1→4)-β-D-GlcpNAc-(1→2)-α-D-Manp-(1→3)[β-D-GlcpNAc-(1→2)-α-D-Manp-(1→6)]-β-D-Manp-(1→4)-β-D-GlcpNAc-(1→4)-α-D-GlcpNAc-(1→", "glytoucan": "G93053DY", "wurcs": "WURCS=2.0/6,9,8/[a2122h-1a_1-5_2*NCC/3=O][a2122h-1b_1-5_2*NCC/3=O][a1122h-1b_1-5][a1122h-1a_1-5][a2112h-1b_1-5][Aad21122h-2a_2-6_5*NCCO/3=O]/1-2-3-4-2-5-6-4-2/a4-b1_b4-c1_c3-d1_c6-h1_d2-e1_e4-f1_f6-g2_h2-i1" }, "beta": { "ID": "GS00019", "name": "DNeup5Gca2-6DGalpb1-4DGlcpNAcb1-2DManpa1-3[DGlcpNAcb1-2DManpa1-6]DManpb1-4DGlcpNAcb1-4DGlcpNAca1-OH", "glycam": "DNeup5Gca2-6DGalpb1-4DGlcpNAcb1-2DManpa1-3[DGlcpNAcb1-2DManpa1-6]DManpb1-4DGlcpNAcb1-4DGlcpNAcb1-OH", "iupac": "Neu5Gc(a2-6)Gal(b1-4)GlcNAc(b1-2)Man(a1-3)[GlcNAc(b1-2)Man(a1-6)]Man(b1-4)GlcNAc(b1-4)GlcNAc(b1-", "iupac_extended": "α-D-Neup5Gc-(2→6)-β-D-Galp-(1→4)-β-D-GlcpNAc-(1→2)-α-D-Manp-(1→3)[β-D-GlcpNAc-(1→2)-α-D-Manp-(1→6)]-β-D-Manp-(1→4)-β-D-GlcpNAc-(1→4)-β-D-GlcpNAc-(1→", "glytoucan": "G30370YC", "wurcs": "WURCS=2.0/5,9,8/[a2122h-1b_1-5_2*NCC/3=O][a1122h-1b_1-5][a1122h-1a_1-5][a2112h-1b_1-5][Aad21122h-2a_2-6_5*NCCO/3=O]/1-1-2-3-1-4-5-3-1/a4-b1_b4-c1_c3-d1_c6-h1_d2-e1_e4-f1_f6-g2_h2-i1" }, "search_meta": { "common_names": [], "description": "", "keywords": [ "Biantennary N-Glycan", "Complex N-Glycan", "N-Glycan" ] } }