- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- homo-trimer
- Ligands
- 21 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 18 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
NAG-NAG-BMA.2: 2 residues within 4Å:- Chain A: N.158, K.169
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.3: 3 residues within 4Å:- Chain A: V.85, N.227, N.239
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.5: 3 residues within 4Å:- Chain A: N.274, T.276, N.277
1 PLIP interactions:1 interactions with chain A- Hydrophobic interactions: A:N.277
NAG-NAG-BMA.8: 4 residues within 4Å:- Chain A: N.293, H.327, N.329, T.405
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.10: 4 residues within 4Å:- Chain A: N.358, T.390, I.459, R.461
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.11: 4 residues within 4Å:- Chain A: N.382, T.384, R.411
- Ligands: NAG-NAG-BMA.12
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.12: 3 residues within 4Å:- Chain A: N.388
- Ligands: NAG-NAG-BMA.11, NAG-NAG-BMA.11
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.14: 4 residues within 4Å:- Chain B: L.86, E.87, N.88, S.520
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.21: 5 residues within 4Å:- Chain B: N.299, N.300, T.301, E.318, I.320
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.22: 3 residues within 4Å:- Chain B: N.329, T.407
- Ligands: NAG-NAG.20
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.25: 3 residues within 4Å:- Chain B: N.358, H.359, R.461
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.26: 2 residues within 4Å:- Chain B: N.382, T.384
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.32: 6 residues within 4Å:- Chain C: K.132, N.154, Y.171, L.173, G.317, E.318
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.34: 8 residues within 4Å:- Chain C: E.83, V.85, E.87, N.227, D.228, K.229, N.239, S.241
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.39: 3 residues within 4Å:- Chain C: N.293, N.329
- Ligands: NAG-NAG.37
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.43: 4 residues within 4Å:- Chain C: V.368, N.382, T.384, Q.385
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.44: 2 residues within 4Å:- Chain C: Q.385, N.388
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.48: 2 residues within 4Å:- Chain C: N.629, Y.630
No protein-ligand interaction detected (PLIP)- 4 x NAG- NAG- BMA- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
NAG-NAG-BMA-MAN-MAN-MAN-MAN.4: 12 residues within 4Å:- Chain A: E.209, R.250, V.252, L.259, N.260, E.291, N.373, C.374, C.437, S.438, S.439
- Ligands: NAG-NAG-BMA-MAN.13
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:E.209, A:S.438
NAG-NAG-BMA-MAN-MAN-MAN-MAN.18: 17 residues within 4Å:- Chain B: E.64, S.207, E.209, P.210, R.250, V.252, L.259, N.260, N.373, C.374, G.375, I.431, R.432, R.436, S.438, S.439
- Ligands: NAG-NAG-BMA-MAN.28
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:R.436
NAG-NAG-BMA-MAN-MAN-MAN-MAN.35: 13 residues within 4Å:- Chain C: S.207, E.209, R.250, L.259, N.260, F.372, N.373, C.374, G.375, I.431, R.432, S.438
- Ligands: NAG-NAG-BMA-MAN-MAN-MAN-MAN.45
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:G.375
NAG-NAG-BMA-MAN-MAN-MAN-MAN.45: 3 residues within 4Å:- Chain C: N.260, N.440
- Ligands: NAG-NAG-BMA-MAN-MAN-MAN-MAN.35
No protein-ligand interaction detected (PLIP)- 3 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
NAG-NAG-BMA-MAN.13: 5 residues within 4Å:- Chain A: R.250, N.260, E.291, N.440
- Ligands: NAG-NAG-BMA-MAN-MAN-MAN-MAN.4
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA-MAN.17: 4 residues within 4Å:- Chain B: V.85, E.87, N.227, N.239
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA-MAN.28: 4 residues within 4Å:- Chain B: N.260, S.289, N.440
- Ligands: NAG-NAG-BMA-MAN-MAN-MAN-MAN.18
No protein-ligand interaction detected (PLIP)- 2 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose
NAG-NAG-FUC.29: 5 residues within 4Å:- Chain B: N.603, S.605, W.606, Y.630, E.633
2 PLIP interactions:2 interactions with chain B- Hydrophobic interactions: B:W.606
- Hydrogen bonds: B:E.633
NAG-NAG-FUC.46: 4 residues within 4Å:- Chain C: N.603, S.605, W.606, E.633
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:S.605
- 6 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
NAG.49: 2 residues within 4Å:- Chain A: E.87, N.88
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:E.87, A:N.88
NAG.50: 1 residues within 4Å:- Chain A: N.135
No protein-ligand interaction detected (PLIP)NAG.51: 3 residues within 4Å:- Chain A: E.351, N.352
- Ligands: NAG.52
No protein-ligand interaction detected (PLIP)NAG.52: 4 residues within 4Å:- Chain A: N.352, N.393, N.394
- Ligands: NAG.51
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:N.352
NAG.54: 1 residues within 4Å:- Chain B: N.608
No protein-ligand interaction detected (PLIP)NAG.56: 1 residues within 4Å:- Chain C: N.608
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:N.608
- 3 x 83G: 1-[(2R)-4-(benzenecarbonyl)-2-methylpiperazin-1-yl]-2-(4-methoxy-1H-pyrrolo[2,3-b]pyridin-3-yl)ethane-1,2-dione(Non-covalent)
83G.53: 15 residues within 4Å:- Chain A: I.109, W.112, D.113, L.116, V.253, S.371, F.378, I.416, N.417, M.418, W.419, K.424, A.425, M.426, M.467
9 PLIP interactions:9 interactions with chain A- Hydrophobic interactions: A:W.112, A:V.253, A:V.253, A:F.378, A:I.416, A:W.419, A:K.424, A:M.426
- pi-Stacking: A:W.419
83G.55: 14 residues within 4Å:- Chain B: I.109, W.112, L.116, V.253, S.371, F.378, I.416, N.417, M.418, W.419, K.424, A.425, M.426, M.467
7 PLIP interactions:7 interactions with chain B- Hydrophobic interactions: B:W.112, B:V.253, B:V.253, B:F.378, B:F.378, B:I.416
- pi-Stacking: B:W.419
83G.57: 14 residues within 4Å:- Chain C: I.109, W.112, D.113, L.116, V.253, S.371, I.416, N.417, M.418, W.419, K.424, A.425, M.426, M.467
6 PLIP interactions:6 interactions with chain C- Hydrophobic interactions: C:W.112, C:V.253, C:I.416, C:M.426
- pi-Stacking: C:F.378, C:W.419
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Zhang, S. et al., Asymmetric Structures and Conformational Plasticity of the Uncleaved Full-Length Human Immunodeficiency Virus Envelope Glycoprotein Trimer. J.Virol. (2021)
- Release Date
- 2021-09-22
- Peptides
- Envelope glycoprotein gp160: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C
- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- homo-trimer
- Ligands
- 21 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 18 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 4 x NAG- NAG- BMA- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 3 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 2 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose
- 6 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 3 x 83G: 1-[(2R)-4-(benzenecarbonyl)-2-methylpiperazin-1-yl]-2-(4-methoxy-1H-pyrrolo[2,3-b]pyridin-3-yl)ethane-1,2-dione(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Zhang, S. et al., Asymmetric Structures and Conformational Plasticity of the Uncleaved Full-Length Human Immunodeficiency Virus Envelope Glycoprotein Trimer. J.Virol. (2021)
- Release Date
- 2021-09-22
- Peptides
- Envelope glycoprotein gp160: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C