- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- hetero-3-3-1-1-mer
- Ligands
- 4 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 2 x NAG- NAG- BMA- MAN- MAN: 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.2: 9 residues within 4Å:- Chain A: E.216, L.266, N.267, N.381, G.383, C.448, V.449, S.450
- Ligands: NAG-NAG.1
3 PLIP interactions:3 interactions with chain A- Hydrophobic interactions: A:V.449
- Hydrogen bonds: A:G.383, A:V.449
NAG-NAG-BMA-MAN-MAN.4: 12 residues within 4Å:- Chain D: E.216, V.259, L.266, N.267, F.380, N.381, G.383, R.447, C.448, V.449, S.450
- Ligands: NAG.35
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:G.383, D:V.449
- 1 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
- 42 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
NAG.8: 6 residues within 4Å:- Chain A: Q.298, N.300, N.336, V.337, S.338, R.447
Ligand excluded by PLIPNAG.9: 1 residues within 4Å:- Chain A: N.138
Ligand excluded by PLIPNAG.10: 3 residues within 4Å:- Chain A: N.343, S.397, W.399
Ligand excluded by PLIPNAG.11: 4 residues within 4Å:- Chain A: N.367, S.368, S.392, N.396
Ligand excluded by PLIPNAG.12: 3 residues within 4Å:- Chain A: N.281, T.283, N.284
Ligand excluded by PLIPNAG.13: 3 residues within 4Å:- Chain A: E.92, N.93
- Chain B: S.17
Ligand excluded by PLIPNAG.14: 3 residues within 4Å:- Chain A: H.90, K.234, N.246
Ligand excluded by PLIPNAG.15: 6 residues within 4Å:- Chain A: V.139, N.141, N.153, Y.170, L.172, D.325
Ligand excluded by PLIPNAG.16: 3 residues within 4Å:- Chain A: N.202, T.203
- Chain D: R.313
Ligand excluded by PLIPNAG.17: 5 residues within 4Å:- Chain A: N.239, T.241, S.279, E.280, N.281
Ligand excluded by PLIPNAG.18: 4 residues within 4Å:- Chain A: N.300, T.302, H.334, N.336
Ligand excluded by PLIPNAG.19: 1 residues within 4Å:- Chain A: N.142
Ligand excluded by PLIPNAG.20: 3 residues within 4Å:- Chain A: Q.135, N.157, K.166
Ligand excluded by PLIPNAG.21: 4 residues within 4Å:- Chain A: E.272, E.273, N.294, E.295
Ligand excluded by PLIPNAG.22: 1 residues within 4Å:- Chain A: N.359
Ligand excluded by PLIPNAG.23: 2 residues within 4Å:- Chain A: N.390, S.392
Ligand excluded by PLIPNAG.24: 2 residues within 4Å:- Chain B: N.100, T.102
Ligand excluded by PLIPNAG.25: 4 residues within 4Å:- Chain B: K.122, E.123, S.125, N.126
Ligand excluded by PLIPNAG.26: 3 residues within 4Å:- Chain B: N.107, S.109, E.110
Ligand excluded by PLIPNAG.27: 4 residues within 4Å:- Chain C: K.122, E.123, S.125, N.126
Ligand excluded by PLIPNAG.28: 3 residues within 4Å:- Chain C: N.107, L.108, S.109
Ligand excluded by PLIPNAG.29: 2 residues within 4Å:- Chain D: N.138, K.152
Ligand excluded by PLIPNAG.30: 4 residues within 4Å:- Chain D: V.179, R.197, N.202, T.203
Ligand excluded by PLIPNAG.31: 4 residues within 4Å:- Chain D: N.300, T.302, H.334, N.336
Ligand excluded by PLIPNAG.32: 3 residues within 4Å:- Chain D: K.339, N.343, W.399
Ligand excluded by PLIPNAG.33: 5 residues within 4Å:- Chain D: Q.298, N.300, N.336, V.337, S.338
Ligand excluded by PLIPNAG.34: 1 residues within 4Å:- Chain D: N.246
Ligand excluded by PLIPNAG.35: 4 residues within 4Å:- Chain D: N.267, S.296, N.451
- Ligands: NAG-NAG-BMA-MAN-MAN.4
Ligand excluded by PLIPNAG.36: 4 residues within 4Å:- Chain D: E.273, E.274, N.294, K.348
Ligand excluded by PLIPNAG.37: 3 residues within 4Å:- Chain D: N.306, I.327, G.328
Ligand excluded by PLIPNAG.38: 4 residues within 4Å:- Chain D: Q.135, S.155, F.156, N.157
Ligand excluded by PLIPNAG.39: 3 residues within 4Å:- Chain C: S.17
- Chain D: E.92, N.93
Ligand excluded by PLIPNAG.40: 2 residues within 4Å:- Chain E: N.100, T.102
Ligand excluded by PLIPNAG.41: 4 residues within 4Å:- Chain E: K.122, E.123, S.125, N.126
Ligand excluded by PLIPNAG.42: 3 residues within 4Å:- Chain E: N.107, S.109, E.110
Ligand excluded by PLIPNAG.43: 4 residues within 4Å:- Chain F: E.272, E.273, N.294, K.348
Ligand excluded by PLIPNAG.44: 3 residues within 4Å:- Chain F: Q.298, N.300, N.336
Ligand excluded by PLIPNAG.45: 4 residues within 4Å:- Chain F: N.390, S.392
- Ligands: NAG-NAG.5, NAG-NAG.5
Ligand excluded by PLIPNAG.46: 3 residues within 4Å:- Chain F: N.138, T.140, G.149
Ligand excluded by PLIPNAG.47: 3 residues within 4Å:- Chain F: S.155, F.156, N.157
Ligand excluded by PLIPNAG.48: 4 residues within 4Å:- Chain F: N.300, T.302, H.334, N.336
Ligand excluded by PLIPNAG.49: 2 residues within 4Å:- Chain F: S.392, N.396
Ligand excluded by PLIP- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Cottrell, C.A. et al., Priming antibody responses to the fusion peptide in rhesus macaques. Npj Vaccines (2024)
- Release Date
- 2024-05-22
- Peptides
- Surface protein gp120: ADF
Transmembrane protein gp41: BCE
IF1 Heavy Chain: G
IF1 Light Chain: H - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AD
EF
FB
BC
CE
DG
HH
L
- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- hetero-3-3-1-1-mer
- Ligands
- 4 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 2 x NAG- NAG- BMA- MAN- MAN: 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
- 1 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
- 42 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Cottrell, C.A. et al., Priming antibody responses to the fusion peptide in rhesus macaques. Npj Vaccines (2024)
- Release Date
- 2024-05-22
- Peptides
- Surface protein gp120: ADF
Transmembrane protein gp41: BCE
IF1 Heavy Chain: G
IF1 Light Chain: H - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AD
EF
FB
BC
CE
DG
HH
L