- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- hetero-3-3-3-3-1-1-mer
- Ligands
- 7 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: 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.3: 8 residues within 4Å:- Chain A: S.179, V.224, L.231, N.232, N.346, G.348, S.415
- Ligands: NAG.18
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:G.348, A:S.179
NAG-NAG-BMA-MAN.6: 9 residues within 4Å:- Chain E: E.181, V.224, L.231, N.232, N.346, G.348, V.414, S.415
- Ligands: NAG.32
1 PLIP interactions:1 interactions with chain E- Hydrogen bonds: E:S.179
- 42 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
NAG.10: 3 residues within 4Å:- Chain A: N.271, L.292, Q.408
Ligand excluded by PLIPNAG.11: 3 residues within 4Å:- Chain A: E.57, N.58
- Chain D: S.17
Ligand excluded by PLIPNAG.12: 5 residues within 4Å:- Chain A: Q.100, S.120, F.121, N.122, K.133
Ligand excluded by PLIPNAG.13: 2 residues within 4Å:- Chain A: N.167
- Chain I: R.278
Ligand excluded by PLIPNAG.14: 3 residues within 4Å:- Chain A: N.204, T.206, S.244
Ligand excluded by PLIPNAG.15: 3 residues within 4Å:- Chain A: N.246, T.248, N.249
Ligand excluded by PLIPNAG.16: 5 residues within 4Å:- Chain A: Q.263, N.265, N.301, S.303
- Ligands: NAG-NAG.1
Ligand excluded by PLIPNAG.17: 4 residues within 4Å:- Chain A: T.341, T.342, N.355, S.357
Ligand excluded by PLIPNAG.18: 4 residues within 4Å:- Chain A: P.261, Q.263, N.416
- Ligands: NAG-NAG-BMA-MAN.3
Ligand excluded by PLIPNAG.19: 1 residues within 4Å:- Chain A: N.324
Ligand excluded by PLIPNAG.20: 2 residues within 4Å:- Chain D: N.100, S.102
Ligand excluded by PLIPNAG.21: 2 residues within 4Å:- Chain D: N.107, E.110
Ligand excluded by PLIPNAG.22: 4 residues within 4Å:- Chain D: K.122, E.123, N.126, Y.127
Ligand excluded by PLIPNAG.23: 2 residues within 4Å:- Chain E: N.271, L.292
Ligand excluded by PLIPNAG.24: 4 residues within 4Å:- Chain E: E.57, N.58
- Chain H: G.16, S.17
Ligand excluded by PLIPNAG.25: 4 residues within 4Å:- Chain E: Q.100, S.120, F.121, N.122
Ligand excluded by PLIPNAG.26: 3 residues within 4Å:- Chain E: V.144, R.162, N.167
Ligand excluded by PLIPNAG.27: 3 residues within 4Å:- Chain E: N.204, T.206, S.244
Ligand excluded by PLIPNAG.28: 3 residues within 4Å:- Chain E: N.246, T.248, N.249
Ligand excluded by PLIPNAG.29: 4 residues within 4Å:- Chain E: Q.263, N.265, N.301, S.303
Ligand excluded by PLIPNAG.30: 4 residues within 4Å:- Chain E: N.308, L.311, G.312, W.364
Ligand excluded by PLIPNAG.31: 4 residues within 4Å:- Chain E: T.342, N.355, S.357, W.387
Ligand excluded by PLIPNAG.32: 4 residues within 4Å:- Chain E: N.232, P.261, N.416
- Ligands: NAG-NAG-BMA-MAN.6
Ligand excluded by PLIPNAG.33: 2 residues within 4Å:- Chain E: S.357, N.361
Ligand excluded by PLIPNAG.34: 2 residues within 4Å:- Chain H: N.100, S.102
Ligand excluded by PLIPNAG.35: 2 residues within 4Å:- Chain H: N.107, S.109
Ligand excluded by PLIPNAG.36: 4 residues within 4Å:- Chain H: K.122, E.123, N.126, Y.127
Ligand excluded by PLIPNAG.37: 2 residues within 4Å:- Chain I: N.271, L.292
Ligand excluded by PLIPNAG.38: 4 residues within 4Å:- Chain I: E.57, N.58
- Chain L: G.16, S.17
Ligand excluded by PLIPNAG.39: 4 residues within 4Å:- Chain I: Q.100, S.120, F.121, N.122
Ligand excluded by PLIPNAG.40: 4 residues within 4Å:- Chain I: V.144, R.162, I.164, N.167
Ligand excluded by PLIPNAG.41: 3 residues within 4Å:- Chain I: N.204, T.206, S.244
Ligand excluded by PLIPNAG.42: 3 residues within 4Å:- Chain I: N.246, T.248, N.249
Ligand excluded by PLIPNAG.43: 4 residues within 4Å:- Chain I: Q.263, N.265, S.303, V.414
Ligand excluded by PLIPNAG.44: 4 residues within 4Å:- Chain I: N.308, E.309, G.312, W.364
Ligand excluded by PLIPNAG.45: 5 residues within 4Å:- Chain I: Q.332, T.341, T.342, N.355, W.387
Ligand excluded by PLIPNAG.46: 5 residues within 4Å:- Chain I: N.232, V.414, S.415, N.416
- Ligands: NAG-NAG.9
Ligand excluded by PLIPNAG.47: 1 residues within 4Å:- Chain I: N.324
Ligand excluded by PLIPNAG.48: 3 residues within 4Å:- Chain I: S.357, G.358, N.361
Ligand excluded by PLIPNAG.49: 2 residues within 4Å:- Chain L: N.100, S.102
Ligand excluded by PLIPNAG.50: 2 residues within 4Å:- Chain L: N.107, S.109
Ligand excluded by PLIPNAG.51: 3 residues within 4Å:- Chain L: E.123, N.126, Y.127
Ligand excluded by PLIP- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Xie, Z. et al., mRNA-LNP HIV-1 trimer boosters elicit precursors to broad neutralizing antibodies. Science (2024)
- Release Date
- 2024-05-15
- Peptides
- BG505_MD64_N332-GT5 gp120: AEI
RM20A3 Fab Heavy Chain: BFJ
RM20A3 Fab Light Chain: CGK
BG505_MD64_N332-GT5 gp41: DHL
V3-glycan epitope polyclonal Fab heavy chain: M
V3-glycan epitope polyclonal Fab light chain: N - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AE
EI
FB
CF
JJ
KC
DG
MK
ND
BH
GL
IM
HN
L
- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- hetero-3-3-3-3-1-1-mer
- Ligands
- 7 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: 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
- 42 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Xie, Z. et al., mRNA-LNP HIV-1 trimer boosters elicit precursors to broad neutralizing antibodies. Science (2024)
- Release Date
- 2024-05-15
- Peptides
- BG505_MD64_N332-GT5 gp120: AEI
RM20A3 Fab Heavy Chain: BFJ
RM20A3 Fab Light Chain: CGK
BG505_MD64_N332-GT5 gp41: DHL
V3-glycan epitope polyclonal Fab heavy chain: M
V3-glycan epitope polyclonal Fab light chain: N - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AE
EI
FB
CF
JJ
KC
DG
MK
ND
BH
GL
IM
HN
L