SMTL ID : 8t4k.1

MD64 N332-GT5 SOSIP

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-mer

Ligands

3 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 11 residues within 4Å: Chain A: E.181, P.182, V.224, L.231, N.232, N.346, G.348, C.413, V.414, S.415 Ligands: NAG.14 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.414 NAG-NAG.2: 11 residues within 4Å: Chain C: E.181, P.182, V.224, L.231, N.232, N.346, G.348, C.413, V.414, S.415 Ligands: NAG.25 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:V.414 NAG-NAG.3: 11 residues within 4Å: Chain E: E.181, P.182, V.224, L.231, N.232, N.346, G.348, C.413, V.414, S.415 Ligands: NAG.36 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:V.414

33 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.4: 4 residues within 4Å: Chain A: E.57, N.58 Chain B: G.13, S.17 Ligand excluded by PLIP NAG.5: 5 residues within 4Å: Chain A: Y.104, N.118, Y.135, G.289, D.290 Ligand excluded by PLIP NAG.6: 4 residues within 4Å: Chain A: Q.100, S.120, F.121, N.122 Ligand excluded by PLIP NAG.7: 5 residues within 4Å: Chain A: V.144, R.162, N.167, T.168 Chain C: R.278 Ligand excluded by PLIP NAG.8: 5 residues within 4Å: Chain A: N.204, T.206, I.242, S.244, H.321 Ligand excluded by PLIP NAG.9: 3 residues within 4Å: Chain A: N.246, T.248, N.249 Ligand excluded by PLIP NAG.10: 5 residues within 4Å: Chain A: Q.263, N.265, N.301, S.303, R.412 Ligand excluded by PLIP NAG.11: 3 residues within 4Å: Chain A: N.271, L.292, V.410 Ligand excluded by PLIP NAG.12: 5 residues within 4Å: Chain A: N.265, T.267, H.299, N.301, I.383 Ligand excluded by PLIP NAG.13: 6 residues within 4Å: Chain A: Q.332, T.341, T.342, N.355, S.357, W.387 Ligand excluded by PLIP NAG.14: 5 residues within 4Å: Chain A: N.232, P.261, V.414, N.416 Ligands: NAG-NAG.1 Ligand excluded by PLIP NAG.15: 4 residues within 4Å: Chain C: E.57, N.58 Chain D: G.13, S.17 Ligand excluded by PLIP NAG.16: 5 residues within 4Å: Chain C: Y.104, N.118, Y.135, G.289, D.290 Ligand excluded by PLIP NAG.17: 4 residues within 4Å: Chain C: Q.100, S.120, F.121, N.122 Ligand excluded by PLIP NAG.18: 5 residues within 4Å: Chain C: V.144, R.162, N.167, T.168 Chain E: R.278 Ligand excluded by PLIP NAG.19: 5 residues within 4Å: Chain C: N.204, T.206, I.242, S.244, H.321 Ligand excluded by PLIP NAG.20: 3 residues within 4Å: Chain C: N.246, T.248, N.249 Ligand excluded by PLIP NAG.21: 5 residues within 4Å: Chain C: Q.263, N.265, N.301, S.303, R.412 Ligand excluded by PLIP NAG.22: 3 residues within 4Å: Chain C: N.271, L.292, V.410 Ligand excluded by PLIP NAG.23: 5 residues within 4Å: Chain C: N.265, T.267, H.299, N.301, I.383 Ligand excluded by PLIP NAG.24: 6 residues within 4Å: Chain C: Q.332, T.341, T.342, N.355, S.357, W.387 Ligand excluded by PLIP NAG.25: 5 residues within 4Å: Chain C: N.232, P.261, V.414, N.416 Ligands: NAG-NAG.2 Ligand excluded by PLIP NAG.26: 4 residues within 4Å: Chain E: E.57, N.58 Chain F: G.13, S.17 Ligand excluded by PLIP NAG.27: 5 residues within 4Å: Chain E: Y.104, N.118, Y.135, G.289, D.290 Ligand excluded by PLIP NAG.28: 4 residues within 4Å: Chain E: Q.100, S.120, F.121, N.122 Ligand excluded by PLIP NAG.29: 5 residues within 4Å: Chain A: R.278 Chain E: V.144, R.162, N.167, T.168 Ligand excluded by PLIP NAG.30: 5 residues within 4Å: Chain E: N.204, T.206, I.242, S.244, H.321 Ligand excluded by PLIP NAG.31: 3 residues within 4Å: Chain E: N.246, T.248, N.249 Ligand excluded by PLIP NAG.32: 5 residues within 4Å: Chain E: Q.263, N.265, N.301, S.303, R.412 Ligand excluded by PLIP NAG.33: 3 residues within 4Å: Chain E: N.271, L.292, V.410 Ligand excluded by PLIP NAG.34: 5 residues within 4Å: Chain E: N.265, T.267, H.299, N.301, I.383 Ligand excluded by PLIP NAG.35: 6 residues within 4Å: Chain E: Q.332, T.341, T.342, N.355, S.357, W.387 Ligand excluded by PLIP NAG.36: 5 residues within 4Å: Chain E: N.232, P.261, V.414, N.416 Ligands: NAG-NAG.3 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Steichen, J.M. et al., Vaccine priming of rare HIV broadly neutralizing antibody precursors in nonhuman primates. Science (2024)

Release Date

2024-05-08

Peptides

MD64 N332-GT5 SOSIP gp120: ACE
MD64 N332-GT5 SOSIP gp41: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
D

B
B

D
E

F
F

MD64 N332-GT5 SOSIP gp120

MD64 N332-GT5 SOSIP gp41

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