SMTL ID : 3jwo.1

Structure of HIV-1 gp120 with gp41-Interactive Region: Layered Architecture and Basis of Conformational Mobility

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.51 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

1 x NAG- FUL: beta-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-FUL.1: 8 residues within 4Å: Chain A: E.161, E.162, E.163, V.164, N.183, T.184, Q.209, K.213 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.184, A:V.164, A:N.183 Hydrophobic interactions: A:Q.209

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

NAG.2: 1 residues within 4Å: Chain A: N.55 No protein-ligand interaction detected (PLIP) NAG.3: 5 residues within 4Å: Chain A: N.124, T.126, P.132, T.134 Ligands: NAG.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.134, A:T.134 NAG.4: 4 residues within 4Å: Chain A: N.128, T.130, P.132 Ligands: NAG.3 No protein-ligand interaction detected (PLIP) NAG.5: 2 residues within 4Å: Chain A: N.123, N.135 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.135 NAG.6: 10 residues within 4Å: Chain A: E.105, P.106, V.148, L.155, N.156, N.242, C.305, S.306, S.307 Ligands: NAG.11 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.148, A:L.155 Hydrogen bonds: A:N.156, A:S.307, A:S.307 NAG.7: 3 residues within 4Å: Chain A: N.170, T.172, D.173 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:D.173, B:K.30 NAG.8: 4 residues within 4Å: Chain A: N.251, T.253, Q.254 Ligands: NAG.9 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.251, A:T.253 NAG.9: 3 residues within 4Å: Chain A: Q.254, N.257 Ligands: NAG.8 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.257 NAG.10: 4 residues within 4Å: Chain A: N.262, S.263, T.264, S.325 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.264 NAG.11: 5 residues within 4Å: Chain A: S.185, S.306, S.307, N.308 Ligands: NAG.6 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.306

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pancera, M. et al., Structure of HIV-1 gp120 with gp41-interactive region reveals layered envelope architecture and basis of conformational mobility. Proc.Natl.Acad.Sci.USA (2010)

Release Date

2009-12-29

Peptides

HIV-1 GP120 ENVELOPE GLYCOPROTEIN: A
T-cell surface glycoprotein CD4: B
FAB 48D LIGHT CHAIN: C
FAB 48D Heavy CHAIN: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

C
L

D
H

HIV-1 GP120 ENVELOPE GLYCOPROTEIN

T-cell surface glycoprotein CD4

FAB 48D LIGHT CHAIN

FAB 48D Heavy CHAIN

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