SMTL ID : 3hi1.1

Structure of HIV-1 gp120 (core with V3) in Complex with CD4-Binding-Site Antibody F105

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

hetero-2-2-2-mer

Ligands

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

NAG.1: 4 residues within 4Å: Chain A: F.71, N.72, T.74, P.76 Ligand excluded by PLIP NAG.2: 3 residues within 4Å: Chain A: K.69, T.78, N.79 Ligand excluded by PLIP NAG.3: 9 residues within 4Å: Chain A: P.50, V.92, N.100, N.214, R.273, C.274, S.275, S.276 Ligands: NAG.12 Ligand excluded by PLIP NAG.4: 3 residues within 4Å: Chain A: N.114, T.116, N.117 Ligand excluded by PLIP NAG.5: 7 residues within 4Å: Chain A: E.106, E.107, I.108, N.127, E.128, Q.181, K.185 Ligand excluded by PLIP NAG.6: 2 residues within 4Å: Chain A: N.133 Ligands: NAG.8 Ligand excluded by PLIP NAG.7: 4 residues within 4Å: Chain A: R.136, N.138, N.139, Q.251 Ligand excluded by PLIP NAG.8: 5 residues within 4Å: Chain A: N.133, H.167, N.169, N.242 Ligands: NAG.6 Ligand excluded by PLIP NAG.9: 3 residues within 4Å: Chain A: N.193, K.194, G.293 Ligand excluded by PLIP NAG.10: 3 residues within 4Å: Chain A: N.223, T.225, Q.226 Ligand excluded by PLIP NAG.11: 2 residues within 4Å: Chain A: N.231, D.232 Ligand excluded by PLIP NAG.12: 5 residues within 4Å: Chain A: L.103, S.129, V.131, N.277 Ligands: NAG.3 Ligand excluded by PLIP NAG.13: 1 residues within 4Å: Chain A: N.292 Ligand excluded by PLIP NAG.14: 3 residues within 4Å: Chain D: N.72, T.74, P.76 Ligand excluded by PLIP NAG.15: 2 residues within 4Å: Chain D: T.78, N.79 Ligand excluded by PLIP NAG.16: 9 residues within 4Å: Chain D: P.50, V.92, N.100, N.214, R.273, C.274, S.275, S.276 Ligands: NAG.26 Ligand excluded by PLIP NAG.17: 3 residues within 4Å: Chain D: N.114, T.116, N.117 Ligand excluded by PLIP NAG.18: 7 residues within 4Å: Chain D: E.106, E.107, I.108, N.127, E.128, Q.181, K.185 Ligand excluded by PLIP NAG.19: 4 residues within 4Å: Chain D: N.133, N.169, L.170 Ligands: NAG.25 Ligand excluded by PLIP NAG.20: 2 residues within 4Å: Chain D: P.137, N.139 Ligand excluded by PLIP NAG.21: 7 residues within 4Å: Chain D: N.133, R.164, H.167, N.169, N.242, T.244 Ligands: NAG.25 Ligand excluded by PLIP NAG.22: 1 residues within 4Å: Chain D: N.193 Ligand excluded by PLIP NAG.23: 3 residues within 4Å: Chain D: N.223, T.225, P.246 Ligand excluded by PLIP NAG.24: 1 residues within 4Å: Chain D: N.231 Ligand excluded by PLIP NAG.25: 5 residues within 4Å: Chain D: N.169, R.241, N.242 Ligands: NAG.19, NAG.21 Ligand excluded by PLIP NAG.26: 5 residues within 4Å: Chain A: R.273 Chain D: S.275, S.276, N.277 Ligands: NAG.16 Ligand excluded by PLIP NAG.27: 3 residues within 4Å: Chain D: K.289, T.291, N.292 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, L. et al., Structural basis of immune evasion at the site of CD4 attachment on HIV-1 gp120. Science (2009)

Release Date

2009-11-17

Peptides

Glycoprotein 120: AD
F105 Light Chain: BE
F105 Heavy Chain: CF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

D
J

B
L

E
A

C
H

F
B

Glycoprotein 120

F105 Light Chain

F105 Heavy Chain

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