SMTL ID : 2ny7.2 (4 other biounits)

HIV-1 gp120 Envelope Glycoprotein Complexed with the Broadly Neutralizing CD4-Binding-Site Antibody b12

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-2-2-2-mer

Ligands

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

NAG.1: 4 residues within 4Å: Chain A: N.88, T.90, G.91, P.92 Ligand excluded by PLIP NAG.2: 3 residues within 4Å: Chain A: V.3, N.83, N.95 Ligand excluded by PLIP NAG.3: 10 residues within 4Å: Chain A: R.106, P.107, L.115, N.116, F.201, N.202, C.203, S.271, S.272 Ligands: NAG.12 Ligand excluded by PLIP NAG.4: 3 residues within 4Å: Chain A: N.130, T.132, D.133 Ligand excluded by PLIP NAG.5: 7 residues within 4Å: Chain A: E.122, E.123, V.124, N.143, T.144, Q.169, K.173 Ligand excluded by PLIP NAG.6: 4 residues within 4Å: Chain A: E.147, N.149, I.158, A.159 Ligand excluded by PLIP NAG.7: 3 residues within 4Å: Chain A: R.160, N.164, W.225 Ligand excluded by PLIP NAG.8: 9 residues within 4Å: Chain A: N.180, N.181 Chain D: F.178, G.179, N.180, N.181, K.182, N.288 Ligands: NAG.21 Ligand excluded by PLIP NAG.9: 8 residues within 4Å: Chain A: Q.188, N.211, T.213, Q.214, P.242 Chain B: S.103, W.104 Ligands: NAG.10 Ligand excluded by PLIP NAG.10: 3 residues within 4Å: Chain A: T.213, N.217 Ligands: NAG.9 Ligand excluded by PLIP NAG.11: 5 residues within 4Å: Chain A: T.183, I.185, T.219, N.222, S.223 Ligand excluded by PLIP NAG.12: 4 residues within 4Å: Chain A: N.116, S.145, N.273 Ligands: NAG.3 Ligand excluded by PLIP NAG.13: 1 residues within 4Å: Chain A: N.288 Ligand excluded by PLIP NAG.14: 4 residues within 4Å: Chain D: N.88, T.90, G.91, P.92 Ligand excluded by PLIP NAG.15: 3 residues within 4Å: Chain D: V.3, N.83, N.95 Ligand excluded by PLIP NAG.16: 10 residues within 4Å: Chain D: R.106, P.107, L.115, N.116, F.201, N.202, C.203, S.271, S.272 Ligands: NAG.25 Ligand excluded by PLIP NAG.17: 3 residues within 4Å: Chain D: N.130, T.132, D.133 Ligand excluded by PLIP NAG.18: 7 residues within 4Å: Chain D: E.122, E.123, V.124, N.143, T.144, Q.169, K.173 Ligand excluded by PLIP NAG.19: 4 residues within 4Å: Chain D: E.147, N.149, I.158, A.159 Ligand excluded by PLIP NAG.20: 3 residues within 4Å: Chain D: R.160, N.164, W.225 Ligand excluded by PLIP NAG.21: 9 residues within 4Å: Chain A: F.178, G.179, N.180, N.181, K.182, N.288 Chain D: N.180, N.181 Ligands: NAG.8 Ligand excluded by PLIP NAG.22: 8 residues within 4Å: Chain D: Q.188, N.211, T.213, Q.214, P.242 Chain E: S.103, W.104 Ligands: NAG.23 Ligand excluded by PLIP NAG.23: 3 residues within 4Å: Chain D: T.213, N.217 Ligands: NAG.22 Ligand excluded by PLIP NAG.24: 5 residues within 4Å: Chain D: T.183, I.185, T.219, N.222, S.223 Ligand excluded by PLIP NAG.25: 4 residues within 4Å: Chain D: N.116, S.145, N.273 Ligands: NAG.16 Ligand excluded by PLIP NAG.26: 1 residues within 4Å: Chain D: N.288 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, T. et al., Structural definition of a conserved neutralization epitope on HIV-1 gp120. Nature (2007)

Release Date

2007-02-06

Peptides

ENVELOPE GLYCOPROTEIN GP120: AD
ANTIBODY b12, HEAVY CHAIN: BE
ANTIBODY b12, LIGHT CHAIN: CF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

D
G

B
H

E
H

C
L

F
L

ENVELOPE GLYCOPROTEIN GP120

ANTIBODY b12, HEAVY CHAIN

ANTIBODY b12, LIGHT CHAIN

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