SMTL ID : 4jam.2 (1 other biounit)

Crystal structure of broadly neutralizing anti-hiv-1 antibody ch103

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

hetero-1-1-mer

Ligands

9 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 2 residues within 4Å: Chain A: K.214, D.216 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.216 Salt bridges: A:K.214 SO4.2: 3 residues within 4Å: Chain A: P.131, K.217 Chain B: E.120 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.218 Salt bridges: A:K.217 SO4.3: 5 residues within 4Å: Chain A: K.151, D.152, Q.179 Chain B: K.126, S.176 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:Q.179, A:Q.179, B:S.176 Water bridges: A:K.151 Salt bridges: A:K.151, B:K.126 SO4.8: 5 residues within 4Å: Chain B: T.101, R.104, Y.137, K.163, Y.169 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:Y.137 Water bridges: B:E.78, B:T.101, B:Y.137, B:K.163, B:K.163, B:Y.169 Salt bridges: B:R.104, B:K.163 SO4.9: 5 residues within 4Å: Chain A: Q.179, S.180 Chain B: G.155, E.157 Ligands: EDO.5 8 PLIP interactions: 3 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:Q.179, A:S.180, B:G.155, B:E.157, B:E.157 Water bridges: A:S.181, B:V.156, B:V.156 SO4.10: 4 residues within 4Å: Chain A: Y.107 Chain B: F.44, P.50, S.51 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Y.107, B:S.51 SO4.11: 5 residues within 4Å: Chain A: H.172 Chain B: K.163, Q.164, S.165 Ligands: EDO.6 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:S.165 Water bridges: B:N.166 Salt bridges: A:H.172 SO4.12: 3 residues within 4Å: Chain B: Q.181, H.185, Y.188 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.181 Water bridges: B:H.185, B:H.185 Salt bridges: B:H.185 SO4.13: 1 residues within 4Å: Chain B: K.201 4 PLIP interactions: 4 interactions with chain B Water bridges: B:V.112, B:K.201, B:K.201 Salt bridges: B:K.201

6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 4 residues within 4Å: Chain A: Q.102, L.103, V.104 Chain B: W.86 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:L.103, A:V.104 Water bridges: B:W.86 EDO.5: 10 residues within 4Å: Chain A: L.149, K.151, V.177, Q.179, S.185 Chain B: T.128, E.157, Y.174, S.176 Ligands: SO4.9 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:K.151 Water bridges: B:S.176 EDO.6: 4 residues within 4Å: Chain A: V.171, H.172, T.173 Ligands: SO4.11 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.173, A:T.173 EDO.7: 3 residues within 4Å: Chain A: T.17, R.81, R.83 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.81 EDO.14: 5 residues within 4Å: Chain B: A.147, D.148, S.149, S.150, R.186 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.149, B:S.149, B:S.150, B:S.150, B:R.186, B:R.186 EDO.15: 4 residues within 4Å: Chain B: N.46, K.61, S.62, G.63 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.63 Water bridges: B:K.61

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liao, H.X. et al., Co-evolution of a broadly neutralizing HIV-1 antibody and founder virus. Nature (2013)

Release Date

2013-04-03

Peptides

ANTIGEN BINDING FRAGMENT OF HEAVY CHAIN of CH103: A
ANTIGEN BINDING FRAGMENT OF LIGHT CHAIN of CH103: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

ANTIGEN BINDING FRAGMENT OF HEAVY CHAIN of CH103

ANTIGEN BINDING FRAGMENT OF LIGHT CHAIN of CH103

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