SMTL ID : 1rzg.2 (1 other biounit)

Crystal structure of Human anti-HIV-1 GP120 reactive antibody 412d

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-1-1-mer

Ligands

3 x GLC- FRU: beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose(Non-covalent)

GLC-FRU.1: 8 residues within 4Å: Chain A: Y.60, Q.65, G.66, R.67, V.68, S.69 Ligands: GLC-FRU.2, GLC-FRU.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.65, A:G.66, A:V.68 GLC-FRU.2: 9 residues within 4Å: Chain A: I.51, N.56, A.58, Y.60, S.69, I.70, T.71 Ligands: GLC-FRU.1, GLC-FRU.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.70, A:S.69, A:S.69 GLC-FRU.3: 9 residues within 4Å: Chain A: R.38, Q.43, G.44, L.45, E.46, R.63 Chain B: T.97, F.98, Q.100 9 PLIP interactions: 2 interactions with chain B, 7 interactions with chain A Hydrogen bonds: B:F.98, B:F.98, B:Q.100, A:E.46, B:Q.100, B:Q.100, A:R.38, A:Q.43, A:G.44, A:L.45, A:R.63, A:R.63 Water bridges: B:M.4, B:F.98, A:W.47, A:L.45

1 x CYS: CYSTEINE(Non-covalent)

CYS.4: 2 residues within 4Å: Chain B: C.214 Ligands: ASP.5 3 PLIP interactions: 3 Ligand-Ligand interactions Water bridges: D.5, D.5, D.5

1 x ASP: ASPARTIC ACID(Non-functional Binders)

ASP.5: 1 residues within 4Å: Ligands: CYS.4 3 PLIP interactions: 3 Ligand-Ligand interactions Water bridges: C.4, C.4, C.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huang, C.C. et al., Structural basis of tyrosine sulfation and VH-gene usage in antibodies that recognize the HIV type 1 coreceptor-binding site on gp120. Proc.Natl.Acad.Sci.USA (2004)

Release Date

2004-02-03

Peptides

Fab 412d light chain: A
Fab 412d heavy chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Fab 412d light chain

Fab 412d heavy chain

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