SMTL ID : 3hzm.1

Crystal structure of S73-2 antibody in complex with antigen Kdo

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

hetero-1-1-mer

Ligands

3 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: Y.55, E.61, S.62 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.61, H2O.5 MG.2: 5 residues within 4Å: Chain A: N.143, D.172, D.175, T.177 Chain B: H.176 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:H.176, H2O.1, H2O.3, H2O.5 MG.3: 3 residues within 4Å: Chain A: R.160, E.190, H.194 No protein-ligand interaction detected (PLIP)

1 x ZN: ZINC ION(Non-covalent)

ZN.4: 1 residues within 4Å: Chain B: E.61 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:E.61

1 x KDO: 3-deoxy-alpha-D-manno-oct-2-ulopyranosonic acid(Non-covalent)

KDO.5: 10 residues within 4Å: Chain A: N.31, Y.38, S.97, Y.98, R.101 Chain B: Y.33, F.50, R.52, I.102, D.111 12 PLIP interactions: 5 interactions with chain A, 7 interactions with chain B Hydrogen bonds: A:N.31, A:S.97, A:Y.98, A:R.101, A:R.101, B:Y.33, B:Y.33, B:Y.33 Hydrophobic interactions: B:I.102 Water bridges: B:K.56, B:K.56 Salt bridges: B:R.52

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brooks, C.L. et al., Antibodies raised against chlamydial lipopolysaccharide antigens reveal convergence in germline gene usage and differential epitope recognition. Biochemistry (2010)

Release Date

2010-01-12

Peptides

S73-2 Fab (IgG1k) light chain: A
S73-2 Fab (IgG1k) heavy chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

S73-2 Fab (IgG1k) light chain

S73-2 Fab (IgG1k) heavy chain

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