SMTL ID : 4nj9.1

Crystal structure of Fab 8B10 in complex with MPTS

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

hetero-1-1-mer

Ligands

6 x ZN: ZINC ION(Non-covalent)

ZN.1: 2 residues within 4Å: Chain A: E.189, H.193 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.189, A:E.189, A:H.193, H2O.6, H2O.6 ZN.2: 2 residues within 4Å: Chain A: E.27, E.97 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.27, A:E.27, A:E.97, A:E.97 ZN.3: 1 residues within 4Å: Chain A: E.217 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.217 ZN.4: 2 residues within 4Å: Chain A: D.1, I.2 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.1, H2O.6 ZN.5: 3 residues within 4Å: Chain A: D.155, R.192, H.193 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.155, A:H.193 ZN.7: 2 residues within 4Å: Chain A: N.142 Chain B: H.172 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.172, H2O.5, H2O.10

1 x 2M9: 8-methoxypyrene-1,3,6-trisulfonic acid(Non-covalent)

2M9.6: 11 residues within 4Å: Chain A: Y.32, I.34, F.36, R.54 Chain B: G.101, Y.102, G.103, S.104, R.105, G.106, Y.107 13 PLIP interactions: 6 interactions with chain A, 7 interactions with chain B Hydrophobic interactions: A:Y.32 Water bridges: A:R.54, A:R.54, B:S.104, B:Y.107, B:Y.107 Salt bridges: A:R.54, A:R.54, B:R.105 pi-Stacking: A:F.36 Hydrogen bonds: B:Y.102, B:G.103, B:R.105

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Adhikary, R. et al., Adaptive Mutations Alter Antibody Structure and Dynamics during Affinity Maturation. Biochemistry (2015)

Release Date

2014-11-12

Peptides

8B10 light chain: A
8B10 heavy chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
H

8B10 light chain

8B10 heavy chain