SMTL ID : 5gir.1 (1 other biounit)

Crystal structure of a Fab fragment with its ligand peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.93 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: R.78 Chain B: S.113, W.114 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:W.114 Salt bridges: A:R.78 SO4.2: 2 residues within 4Å: Chain A: S.180, G.181 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.181 Water bridges: A:V.182, A:V.182 SO4.3: 3 residues within 4Å: Chain A: P.231, R.232 Chain B: S.142 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:S.142 Water bridges: A:R.232 SO4.4: 2 residues within 4Å: Chain B: T.202, R.208 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.202 Water bridges: B:T.202 Salt bridges: B:R.208 SO4.5: 2 residues within 4Å: Chain B: D.37, S.38 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.38 SO4.6: 3 residues within 4Å: Chain B: P.28, A.29, T.30 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:A.29, B:T.30

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kitago, Y. et al., Structural basis for multi-specific peptide recognition by the anti-IDH1/2 monoclonal antibody, MsMab-1. Biochem. Biophys. Res. Commun. (2016)

Release Date

2016-09-14

Peptides

Heavy chain of Fab fragment: A
Light chain of Fab fragment: B
LYS-PRO-ILE-ILE-ILE-GLY-SER-HIS-ALA-TYR-GLY-ASP: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

C
C

Heavy chain of Fab fragment

Light chain of Fab fragment

LYS-PRO-ILE-ILE-ILE-GLY-SER-HIS-ALA-TYR-GLY-ASP

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