SMTL ID : 1s7d.2 (1 other biounit)

Crystal structure of refined tetragonal crystal of YodA from Escherichia coli

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.17 Å

Oligo State

homo-dimer

Ligands

8 x ZN: ZINC ION(Non-covalent)

ZN.1: 2 residues within 4Å: Chain A: H.167, H.178 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.167, A:H.178, H2O.1, H2O.66, H2O.68 ZN.2: 3 residues within 4Å: Chain A: H.176, E.212, H.216 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.212, A:E.212, A:H.216 ZN.3: 3 residues within 4Å: Chain A: H.118, T.123 Chain B: E.116 4 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: A:H.118, B:E.116, B:E.116, H2O.162 ZN.4: 1 residues within 4Å: Chain A: D.47 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.47, H2O.37, H2O.80 ZN.5: 2 residues within 4Å: Chain B: H.167, H.178 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:H.167, B:H.178, H2O.84, H2O.149, H2O.151 ZN.6: 3 residues within 4Å: Chain B: H.176, E.212, H.216 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:E.212, B:E.212, B:H.216 ZN.7: 3 residues within 4Å: Chain A: E.116 Chain B: H.118, T.123 4 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: A:E.116, A:E.116, B:H.118, H2O.79 ZN.8: 1 residues within 4Å: Chain B: D.47 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.47, H2O.120, H2O.163

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shin, D.H. et al., Crystal structure of refined tetragonal crystal of YodA from Escherichia coli. TO BE PUBLISHED

Release Date

2004-08-10

Peptides

Metal-binding Protein yodA: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Metal-binding Protein yodA

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