SMTL ID : 3tio.2 (1 other biounit)

Crystal structures of yrdA from Escherichia coli, a homologous protein of gamma-class carbonic anhydrase, show possible allosteric conformations

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.41 Å

Oligo State

homo-trimer

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.66, V.67, H.95 Chain C: H.90 4 PLIP interactions: 2 interactions with chain A, 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: A:H.66, A:H.95, C:H.90, H2O.17 ZN.3: 4 residues within 4Å: Chain A: H.90 Chain B: H.66, V.67, H.95 4 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:H.66, B:H.95, A:H.90, H2O.6 ZN.4: 5 residues within 4Å: Chain B: H.90 Chain C: H.66, V.67, H.69, H.95 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain B Metal complexes: C:H.66, C:H.69, C:H.95, B:H.90

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 4 residues within 4Å: Chain A: K.91 Chain B: K.91 Chain C: K.91 Ligands: PO4.5 5 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A, 2 interactions with chain C Hydrogen bonds: B:K.91, C:K.91 Salt bridges: B:K.91, A:K.91, C:K.91 PO4.5: 9 residues within 4Å: Chain A: L.41, G.62 Chain B: L.41, G.62, K.91 Chain C: L.41, G.62, K.91 Ligands: PO4.2 12 PLIP interactions: 4 interactions with chain A, 4 interactions with chain B, 4 interactions with chain C Hydrogen bonds: A:G.62, B:G.62, C:L.41 Water bridges: A:K.91, A:K.91, B:K.91, B:K.91, C:K.91, C:K.91 Salt bridges: A:K.91, B:K.91, C:K.91

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Park, H.M. et al., Structures of the gamma-class carbonic anhydrase homologue YrdA suggest a possible allosteric switch. Acta Crystallogr.,Sect.D (2012)

Release Date

2012-08-01

Peptides

Protein YrdA: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
E

C
F

Protein YrdA

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