SMTL ID : 2xb4.1

CRYSTAL STRUCTURES OF ZINC CONTAINING ADENYLATE KINASE FROM DESULFOVIBRIO GIGAS

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-tetramer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.129, H.135, C.151, C.154 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.129, A:H.135, A:C.151, A:C.154 ZN.3: 4 residues within 4Å: Chain B: C.129, H.135, C.151, C.154 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.129, B:H.135, B:C.151, B:C.154 ZN.5: 4 residues within 4Å: Chain C: C.129, H.135, C.151, C.154 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.129, C:H.135, C:C.151, C:C.154 ZN.7: 4 residues within 4Å: Chain D: C.129, H.135, C.151, C.154 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.129, D:H.135, D:C.151, D:C.154

4 x SRT: S,R MESO-TARTARIC ACID(Non-covalent)

SRT.2: 9 residues within 4Å: Chain A: P.8, N.9, G.10, S.11, G.12, K.13, R.126 Chain B: N.131, N.132 15 PLIP interactions: 13 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:P.8, A:G.10, A:S.11, A:G.12, A:K.13, A:R.126, B:N.131, B:N.132 Water bridges: A:N.9, A:K.13, A:K.13, A:G.14, A:G.14 Salt bridges: A:K.13, A:R.126 SRT.4: 9 residues within 4Å: Chain A: N.131, N.132 Chain B: P.8, N.9, G.10, S.11, G.12, K.13, R.126 15 PLIP interactions: 13 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:P.8, B:G.10, B:S.11, B:G.12, B:K.13, B:R.126, A:N.131, A:N.132 Water bridges: B:N.9, B:K.13, B:K.13, B:G.14, B:G.14 Salt bridges: B:K.13, B:R.126 SRT.6: 9 residues within 4Å: Chain C: P.8, N.9, G.10, S.11, G.12, K.13, R.126 Chain D: N.131, N.132 15 PLIP interactions: 13 interactions with chain C, 2 interactions with chain D Hydrogen bonds: C:P.8, C:G.10, C:S.11, C:G.12, C:K.13, C:R.126, D:N.131, D:N.132 Water bridges: C:N.9, C:K.13, C:K.13, C:G.14, C:G.14 Salt bridges: C:K.13, C:R.126 SRT.8: 9 residues within 4Å: Chain C: N.131, N.132 Chain D: P.8, N.9, G.10, S.11, G.12, K.13, R.126 15 PLIP interactions: 13 interactions with chain D, 2 interactions with chain C Hydrogen bonds: D:P.8, D:G.10, D:S.11, D:G.12, D:K.13, D:R.126, C:N.131, C:N.132 Water bridges: D:N.9, D:K.13, D:K.13, D:G.14, D:G.14 Salt bridges: D:K.13, D:R.126

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mukhopadhyay, A. et al., Crystal Structure of the Zinc-, Cobalt-, and Iron-Containing Adenylate Kinase from Desulfovibrio Gigas: A Novel Metal-Containing Adenylate Kinase from Gram-Negative Bacteria. J.Biol.Inorg.Chem. (2011)

Release Date

2010-09-22

Peptides

ADENYLATE KINASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

ADENYLATE KINASE