SMTL ID : 6k21.1

Pyrophosphatase from Acinetobacter baumannii

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-hexamer

Ligands

6 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: D.69, D.74, K.108 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.69, A:D.74, H2O.1, H2O.1, H2O.5 MG.3: 3 residues within 4Å: Chain B: D.69, D.74, K.108 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.69, B:D.74, H2O.9, H2O.9, H2O.12 MG.5: 3 residues within 4Å: Chain C: D.69, D.74, K.108 5 PLIP interactions: 2 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:D.69, C:D.74, H2O.16, H2O.17, H2O.20 MG.7: 3 residues within 4Å: Chain D: D.69, D.74, K.108 5 PLIP interactions: 2 interactions with chain D, 3 Ligand-Water interactions Metal complexes: D:D.69, D:D.74, H2O.24, H2O.25, H2O.28 MG.9: 3 residues within 4Å: Chain E: D.69, D.74, K.108 5 PLIP interactions: 2 interactions with chain E, 3 Ligand-Water interactions Metal complexes: E:D.69, E:D.74, H2O.32, H2O.33, H2O.36 MG.11: 3 residues within 4Å: Chain F: D.69, D.74, K.108 5 PLIP interactions: 2 interactions with chain F, 3 Ligand-Water interactions Metal complexes: F:D.69, F:D.74, H2O.40, H2O.41, H2O.44

6 x NA: SODIUM ION(Non-functional Binders)

NA.2: 4 residues within 4Å: Chain A: K.146, D.147, E.149, K.152 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.147 Water bridges: A:D.147 NA.4: 4 residues within 4Å: Chain B: K.146, D.147, E.149, K.152 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.152 Water bridges: B:D.147 NA.6: 4 residues within 4Å: Chain C: K.146, D.147, E.149, K.152 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:K.152 Water bridges: C:D.147 NA.8: 4 residues within 4Å: Chain D: K.146, D.147, E.149, K.152 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:E.149 NA.10: 4 residues within 4Å: Chain E: K.146, D.147, E.149, K.152 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:E.149 NA.12: 4 residues within 4Å: Chain F: K.146, D.147, E.149, K.152 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:K.152

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Si, Y. et al., Crystal Structures of Pyrophosphatase from Acinetobacter baumannii: Snapshots of Pyrophosphate Binding and Identification of a Phosphorylated Enzyme Intermediate. Int J Mol Sci (2019)

Release Date

2019-10-02

Peptides

Inorganic pyrophosphatase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

Inorganic pyrophosphatase

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