SMTL ID : 7d8g.1

The crystal structure of nucleotide phosphatase Sa1684 from Staphylococcus aureus

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

1 x CIT: CITRIC ACID(Non-functional Binders)

CIT.1: 7 residues within 4Å: Chain A: K.19, H.25, R.26, D.123, E.126, H.130 Ligands: MG.5 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:R.26, A:R.26 Water bridges: A:K.19, A:D.108 Salt bridges: A:K.19, A:K.19, A:H.25, A:H.25, A:R.26, A:H.130

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 2 residues within 4Å: Chain A: Y.18, K.103 No protein-ligand interaction detected (PLIP) GOL.3: 4 residues within 4Å: Chain A: H.20, I.105, Y.107, I.140 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.20

2 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 5 residues within 4Å: Chain A: Y.88, N.90, D.106, D.110 Ligands: MG.5 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.106, A:D.110, H2O.1, H2O.2, H2O.2 MG.5: 6 residues within 4Å: Chain A: D.108, D.110, D.123, E.126 Ligands: CIT.1, MG.4 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.108, A:D.110, A:D.123, A:E.126, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, Z. et al., The structural mechanism for the nucleoside tri- and diphosphate hydrolysis activity of Ntdp from Staphylococcus aureus. Febs J. (2021)

Release Date

2021-03-17

Peptides

UPF0374 protein SA1684: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

UPF0374 protein SA1684

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