SMTL ID : 3tj8.1

Crystal structure of Helicobacter pylori UreE bound to Ni2+

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.59 Å

Oligo State

homo-dimer

Ligands

10 x FMT: FORMIC ACID(Non-functional Binders)

FMT.1: 2 residues within 4Å: Chain A: L.136, S.137 No protein-ligand interaction detected (PLIP) FMT.2: 5 residues within 4Å: Chain A: H.82, Q.84, Q.132, N.133, R.134 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.132 FMT.3: 3 residues within 4Å: Chain A: Y.22, R.40, N.74 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.40, A:R.40 FMT.4: 3 residues within 4Å: Chain A: Y.107, Q.111 Chain B: A.89 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Water bridges: B:A.89, A:Q.111 FMT.6: 2 residues within 4Å: Chain B: I.34, R.36 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.36 FMT.7: 5 residues within 4Å: Chain B: H.82, Q.84, Q.132, N.133, R.134 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:H.82, B:Q.132, B:R.134 FMT.8: 3 residues within 4Å: Chain B: W.27, R.31, R.145 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.31, B:R.145, B:R.145 Water bridges: B:F.28 FMT.9: 3 residues within 4Å: Chain B: R.101, H.102, E.119 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.119 FMT.10: 4 residues within 4Å: Chain B: Q.84, S.110, F.112, E.113 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.84, B:S.110, B:E.113 FMT.11: 3 residues within 4Å: Chain B: Y.22, R.40, N.74 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.40, B:R.40 Water bridges: B:Q.59, B:N.74, B:N.74

1 x NI: NICKEL (II) ION(Non-covalent)

NI.5: 3 residues within 4Å: Chain A: H.102 Chain B: H.102, H.152 4 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:H.102, B:H.152, A:H.102, H2O.6

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Banaszak, K. et al., Crystallographic and X-ray absorption spectroscopic characterization of Helicobacter pylori UreE bound to Ni2+ and Zn2+ reveals a role for the disordered C-terminal arm in metal trafficking. Biochem.J. (2012)

Release Date

2011-11-02

Peptides

Urease accessory protein ureE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Urease accessory protein ureE

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