SMTL ID : 2y3y.1

Holo-Ni(II) HpNikR is a symmetric tetramer containing four canonic square-planar Ni(II) ions at physiological pH

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.39 Å

Oligo State

homo-tetramer

Ligands

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

NI.1: 5 residues within 4Å: Chain A: H.42, H.44, C.50 Chain B: I.27, H.31 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Metal complexes: A:H.42, A:H.44, A:C.50, B:H.31 NI.2: 5 residues within 4Å: Chain A: I.27, H.31 Chain B: H.42, H.44, C.50 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Metal complexes: B:H.42, B:H.44, B:C.50, A:H.31 NI.4: 5 residues within 4Å: Chain C: H.42, H.44, C.50 Chain D: I.27, H.31 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain D Metal complexes: C:H.42, C:H.44, C:C.50, D:H.31 NI.9: 6 residues within 4Å: Chain C: I.27, H.31 Chain D: H.42, I.43, H.44, C.50 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain C Metal complexes: D:H.42, D:H.44, D:C.50, C:H.31

2 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) EPE.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.6: 1 residues within 4Å: Ligands: PEG.7 No protein-ligand interaction detected (PLIP) PEG.7: 2 residues within 4Å: Ligands: PEG.6, PEG.8 No protein-ligand interaction detected (PLIP) PEG.8: 1 residues within 4Å: Ligands: PEG.7 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Benini, S. et al., Holo-Ni(2+)Helicobacter Pylori Nikr Contains Four Square-Planar Nickel-Binding Sites at Physiological Ph. Dalton Trans (2011)

Release Date

2011-08-17

Peptides

PUTATIVE NICKEL-RESPONSIVE REGULATOR: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

PUTATIVE NICKEL-RESPONSIVE REGULATOR