SMTL ID : 2vn3.1

Nitrite Reductase from Alcaligenes xylosoxidans

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

homo-trimer

Ligands

6 x CU: COPPER (II) ION(Non-covalent)

CU.1: 5 residues within 4Å: Chain A: H.90, C.131, P.133, H.140, M.145 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.90, A:C.131, A:H.140 CU.2: 5 residues within 4Å: Chain A: D.93, H.95, H.130 Chain B: H.250, H.301 4 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: A:H.95, A:H.130, B:H.301, H2O.2 CU.5: 5 residues within 4Å: Chain B: H.90, C.131, P.133, H.140, M.145 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.90, B:C.131, B:H.140 CU.6: 5 residues within 4Å: Chain B: D.93, H.95, H.130 Chain C: H.250, H.301 4 PLIP interactions: 2 interactions with chain B, 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: B:H.95, B:H.130, C:H.301, H2O.9 CU.9: 5 residues within 4Å: Chain C: H.90, C.131, P.133, H.140, M.145 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:H.90, C:C.131, C:H.140 CU.10: 5 residues within 4Å: Chain A: H.250, H.301 Chain C: D.93, H.95, H.130 4 PLIP interactions: 2 interactions with chain C, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: C:H.95, C:H.130, A:H.301, H2O.15

3 x ZN: ZINC ION(Non-covalent)

ZN.3: 3 residues within 4Å: Chain A: H.166, D.168, T.235 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.166, A:D.168, A:D.168, H2O.7 ZN.7: 3 residues within 4Å: Chain B: H.166, D.168, T.235 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.166, B:D.168, B:D.168, H2O.13 ZN.11: 3 residues within 4Å: Chain C: H.166, D.168, T.235 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:H.166, C:D.168, C:D.168, H2O.19

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 4 residues within 4Å: Chain A: A.4, D.5, L.7, H.9 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.5, A:L.7 Salt bridges: A:H.9 SO4.8: 4 residues within 4Å: Chain B: A.4, D.5, L.7, H.9 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.5, B:L.7 Salt bridges: B:H.9 SO4.12: 4 residues within 4Å: Chain C: A.4, D.5, L.7, H.9 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:D.5, C:L.7 Salt bridges: C:H.9

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sato, K. et al., The Importance of the Long Type 1 Copper-Binding Loop of Nitrite Reductase for Structure and Function. Chemistry (2008)

Release Date

2008-12-23

Peptides

DISSIMILATORY COPPER-CONTAINING NITRITE REDUCTASE: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

DISSIMILATORY COPPER-CONTAINING NITRITE REDUCTASE