SMTL ID : 1j9t.1

Crystal structure of nitrite soaked reduced H255N AFNIR

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-trimer

Ligands

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

CU.1: 6 residues within 4Å: Chain A: M.91, H.92, C.133, P.135, H.142 Ligands: CU.2 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:C.133, A:H.142 CU.2: 5 residues within 4Å: Chain A: H.92, C.133, H.142, M.147 Ligands: CU.1 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.92, A:C.133, H2O.15 CU.3: 6 residues within 4Å: Chain A: D.95, H.97, H.132 Chain B: I.254, H.303 Ligands: NO2.4 4 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: A:H.97, A:H.132, B:H.303, H2O.30 CU.5: 5 residues within 4Å: Chain B: H.92, C.133, P.135, H.142 Ligands: CU.6 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:C.133, B:H.142, H2O.30 CU.6: 5 residues within 4Å: Chain B: H.92, C.133, H.142, M.147 Ligands: CU.5 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:H.92, B:C.133 CU.7: 6 residues within 4Å: Chain B: D.95, H.97, H.132 Chain C: I.254, H.303 Ligands: NO2.8 4 PLIP interactions: 1 interactions with chain C, 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: C:H.303, B:H.97, B:H.132, H2O.30 CU.9: 5 residues within 4Å: Chain C: H.92, C.133, P.135, H.142 Ligands: CU.10 3 PLIP interactions: 2 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:C.133, C:H.142, H2O.44 CU.10: 5 residues within 4Å: Chain C: H.92, C.133, H.142, M.147 Ligands: CU.9 3 PLIP interactions: 2 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:H.92, C:C.133, H2O.44 CU.11: 6 residues within 4Å: Chain A: I.254, H.303 Chain C: D.95, H.97, H.132 Ligands: NO2.12 4 PLIP interactions: 2 interactions with chain C, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: C:H.97, C:H.132, A:H.303, H2O.30

3 x NO2: NITRITE ION(Non-covalent)

NO2.4: 7 residues within 4Å: Chain A: D.95, H.132, A.134 Chain B: I.254, H.303, L.305 Ligands: CU.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.95 NO2.8: 6 residues within 4Å: Chain B: D.95, H.132, A.134 Chain C: I.254, H.303 Ligands: CU.7 No protein-ligand interaction detected (PLIP) NO2.12: 7 residues within 4Å: Chain A: I.254, H.303, L.305 Chain C: D.95, H.132, A.134 Ligands: CU.11 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:D.95

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Boulanger, M.J. et al., Alternate substrate binding modes to two mutant (D98N and H255N) forms of nitrite reductase from Alcaligenes faecalis S-6: structural model of a transient catalytic intermediate. Biochemistry (2001)

Release Date

2001-06-06

Peptides

COPPER-CONTAINING NITRITE REDUCTASE: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

COPPER-CONTAINING NITRITE REDUCTASE

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