SMTL ID : 1gjq.1

Pseudomonas aeruginosa cd1 nitrite reductase reduced cyanide complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-dimer

Ligands

2 x HEC: HEME C(Covalent)

HEC.1: 24 residues within 4Å: Chain A: R.46, C.47, C.50, H.51, T.59, G.60, K.61, L.63, I.67, R.71, L.76, L.79, I.80, T.84, L.86, G.87, M.88, P.89, W.91, L.97, I.109 Chain B: A.7, E.8, Q.11 16 PLIP interactions: 15 interactions with chain A, 1 interactions with chain B, Hydrophobic interactions: A:K.61, A:L.63, A:L.63, A:L.76, A:L.79, A:I.80, A:M.88, A:P.89, A:L.97, A:I.109, B:Q.11 Salt bridges: A:K.61, A:K.61, A:R.71 pi-Stacking: A:H.51 Metal complexes: A:H.51 HEC.4: 23 residues within 4Å: Chain A: A.7, E.8, Q.11 Chain B: R.46, C.47, C.50, H.51, T.59, G.60, K.61, L.63, I.67, R.71, Y.75, L.76, L.79, T.84, L.86, G.87, M.88, P.89, W.91, I.109 18 PLIP interactions: 17 interactions with chain B, 1 interactions with chain A, Hydrophobic interactions: B:R.46, B:K.61, B:L.63, B:L.63, B:L.76, B:L.79, B:T.84, B:M.88, B:P.89, B:W.91, B:I.109, A:Q.11 Hydrogen bonds: B:Y.75, B:T.84 Salt bridges: B:K.61, B:R.71 pi-Stacking: B:H.51 Metal complexes: B:H.51

2 x DHE: HEME D(Non-covalent)

DHE.2: 22 residues within 4Å: Chain A: R.156, H.182, I.183, R.185, R.198, R.225, S.226, Y.245, A.283, A.284, I.285, H.327, R.372, F.425, F.441, Q.483, W.498, G.531, F.533 Chain B: Y.10, A.13 Ligands: CYN.3 35 PLIP interactions: 33 interactions with chain A, 2 interactions with chain B, Hydrophobic interactions: A:I.183, A:R.225, A:R.225, A:A.283, A:F.425, A:F.425, A:W.498, A:F.533, B:Y.10, B:Y.10 Hydrogen bonds: A:R.225, A:S.226, A:Y.245, A:I.285, A:Q.483 Water bridges: A:R.156, A:R.185, A:R.185, A:R.185, A:R.198, A:R.198, A:K.427, A:K.427, A:K.427 Salt bridges: A:R.156, A:H.182, A:H.182, A:R.185, A:R.198, A:R.198, A:R.225, A:R.372, A:K.427 pi-Cation interactions: A:H.327 Metal complexes: A:H.182 DHE.5: 24 residues within 4Å: Chain A: Y.10, Q.11, A.13 Chain B: R.156, H.182, I.183, R.185, R.198, R.225, S.226, Y.245, A.283, A.284, I.285, H.327, R.372, F.425, F.441, Q.483, W.498, T.530, G.531, F.533 Ligands: CYN.6 34 PLIP interactions: 31 interactions with chain B, 3 interactions with chain A, Hydrophobic interactions: B:I.183, B:R.225, B:R.225, B:A.283, B:F.425, B:F.425, B:W.498, B:T.530, B:F.533, A:Y.10, A:Y.10, A:Q.11 Hydrogen bonds: B:R.225, B:S.226, B:I.285, B:Q.483 Water bridges: B:R.156, B:R.198, B:R.198, B:R.372, B:R.372, B:K.427 Salt bridges: B:R.156, B:H.182, B:H.182, B:R.185, B:R.185, B:R.198, B:R.198, B:R.225, B:R.372, B:K.427 pi-Cation interactions: B:H.327 Metal complexes: B:H.182

2 x CYN: CYANIDE ION(Non-covalent)

CYN.3: 5 residues within 4Å: Chain A: H.182, H.327, H.369 Chain B: Y.10 Ligands: DHE.2 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Y.10 CYN.6: 5 residues within 4Å: Chain A: Y.10 Chain B: H.182, H.327, H.369 Ligands: DHE.5 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sun, W. et al., Cyanide Binding to Cd(1) Nitrite Reductase from Pseudomonas Aeruginosa: Role of the Active-Site His369 in Ligand Stabilization. Biochem.Biophys.Res.Commun. (2002)

Release Date

2002-08-01

Peptides

NITRITE REDUCTASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

NITRITE REDUCTASE

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