SMTL ID : 3mvf.2 (1 other biounit)

Crystal Structure of Nitrophorin 4 from Rhodnius prolixus Complexed with Nitrite at pH 7.4

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

homo-dimer

Ligands

2 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.1: 19 residues within 4Å: Chain A: V.25, Y.28, Y.40, A.42, L.44, E.55, L.57, H.59, F.68, D.70, F.86, K.88, Y.105, F.107, L.123, K.125, K.128, L.133 Ligands: NO2.2 26 PLIP interactions: 26 interactions with chain A, Hydrophobic interactions: A:V.25, A:Y.28, A:Y.28, A:Y.40, A:Y.40, A:L.44, A:L.57, A:F.68, A:F.86, A:F.86, A:Y.105, A:Y.105, A:F.107, A:L.123, A:L.133 Water bridges: A:K.88, A:K.88, A:N.103, A:K.125, A:K.125 Salt bridges: A:K.38, A:K.88, A:K.125, A:K.125, A:K.128 Metal complexes: A:H.59 HEM.4: 19 residues within 4Å: Chain B: V.25, Y.28, Y.40, A.42, L.44, E.55, L.57, H.59, F.68, D.70, F.86, K.88, Y.105, F.107, L.123, K.125, K.128, L.133 Ligands: NO2.5 26 PLIP interactions: 26 interactions with chain B, Hydrophobic interactions: B:V.25, B:Y.28, B:Y.28, B:Y.40, B:Y.40, B:L.44, B:L.57, B:F.68, B:F.86, B:F.86, B:Y.105, B:Y.105, B:F.107, B:L.123, B:L.133 Water bridges: B:K.88, B:K.88, B:N.103, B:K.125, B:K.125 Salt bridges: B:K.38, B:K.88, B:K.125, B:K.125, B:K.128 Metal complexes: B:H.59

4 x NO2: NITRITE ION(Non-covalent)

NO2.2: 4 residues within 4Å: Chain A: H.59, L.123, L.133 Ligands: HEM.1 No protein-ligand interaction detected (PLIP) NO2.3: 4 residues within 4Å: Chain A: D.66, T.67, F.68, K.88 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.88 NO2.5: 4 residues within 4Å: Chain B: H.59, L.123, L.133 Ligands: HEM.4 No protein-ligand interaction detected (PLIP) NO2.6: 4 residues within 4Å: Chain B: D.66, T.67, F.68, K.88 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.88

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

He, C. et al., Formation of the complex of nitrite with the ferriheme b beta-barrel proteins nitrophorin 4 and nitrophorin 7. Biochemistry (2010)

Release Date

2010-06-23

Peptides

Nitrophorin-4: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Nitrophorin-4

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