SMTL ID : 3lr9.1

X-ray photogenerated ferrous horse heart myoglobin, nitrite adduct

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

monomer

Ligands

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

HEM.1: 18 residues within 4Å: Chain A: T.39, K.42, F.43, K.45, H.64, V.67, V.68, A.71, L.89, S.92, H.93, H.97, I.99, Y.103, L.104, I.107, F.138 Ligands: NO2.2 22 PLIP interactions: 22 interactions with chain A, Hydrophobic interactions: A:T.39, A:F.43, A:F.43, A:F.43, A:F.43, A:V.67, A:V.68, A:A.71, A:L.89, A:I.99, A:Y.103, A:Y.103, A:I.107, A:F.138, A:F.138 Hydrogen bonds: A:S.92 Water bridges: A:H.64 Salt bridges: A:K.45, A:H.93, A:H.97 pi-Stacking: A:H.97 Metal complexes: A:H.93

4 x NO2: NITRITE ION(Non-covalent)

NO2.2: 5 residues within 4Å: Chain A: L.29, F.43, H.64, V.68 Ligands: HEM.1 No protein-ligand interaction detected (PLIP) NO2.3: 1 residues within 4Å: Chain A: K.96 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.96 NO2.4: 6 residues within 4Å: Chain A: G.1, L.2, W.7, K.79, G.80, L.137 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.2 NO2.5: 3 residues within 4Å: Chain A: S.3, D.4, G.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.3, A:G.5

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

SO4.6: 3 residues within 4Å: Chain A: K.50, T.51, E.52 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.50, A:E.52 SO4.7: 3 residues within 4Å: Chain A: H.81, H.82, E.83 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.83 Water bridges: A:H.82, A:A.84

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yi, J. et al., Synchrotron X-ray-Induced Photoreduction of Ferric Myoglobin Nitrite Crystals Gives the Ferrous Derivative with Retention of the O-Bonded Nitrite Ligand. Biochemistry (2010)

Release Date

2010-07-07

Peptides

Myoglobin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Myoglobin

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