SMTL ID : 3v2z.1

Nitrite Bound Chlorin Substituted Myoglobin- Method 2

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

monomer

Ligands

1 x HKL: Fe(III) pyropheophorbide-a methyl ester(Non-covalent)

HKL.1: 15 residues within 4Å: Chain A: T.39, K.42, F.43, V.67, V.68, P.88, L.89, S.92, H.93, H.97, I.99, Y.103, L.104, I.107 Ligands: NO2.2 14 PLIP interactions: 14 interactions with chain A, Hydrophobic interactions: A:F.43, A:F.43, A:F.43, A:V.67, A:V.68, A:H.97, A:I.99, A:I.99, A:Y.103 Hydrogen bonds: A:S.92 Water bridges: A:H.97 pi-Stacking: A:H.97, A:H.97 Metal complexes: A:H.93

2 x NO2: NITRITE ION(Non-covalent)

NO2.2: 4 residues within 4Å: Chain A: F.43, H.64, V.68 Ligands: HKL.1 No protein-ligand interaction detected (PLIP) NO2.3: 3 residues within 4Å: Chain A: H.119, P.120, G.121 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.121 Water bridges: A:D.122

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

SO4.4: 4 residues within 4Å: Chain A: A.57, S.58, E.59, D.60 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.57, A:E.59, A:D.60 SO4.5: 3 residues within 4Å: Chain A: H.81, H.82, E.83 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.80, A:E.83 Water bridges: A:A.84 Salt bridges: A:H.81

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yi, J. et al., Distal pocket control of nitrite binding in myoglobin. Angew.Chem.Int.Ed.Engl. (2012)

Release Date

2012-11-21

Peptides

Myoglobin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Myoglobin

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