SMTL ID : 3u3e.1

Complex of Wild Type Myoglobin with Phenol in its Proximal Cavity

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.21 Å

Oligo State

monomer

Ligands

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

HEM.1: 18 residues within 4Å: Chain A: T.40, K.43, F.44, R.46, H.65, T.68, V.69, A.72, L.90, S.93, H.94, H.98, I.100, Y.104, L.105, I.108, F.139 Ligands: IPH.2 18 PLIP interactions: 17 interactions with chain A, 1 Ligand-Water interactions, Hydrophobic interactions: A:F.44, A:F.44, A:F.44, A:T.68, A:V.69, A:V.69, A:A.72, A:I.100, A:I.100, A:Y.104, A:F.139 Hydrogen bonds: A:S.93 Water bridges: A:H.65 Salt bridges: A:R.46, A:H.94, A:H.98 Metal complexes: A:H.94, H2O.1

1 x IPH: PHENOL(Non-covalent)

IPH.2: 9 residues within 4Å: Chain A: L.90, A.91, H.94, I.100, L.105, F.139, I.143, Y.147 Ligands: HEM.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.90, A:L.90, A:H.94, A:L.105, A:F.139, A:I.143 Hydrogen bonds: A:Y.147

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

SO4.3: 0 residues within 4Å: (No contacts) 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.88 SO4.4: 3 residues within 4Å: Chain A: T.52, E.53, A.54 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.53, A:A.54 SO4.5: 2 residues within 4Å: Chain A: S.4, G.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.4, A:S.4, A:G.6 SO4.6: 4 residues within 4Å: Chain A: R.46, K.64, H.65, T.68 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.68 Water bridges: A:R.46, A:H.65, A:T.68 Salt bridges: A:R.46, A:H.65 SO4.7: 1 residues within 4Å: Chain A: A.20 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huang, X. et al., Complex of myoglobin with phenol bound in a proximal cavity. Acta Crystallogr.,Sect.F (2012)

Release Date

2012-11-28

Peptides

Myoglobin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Myoglobin

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