SMTL ID : 8fb0.1

H64Q Myoglobin in complex with acetamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.76 Å

Oligo State

monomer

Ligands

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

HEM.1: 19 residues within 4Å: Chain A: T.40, K.43, F.44, R.46, Q.65, T.68, V.69, A.72, L.73, L.90, S.93, H.94, H.98, I.100, Y.104, L.105, I.108, F.139 Ligands: ACM.2 23 PLIP interactions: 23 interactions with chain A, Hydrophobic interactions: A:F.44, A:F.44, A:F.44, A:T.68, A:V.69, A:A.72, A:L.90, A:L.90, A:I.100, A:Y.104, A:L.105, A:I.108, A:I.108, A:F.139 Hydrogen bonds: A:S.93 Water bridges: A:D.45, A:Q.65, A:Q.65, A:H.98 Salt bridges: A:H.94, A:H.98 pi-Stacking: A:H.98 Metal complexes: A:H.94

1 x ACM: ACETAMIDE(Non-covalent)

ACM.2: 6 residues within 4Å: Chain A: L.30, F.44, Q.65, V.69, H.94 Ligands: HEM.1 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.69 Hydrogen bonds: A:Q.65

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 8 residues within 4Å: Chain A: G.122, N.123, F.124, G.125, A.126, D.127, A.128 Ligands: SO4.6 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.122, A:G.125, A:D.127, A:A.128 GOL.4: 3 residues within 4Å: Chain A: R.32, H.114, S.118 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.32, A:S.118 Water bridges: A:D.28

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

SO4.5: 4 residues within 4Å: Chain A: K.35, T.52, E.53, A.54 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.53, A:A.54 Water bridges: A:K.35, A:K.35 Salt bridges: A:K.35 SO4.6: 4 residues within 4Å: Chain A: G.125, A.126, D.127 Ligands: GOL.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.126, A:D.127 SO4.7: 2 residues within 4Å: Chain A: S.4, G.6 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.4, A:S.4 SO4.8: 1 residues within 4Å: Chain A: R.32 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.32

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Powell, S.M. et al., Interactions of metronidazole and chloramphenicol with myoglobin: Crystal structure of a Mb-acetamide product. J Porphyr Phthalocyanines (2023)

Release Date

2023-06-21

Peptides

Myoglobin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Myoglobin

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