SMTL ID : 6e03.1

sperm whale myoglobin nitrosoethane adduct

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.76 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: NOE.7 20 PLIP interactions: 20 interactions with chain A, Hydrophobic interactions: A:F.44, A:F.44, A:F.44, A:V.69, A:V.69, A:A.72, A:L.90, A:I.100, A:Y.104, A:F.139, A:F.139 Hydrogen bonds: A:S.93 Water bridges: A:R.46, A:H.98 Salt bridges: A:R.46, A:H.94, A:H.98 pi-Stacking: A:H.94, A:H.98 Metal complexes: A:H.94

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

SO4.2: 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 SO4.3: 1 residues within 4Å: Chain A: K.17 2 PLIP interactions: 2 interactions with chain A Water bridges: A:A.16 Salt bridges: A:K.17 SO4.4: 4 residues within 4Å: Chain A: R.46, K.64, H.65, T.68 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:K.64, A:T.68 Water bridges: A:H.65, A:H.65, A:H.65, A:T.68 Salt bridges: A:R.46, A:H.65 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 Water bridges: A:G.6 SO4.6: 4 residues within 4Å: Chain A: G.125, A.126, D.127 Ligands: CL.8 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.126, A:D.127 Water bridges: A:G.125

1 x NOE: NITROSOETHANE(Non-covalent)

NOE.7: 5 residues within 4Å: Chain A: F.44, H.65, V.69, I.108 Ligands: HEM.1 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.69, A:I.108

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.8: 5 residues within 4Å: Chain A: G.125, A.126, D.127, A.128 Ligands: SO4.6 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Herrera, V.E. et al., Insights into Nitrosoalkane Binding to Myoglobin Provided by Crystallography of Wild-Type and Distal Pocket Mutant Derivatives. Biochemistry (2023)

Release Date

2019-07-17

Peptides

Myoglobin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Myoglobin

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