SMTL ID : 4nxa.1

SPERM WHALE MYOGLOBIN UNDER XENON PRESSURE 30 Bar

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 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.73, L.90, S.93, H.94, H.98, I.100, Y.104, L.105, F.139 Ligands: XE.7 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:A.72, A:L.90, A:I.100, A:Y.104, A:F.139 Hydrogen bonds: A:S.93 Water bridges: A:R.46 Salt bridges: A:R.46, A:H.94, A:H.98 pi-Stacking: A:H.98 Metal complexes: A:H.94, H2O.1

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 2 residues within 4Å: Chain A: H.37, E.39 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.37, A:E.39, A:E.39 ZN.3: 2 residues within 4Å: Chain A: E.60, K.63 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.60, A:E.60

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

SO4.4: 4 residues within 4Å: Chain A: A.58, S.59, E.60, D.61 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.60, A:D.61 Water bridges: A:H.49 SO4.5: 4 residues within 4Å: Chain A: R.46, K.64, H.65, T.68 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.46 Salt bridges: A:R.46, A:K.64, A:H.65 SO4.6: 4 residues within 4Å: Chain A: H.120, P.121, G.122, D.123 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.122, A:D.123

5 x XE: XENON(Non-covalent)

XE.7: 2 residues within 4Å: Chain A: H.94 Ligands: HEM.1 No protein-ligand interaction detected (PLIP) XE.8: 3 residues within 4Å: Chain A: S.109, F.139, R.140 No protein-ligand interaction detected (PLIP) XE.9: 3 residues within 4Å: Chain A: H.83, A.135, F.139 No protein-ligand interaction detected (PLIP) XE.10: 5 residues within 4Å: Chain A: G.26, I.29, L.30, V.69, L.70 No protein-ligand interaction detected (PLIP) XE.11: 3 residues within 4Å: Chain A: I.29, I.112, L.116 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abraini, J.H. et al., Crystallographic Studies with Xenon and Nitrous Oxide Provide Evidence for Protein-dependent Processes in the Mechanisms of General Anesthesia. Anesthesiology (2014)

Release Date

2014-09-24

Peptides

Myoglobin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Myoglobin

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