SMTL ID : 5xl0.1

met-aquo form of sperm whale myoglobin reconstituted with 7-PF, a heme possesseing CF3 group as side chain

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.25 Å

Oligo State

monomer

Ligands

1 x 89R: fluorinated heme(Non-covalent)

89R.1: 19 residues within 4Å: Chain A: L.32, K.42, F.43, R.45, H.64, T.67, V.68, A.71, L.72, I.75, L.89, S.92, H.93, H.97, I.99, Y.103, L.104, I.107, F.138 24 PLIP interactions: 23 interactions with chain A, 1 Ligand-Water interactions, Hydrophobic interactions: A:L.32, A:F.43, A:F.43, A:F.43, A:T.67, A:V.68, A:I.75, A:L.89, A:L.89, A:I.99, A:Y.103, A:Y.103, A:I.107 Hydrogen bonds: A:S.92 Water bridges: A:R.45, A:R.45, A:P.88 Salt bridges: A:R.45, A:H.93, A:H.97 pi-Stacking: A:H.64, A:H.97 Metal complexes: A:H.93, H2O.1

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

SO4.2: 2 residues within 4Å: Chain A: T.51, E.52 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.52 Water bridges: A:K.34, A:T.51, A:E.52, A:A.53 Salt bridges: A:K.34 SO4.3: 2 residues within 4Å: Chain A: Q.26, K.62 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.26 Water bridges: A:E.59, A:K.62 Salt bridges: A:K.62 SO4.4: 4 residues within 4Å: Chain A: R.45, K.63, H.64, T.67 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.45, A:T.67 Salt bridges: A:R.45, A:H.64

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kanai, Y. et al., Characterization of Heme Orientational Disorder in a Myoglobin Reconstituted with a Trifluoromethyl-Group-Substituted Heme Cofactor. Biochemistry (2017)

Release Date

2017-08-16

Peptides

Myoglobin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Myoglobin

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