SMTL ID : 5utb.1

Met form of sperm whale myoglobin V68A/I107Y

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.78 Å

Oligo State

monomer

Ligands

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

HEM.1: 17 residues within 4Å: Chain A: T.40, K.43, F.44, R.46, H.65, T.68, A.69, A.72, L.90, S.93, H.94, H.98, I.100, Y.104, L.105, Y.108, F.139 27 PLIP interactions: 26 interactions with chain A, 1 Ligand-Water interactions, Hydrophobic interactions: A:T.40, A:F.44, A:F.44, A:F.44, A:F.44, A:T.68, A:A.69, A:A.72, A:L.90, A:I.100, A:Y.104, A:Y.108, A:Y.108, A:Y.108, A:F.139 Hydrogen bonds: A:S.93 Water bridges: A:R.46, A:R.46, A:H.65, A:P.89, A:S.93 Salt bridges: A:R.46, A:H.94, A:H.98 pi-Stacking: A:H.98 Metal complexes: A:H.94, H2O.1

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

SO4.2: 2 residues within 4Å: Chain A: T.52, E.53 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.53 Water bridges: A:K.35, A:T.52, A:E.53, A:A.54 Salt bridges: A:K.35 SO4.3: 4 residues within 4Å: Chain A: H.120, P.121, G.122, N.123 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.122, A:N.123, A:N.123 SO4.4: 4 residues within 4Å: Chain A: R.46, K.64, H.65, T.68 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.64 Salt bridges: A:R.46, A:H.65

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 3 residues within 4Å: Chain A: H.82, H.83, E.84 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.84

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, B. et al., Nitrosyl Myoglobins and Their Nitrite Precursors: Crystal Structural and Quantum Mechanics and Molecular Mechanics Theoretical Investigations of Preferred Fe -NO Ligand Orientations in Myoglobin Distal Pockets. Biochemistry (2018)

Release Date

2018-02-28

Peptides

Myoglobin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Myoglobin

Related Entries With Identical Sequence