SMTL ID : 7kyr.1

Crystal structure of I107E CuB myoglobin (I107E L29H F43H sperm whale myoglobin)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.71 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, H.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, E.108 Ligands: PG4.2 23 PLIP interactions: 22 interactions with chain A, 1 Ligand-Water interactions Hydrophobic interactions: A:T.68, A:V.69, A:V.69, A:A.72, A:L.90, A:H.98, A:I.100, A:Y.104, A:Y.104, A:E.108 Hydrogen bonds: A:S.93 Water bridges: A:R.46, A:R.46, A:H.98 Salt bridges: A:R.46, A:H.94, A:H.98 pi-Stacking: A:H.65, A:H.94, A:H.94, A:H.98 Metal complexes: A:H.94, H2O.2

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.2: 6 residues within 4Å: Chain A: P.89, Q.92, S.93, K.97, H.98 Ligands: HEM.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.92, A:K.97

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 1 residues within 4Å: Chain A: K.79 No protein-ligand interaction detected (PLIP)

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

SO4.4: 4 residues within 4Å: Chain A: R.46, K.64, H.65, T.68 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.68 Water bridges: A:R.46, A:R.46 Salt bridges: A:R.46, A:H.65

1 x NA: SODIUM ION(Non-functional Binders)

NA.5: 1 residues within 4Å: Chain A: D.45 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Petrik, I.D. et al., An Engineered Glutamate in Biosynthetic Models of Heme-Copper Oxidases Drives Complete Product Selectivity by Tuning the Hydrogen-Bonding Network. Biochemistry (2021)

Release Date

2021-02-03

Peptides

Myoglobin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Myoglobin

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