SMTL ID : 7spe.1

Crystal structure of sperm whale myoglobin variant sMb5(O2beY)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 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, F.47, T.68, A.69, A.72, L.73, L.90, S.93, H.94, H.98, I.100, Y.104, L.105, I.108, F.139 20 PLIP interactions: 19 interactions with chain A, 1 Ligand-Water interactions Hydrophobic interactions: A:F.44, A:F.44, A:F.44, A:T.68, A:A.72, A:L.73, A:L.90, A:I.100, A:Y.104, A:I.108, A:F.139 Hydrogen bonds: A:S.93 Water bridges: 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.4

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

SO4.2: 2 residues within 4Å: Chain A: S.4, E.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.5 Water bridges: A:E.5, A:E.5 SO4.3: 6 residues within 4Å: Chain A: K.17, R.119, H.120, P.121, G.122, N.123 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.122, A:N.123, A:N.123 Water bridges: A:K.17, A:K.17 Salt bridges: A:K.17, A:H.120 SO4.4: 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 SO4.5: 1 residues within 4Å: Chain A: K.134 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.134

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Iannuzzelli, J.A. et al., Tuning Enzyme Thermostability via Computationally Guided Covalent Stapling and Structural Basis of Enhanced Stabilization. Biochemistry (2022)

Release Date

2022-06-01

Peptides

Myoglobin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Myoglobin

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