SMTL ID : 3vm9.1

Dimeric horse myoglobin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.05 Å

Oligo State

homo-dimer

Ligands

2 x O: OXYGEN ATOM(Non-covalent)

O.1: 4 residues within 4Å: Chain B: F.43, H.64, V.68 Ligands: HEM.2 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.64 O.4: 4 residues within 4Å: Chain A: F.43, H.64, V.68 Ligands: HEM.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.64

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

HEM.2: 18 residues within 4Å: Chain A: L.89, S.92, H.93, H.97, I.99, Y.103, L.104, I.107, F.138 Chain B: T.39, K.42, F.43, H.64, V.67, V.68, A.71, L.72 Ligands: O.1 23 PLIP interactions: 15 interactions with chain A, 7 interactions with chain B, 1 Ligand-Ligand interactions Hydrophobic interactions: A:L.89, A:L.89, A:I.99, A:I.99, A:Y.103, A:L.104, A:I.107, A:F.138, A:F.138, B:T.39, B:F.43, B:F.43, B:V.67, B:V.68, B:A.71, B:L.72 Hydrogen bonds: A:S.92 Water bridges: A:P.88 Salt bridges: A:H.93, A:H.97 pi-Stacking: A:H.97 Metal complexes: A:H.93, O.1 HEM.3: 19 residues within 4Å: Chain A: T.39, K.42, F.43, K.45, H.64, V.67, V.68, A.71, L.72 Chain B: L.89, S.92, H.93, H.97, I.99, Y.103, L.104, I.107, F.138 Ligands: O.4 26 PLIP interactions: 14 interactions with chain B, 11 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: B:L.89, B:H.97, B:I.99, B:I.99, B:Y.103, B:L.104, B:I.107, B:F.138, A:T.39, A:F.43, A:F.43, A:F.43, A:F.43, A:V.67, A:V.68, A:A.71 Hydrogen bonds: B:S.92 Water bridges: B:P.88, A:K.45, A:K.45 Salt bridges: B:H.93, B:H.97, A:K.45 pi-Stacking: B:H.97 Metal complexes: B:H.93, O.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nagao, S. et al., Structural and oxygen binding properties of dimeric horse myoglobin. Dalton Trans (2012)

Release Date

2012-09-12

Peptides

Myoglobin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Myoglobin

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