SMTL ID : 2r4w.1

Ligand Migration and Binding in The Dimeric Hemoglobin of Scapharca Inaequivalvis: M37F with CO bound

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 17 residues within 4Å: Chain A: Y.50, F.51, R.53, H.69, L.73, L.77, F.97, N.100, H.101, R.104, I.106, E.110, F.111, I.114 Chain B: K.96, N.100 Ligands: CMO.2 20 PLIP interactions: 18 interactions with chain A, 2 interactions with chain B, Hydrophobic interactions: A:Y.50, A:F.51, A:F.51, A:L.73, A:F.97, A:R.104, A:I.106, A:F.111, A:F.111, A:I.114 Water bridges: A:R.53, A:H.69, A:R.104, A:R.104 Salt bridges: A:R.53, A:R.104, A:R.104, B:K.96 Metal complexes: A:H.101 Hydrogen bonds: B:N.100 HEM.3: 17 residues within 4Å: Chain A: K.96, N.100 Chain B: Y.50, F.51, R.53, H.69, L.73, A.76, L.77, F.97, N.100, H.101, R.104, E.110, F.111, I.114 Ligands: CMO.4 28 PLIP interactions: 4 interactions with chain A, 24 interactions with chain B, Hydrogen bonds: A:N.100 Water bridges: A:K.96, A:K.96, B:R.104, B:R.104, B:R.104, B:R.104, B:R.104 Salt bridges: A:K.96, B:R.53, B:R.104, B:R.104 Hydrophobic interactions: B:Y.50, B:F.51, B:F.51, B:L.73, B:A.76, B:F.97, B:N.100, B:R.104, B:F.111, B:F.111, B:I.114, B:I.114 pi-Stacking: B:H.69, B:H.69, B:H.101 Metal complexes: B:H.101

2 x CMO: CARBON MONOXIDE(Non-functional Binders)

CMO.2: 6 residues within 4Å: Chain A: F.37, F.51, H.69, L.73, H.101 Ligands: HEM.1 No protein-ligand interaction detected (PLIP) CMO.4: 6 residues within 4Å: Chain B: F.37, F.51, H.69, L.73, H.101 Ligands: HEM.3 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.69

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nienhaus, K. et al., Ligand Migration and Binding in the Dimeric Hemoglobin of Scapharca inaequivalvis. Biochemistry (2007)

Release Date

2007-11-27

Peptides

Globin-1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Globin-1

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