SMTL ID : 2qss.1

Bovine hemoglobin at pH 6.3

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

hetero-2-2-mer

Ligands

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

CMO.1: 4 residues within 4Å: Chain A: H.58, V.62, H.87 Ligands: HEM.2 No protein-ligand interaction detected (PLIP) CMO.3: 6 residues within 4Å: Chain B: L.27, F.41, H.62, V.66, H.91 Ligands: HEM.4 No protein-ligand interaction detected (PLIP) CMO.5: 5 residues within 4Å: Chain C: F.43, H.58, V.62, H.87 Ligands: HEM.6 No protein-ligand interaction detected (PLIP) CMO.7: 5 residues within 4Å: Chain D: F.41, H.62, V.66, H.91 Ligands: HEM.8 No protein-ligand interaction detected (PLIP)

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

HEM.2: 17 residues within 4Å: Chain A: Y.42, F.43, F.46, H.58, K.61, V.62, A.65, L.83, L.86, H.87, L.91, V.93, N.97, F.98, L.101, L.136 Ligands: CMO.1 15 PLIP interactions: 14 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:Y.42, A:Y.42, A:F.43, A:F.43, A:V.62, A:L.83, A:L.91, A:V.93, A:F.98, A:L.101, A:L.101, A:L.136 pi-Stacking: A:H.58 Metal complexes: A:H.87, CMO.1 HEM.4: 18 residues within 4Å: Chain B: T.37, F.40, F.41, H.62, K.65, V.66, S.69, F.70, L.87, L.90, H.91, L.95, V.97, N.101, F.102, L.105, L.140 Ligands: CMO.3 19 PLIP interactions: 18 interactions with chain B, 1 Ligand-Ligand interactions Hydrophobic interactions: B:T.37, B:F.40, B:F.40, B:F.41, B:F.41, B:F.41, B:V.66, B:F.70, B:F.70, B:L.87, B:L.95, B:V.97, B:N.101, B:F.102, B:F.102, B:L.105, B:L.140 Metal complexes: B:H.91, CMO.3 HEM.6: 19 residues within 4Å: Chain C: Y.42, F.43, H.45, F.46, H.58, K.61, V.62, A.65, L.83, L.86, H.87, L.91, V.93, N.97, F.98, L.101, V.132, L.136 Ligands: CMO.5 17 PLIP interactions: 16 interactions with chain C, 1 Ligand-Ligand interactions Hydrophobic interactions: C:Y.42, C:Y.42, C:F.43, C:V.62, C:L.83, C:L.86, C:L.91, C:V.93, C:F.98, C:V.132, C:L.136 Water bridges: C:H.58 Salt bridges: C:H.45, C:H.58 pi-Stacking: C:H.58 Metal complexes: C:H.87, CMO.5 HEM.8: 17 residues within 4Å: Chain D: T.37, F.40, F.41, F.44, H.62, K.65, V.66, S.69, L.87, H.91, L.95, V.97, N.101, F.102, L.105, L.140 Ligands: CMO.7 21 PLIP interactions: 20 interactions with chain D, 1 Ligand-Ligand interactions Hydrophobic interactions: D:T.37, D:F.40, D:F.40, D:F.41, D:F.41, D:K.65, D:V.66, D:L.87, D:L.95, D:V.97, D:V.97, D:N.101, D:F.102, D:L.105, D:L.140 Hydrogen bonds: D:S.43 Salt bridges: D:K.65 pi-Stacking: D:H.62 pi-Cation interactions: D:H.91 Metal complexes: D:H.91, CMO.7

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Aranda, R. et al., Structural analysis of fish versus mammalian hemoglobins: Effect of the heme pocket environment on autooxidation and hemin loss. Proteins (2008)

Release Date

2008-09-02

Peptides

Hemoglobin subunit alpha: AC
Hemoglobin subunit beta: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

Hemoglobin subunit alpha

Hemoglobin subunit beta

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