SMTL ID : 3bj3.1

met-Perch hemoglobin at pH 8.0

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-2-2-mer

Ligands

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

HEM.1: 19 residues within 4Å: Chain A: T.39, Y.42, F.43, H.45, W.46, H.59, T.62, I.63, L.67, L.84, L.87, H.88, L.92, V.94, N.98, F.99, L.102, V.133, L.137 20 PLIP interactions: 19 interactions with chain A, 1 Ligand-Water interactions, Hydrophobic interactions: A:Y.42, A:F.43, A:F.43, A:F.43, A:I.63, A:L.84, A:L.87, A:L.92, A:V.94, A:N.98, A:V.133, A:L.137 Hydrogen bonds: A:W.46 Salt bridges: A:H.45 pi-Stacking: A:H.59, A:H.59, A:H.88, A:H.88 Metal complexes: A:H.88, H2O.1 HEM.3: 17 residues within 4Å: Chain B: T.38, Y.41, F.42, F.45, H.63, T.66, I.67, L.71, L.88, L.91, H.92, L.96, V.98, N.102, F.103, L.106, L.141 20 PLIP interactions: 19 interactions with chain B, 1 Ligand-Water interactions, Hydrophobic interactions: B:T.38, B:Y.41, B:F.42, B:F.42, B:F.42, B:F.45, B:I.67, B:L.71, B:L.88, B:L.91, B:L.96, B:V.98, B:L.106, B:L.106, B:L.141 Water bridges: B:Y.41, B:N.44 pi-Stacking: B:H.63 Metal complexes: B:H.92, H2O.2 HEM.4: 18 residues within 4Å: Chain C: Y.42, F.43, H.45, W.46, H.59, T.62, I.63, G.66, L.67, L.84, L.87, H.88, L.92, V.94, N.98, F.99, L.102, L.137 18 PLIP interactions: 18 interactions with chain C, Hydrophobic interactions: C:Y.42, C:Y.42, C:F.43, C:F.43, C:F.43, C:T.62, C:L.67, C:L.67, C:L.84, C:L.92, C:V.94, C:L.102, C:L.102, C:L.137 Salt bridges: C:H.45, C:H.59 pi-Stacking: C:H.59 Metal complexes: C:H.88 HEM.6: 20 residues within 4Å: Chain D: T.38, Y.41, F.42, N.44, F.45, H.63, T.66, I.67, L.71, Y.85, L.88, L.91, H.92, L.96, V.98, N.102, F.103, L.106, V.137, L.141 22 PLIP interactions: 21 interactions with chain D, 1 Ligand-Water interactions, Hydrophobic interactions: D:T.38, D:Y.41, D:F.42, D:F.42, D:F.42, D:F.45, D:T.66, D:I.67, D:L.88, D:L.91, D:L.96, D:V.98, D:N.102, D:L.106, D:L.106, D:V.137, D:L.141 Hydrogen bonds: D:N.44 pi-Stacking: D:H.63 pi-Cation interactions: D:H.92 Metal complexes: D:H.92, H2O.5

2 x ACE: ACETYL GROUP(Non-functional Binders)

ACE.2: 6 residues within 4Å: Chain A: S.1, L.2, K.128, R.135 Chain C: E.139, R.142 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.1, A:R.135 Water bridges: A:R.135 ACE.5: 2 residues within 4Å: Chain A: N.78, E.139 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.78

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 alpha: AC
hemoglobin beta: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

hemoglobin alpha

hemoglobin beta

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