SMTL ID : 3bom.1

Crystal structure of trout hemoglobin at 1.35 Angstrom resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.35 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: M.33, T.40, Y.43, F.44, H.46, W.47, H.60, T.63, Q.67, I.68, L.85, L.88, H.89, L.93, V.95, N.99, F.100, L.103, L.138 23 PLIP interactions: 22 interactions with chain A, 1 Ligand-Water interactions Hydrophobic interactions: A:Y.43, A:Y.43, A:F.44, A:T.63, A:Q.67, A:Q.67, A:I.68, A:L.85, A:L.85, A:L.88, A:L.93, A:L.93, A:V.95, A:V.95, A:L.103, A:L.138 Water bridges: A:H.46, A:H.46 Salt bridges: A:H.46, A:K.92 pi-Stacking: A:H.60 Metal complexes: A:H.89, H2O.7 HEM.2: 16 residues within 4Å: Chain B: T.38, H.41, F.42, F.45, H.63, T.66, V.67, L.88, M.91, H.92, L.96, V.98, N.102, F.103, L.106, L.142 16 PLIP interactions: 15 interactions with chain B, 1 Ligand-Water interactions Hydrophobic interactions: B:T.38, B:H.41, B:F.42, B:V.67, B:L.88, B:L.96, B:L.96, B:V.98, B:V.98, B:N.102, B:F.103, B:L.106, B:L.142 pi-Stacking: B:H.63 Metal complexes: B:H.92, H2O.15 HEM.4: 20 residues within 4Å: Chain C: M.33, T.40, Y.43, F.44, H.46, W.47, H.60, T.63, Q.67, I.68, L.85, L.88, H.89, L.93, V.95, N.99, F.100, L.103, L.138 Ligands: EDO.5 24 PLIP interactions: 23 interactions with chain C, 1 Ligand-Water interactions Hydrophobic interactions: C:Y.43, C:Y.43, C:F.44, C:F.44, C:F.44, C:T.63, C:Q.67, C:Q.67, C:I.68, C:L.85, C:L.85, C:L.88, C:L.93, C:L.93, C:V.95, C:V.95, C:F.100, C:L.103, C:L.138 Water bridges: C:H.46 Salt bridges: C:H.46 pi-Stacking: C:H.60 Metal complexes: C:H.89, H2O.24 HEM.7: 17 residues within 4Å: Chain D: T.38, H.41, F.42, F.45, H.63, T.66, V.67, L.71, L.88, M.91, H.92, L.96, V.98, N.102, F.103, L.106, L.142 16 PLIP interactions: 15 interactions with chain D, 1 Ligand-Water interactions Hydrophobic interactions: D:T.38, D:F.42, D:F.42, D:F.45, D:T.66, D:L.71, D:L.88, D:L.96, D:V.98, D:V.98, D:N.102, D:L.106, D:L.142 pi-Stacking: D:H.63 Metal complexes: D:H.92, H2O.31

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 7 residues within 4Å: Chain B: R.104, A.107, D.108, Q.132, L.135, A.136, V.139 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.108, B:Q.132 EDO.5: 5 residues within 4Å: Chain C: W.47, K.59, H.60, T.63 Ligands: HEM.4 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:W.47, C:H.60, C:T.63 Water bridges: C:H.60 EDO.6: 5 residues within 4Å: Chain C: E.27, Q.28, S.31, P.52, G.53 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:S.31, C:S.31 Water bridges: C:E.27, C:Q.28 EDO.8: 7 residues within 4Å: Chain D: R.104, A.107, D.108, Q.132, L.135, A.136, V.139 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:D.108, D:Q.132

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Aranda IV, R. et al., Trout Hemoglobin Crystal Structure at 1.35 Angstroms Resolution. To be Published

Release Date

2008-01-08

Peptides

Hemoglobin subunit alpha-4: AC
Hemoglobin subunit beta-4: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

Hemoglobin subunit alpha-4

Hemoglobin subunit beta-4

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