SMTL ID : 4yu4.1

Crystal structure of Mongoose (Helogale parvula) hemoglobin at pH 7.0

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

hetero-2-2-mer

Ligands

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

HEM.1: 18 residues within 4Å: Chain A: 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, L.136 Ligands: OXY.2 14 PLIP interactions: 14 interactions with chain A, Hydrophobic interactions: A:F.43, A:F.43, A:V.62, A:A.65, A:L.83, A:L.86, A:L.91, A:V.93, A:F.98, A:L.101, A:L.136 Salt bridges: A:H.45, A:K.61 Metal complexes: A:H.87 HEM.3: 16 residues within 4Å: Chain B: L.31, T.38, F.41, F.42, H.63, S.70, L.88, L.91, H.92, L.96, V.98, N.102, F.103, L.106, L.141 Ligands: OXY.4 17 PLIP interactions: 17 interactions with chain B, Hydrophobic interactions: B:L.31, B:T.38, B:F.41, B:F.41, B:F.42, B:F.42, B:F.42, B:L.88, B:L.91, B:L.96, B:L.96, B:V.98, B:N.102, B:L.106, B:L.141 Salt bridges: B:H.63 Metal complexes: B:H.92 HEM.6: 19 residues within 4Å: Chain C: Y.42, F.43, H.45, H.58, K.61, V.62, A.65, L.66, L.83, L.86, H.87, L.91, V.93, N.97, F.98, L.101, V.132, L.136 Ligands: OXY.5 15 PLIP interactions: 15 interactions with chain C, Hydrophobic interactions: C:F.43, C:V.62, C:L.66, C:L.83, C:L.86, C:L.91, C:V.93, C:V.132, C:L.136 Water bridges: C:H.58, C:K.61 Salt bridges: C:H.45, C:K.61 pi-Stacking: C:H.58 Metal complexes: C:H.87 HEM.8: 17 residues within 4Å: Chain D: L.31, T.38, F.41, F.42, H.63, K.66, V.67, S.70, L.91, H.92, L.96, V.98, N.102, F.103, L.106, L.141 Ligands: OXY.7 18 PLIP interactions: 18 interactions with chain D, Hydrophobic interactions: D:L.31, D:T.38, D:F.41, D:F.41, D:F.42, D:F.42, D:V.67, D:L.91, D:L.96, D:V.98, D:N.102, D:L.106, D:L.141 Salt bridges: D:H.63, D:K.66 pi-Stacking: D:H.63, D:H.63 Metal complexes: D:H.92

4 x OXY: OXYGEN MOLECULE(Non-covalent)

OXY.2: 4 residues within 4Å: Chain A: F.43, H.58, V.62 Ligands: HEM.1 No protein-ligand interaction detected (PLIP) OXY.4: 3 residues within 4Å: Chain B: H.63, V.67 Ligands: HEM.3 No protein-ligand interaction detected (PLIP) OXY.5: 4 residues within 4Å: Chain C: F.43, H.58, V.62 Ligands: HEM.6 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:H.58 OXY.7: 3 residues within 4Å: Chain D: H.63, V.67 Ligands: HEM.8 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abubakkar, M.M. et al., Crystal structure of Mongoose (Helogale parvula) hemoglobin at pH 7.0. To Be Published

Release Date

2015-09-23

Peptides

hemoglobin: AC
hemoglobin: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

hemoglobin

hemoglobin

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