SMTL ID : 6rp5.1

Crystal structure of monocarboxylated hemoglobin from the sub-Antarctic fish Eleginops maclovinus

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.49 Å

Oligo State

hetero-2-2-mer

Ligands

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

CMO.1: 5 residues within 4Å: Chain A: L.30, F.44, V.64, H.89 Ligands: HEM.2 No protein-ligand interaction detected (PLIP) CMO.6: 5 residues within 4Å: Chain B: L.28, H.63, V.67, H.92 Ligands: HEM.7 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.63 CMO.10: 5 residues within 4Å: Chain C: L.30, F.44, V.64, H.89 Ligands: HEM.11 No protein-ligand interaction detected (PLIP) CMO.15: 5 residues within 4Å: Chain D: L.28, H.63, V.67, H.92 Ligands: HEM.16 No protein-ligand interaction detected (PLIP)

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

HEM.2: 19 residues within 4Å: Chain A: M.33, Y.43, F.44, H.46, W.47, T.63, V.64, G.67, I.68, L.85, Q.88, H.89, L.93, V.95, N.99, F.100, L.103, L.138 Ligands: CMO.1 17 PLIP interactions: 16 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:Y.43, A:F.44, A:F.44, A:W.47, A:T.63, A:I.68, A:L.85, A:L.93, A:L.93, A:V.95, A:V.95, A:L.103, A:L.138 Hydrogen bonds: A:Q.88 Salt bridges: A:H.46 Metal complexes: A:H.89, CMO.1 HEM.7: 17 residues within 4Å: Chain B: T.38, H.41, F.42, K.59, H.63, K.66, V.67, L.88, L.91, H.92, L.96, V.98, N.102, F.103, L.106, L.141 Ligands: CMO.6 19 PLIP interactions: 18 interactions with chain B, 1 Ligand-Ligand interactions Hydrophobic interactions: B:H.41, B:F.42, B:K.66, B:V.67, B:V.67, B:L.88, B:L.91, B:L.96, B:L.96, B:V.98, B:V.98, B:F.103, B:F.103, B:L.141 Water bridges: B:K.59 Salt bridges: B:K.59 pi-Cation interactions: B:H.92 Metal complexes: B:H.92, CMO.6 HEM.11: 19 residues within 4Å: Chain C: M.33, Y.43, F.44, H.46, W.47, T.63, V.64, G.67, I.68, L.85, Q.88, H.89, L.93, V.95, N.99, F.100, L.103, L.138 Ligands: CMO.10 17 PLIP interactions: 16 interactions with chain C, 1 Ligand-Ligand interactions Hydrophobic interactions: C:Y.43, C:F.44, C:F.44, C:W.47, C:T.63, C:I.68, C:L.85, C:L.93, C:L.93, C:V.95, C:V.95, C:L.103, C:L.138 Hydrogen bonds: C:Q.88 Salt bridges: C:H.46 Metal complexes: C:H.89, CMO.10 HEM.16: 17 residues within 4Å: Chain D: T.38, H.41, F.42, K.59, H.63, K.66, V.67, L.88, L.91, H.92, L.96, V.98, N.102, F.103, L.106, L.141 Ligands: CMO.15 18 PLIP interactions: 18 interactions with chain D, Hydrophobic interactions: D:H.41, D:F.42, D:K.66, D:V.67, D:V.67, D:L.88, D:L.91, D:L.96, D:L.96, D:V.98, D:V.98, D:F.103, D:F.103, D:L.141 Water bridges: D:K.59 Salt bridges: D:K.59 pi-Cation interactions: D:H.92 Metal complexes: D:H.92

8 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 2 residues within 4Å: Chain A: W.47, H.60 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.47 Salt bridges: A:H.60 SO4.4: 5 residues within 4Å: Chain A: H.56, V.57, K.58, A.59 Chain D: S.13 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain D Hydrogen bonds: A:K.58, A:A.59, D:S.13 Water bridges: D:S.13, D:S.13 SO4.8: 6 residues within 4Å: Chain B: G.43, S.44, F.45, G.46, N.57, K.59 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:F.45, B:G.46, B:N.57 Water bridges: B:G.43, B:G.43, B:S.44, B:S.44, B:K.59 SO4.9: 4 residues within 4Å: Chain B: S.17, K.117, M.118 Chain C: K.58 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain C Hydrogen bonds: B:S.17 Water bridges: B:K.117, C:K.58, C:K.58 Salt bridges: B:K.117, C:K.58 SO4.12: 2 residues within 4Å: Chain C: W.47, H.60 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:W.47 Salt bridges: C:H.60 SO4.13: 5 residues within 4Å: Chain B: S.13 Chain C: H.56, V.57, K.58, A.59 5 PLIP interactions: 2 interactions with chain C, 3 interactions with chain B Hydrogen bonds: C:K.58, C:A.59, B:S.13 Water bridges: B:S.13, B:S.13 SO4.17: 6 residues within 4Å: Chain D: G.43, S.44, F.45, G.46, N.57, K.59 8 PLIP interactions: 8 interactions with chain D Hydrogen bonds: D:F.45, D:G.46, D:N.57 Water bridges: D:G.43, D:G.43, D:S.44, D:S.44, D:K.59 SO4.18: 4 residues within 4Å: Chain A: K.58 Chain D: S.17, K.117, M.118 6 PLIP interactions: 3 interactions with chain D, 3 interactions with chain A Hydrogen bonds: D:S.17 Water bridges: D:K.117, A:K.58, A:K.58 Salt bridges: D:K.117, A:K.58

2 x DTN: DITHIONITE(Non-covalent)

DTN.5: 8 residues within 4Å: Chain A: P.52, G.53, H.56 Chain C: P.52, G.53 Chain D: N.123, P.124 Ligands: DTN.14 No protein-ligand interaction detected (PLIP) DTN.14: 8 residues within 4Å: Chain A: P.52, G.53 Chain B: N.123, P.124 Chain C: P.52, G.53, H.56 Ligands: DTN.5 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Balasco, N. et al., The unique structural features of carbonmonoxy hemoglobin from the sub-Antarctic fish Eleginops maclovinus. Sci Rep (2019)

Release Date

2019-12-25

Peptides

Hemoglobin subunit alpha 1: AC
Hemoglobin subunit beta-1: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

Hemoglobin subunit alpha 1

Hemoglobin subunit beta-1

Related Entries With Identical Sequence