SMTL ID : 4g51.1

Crystallographic analysis of the interaction of nitric oxide with hemoglobin from Trematomus bernacchii in the T quaternary structure (fully ligated state).

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-2-2-mer

Ligands

4 x NO: NITRIC OXIDE(Non-covalent)

NO.1: 4 residues within 4Å: Chain A: H.60, V.64, H.89 Ligands: HEM.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.60 NO.3: 5 residues within 4Å: Chain B: L.28, H.63, V.67, H.92 Ligands: HEM.4 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.63 NO.5: 5 residues within 4Å: Chain C: H.60, V.64, H.89, L.103 Ligands: HEM.6 No protein-ligand interaction detected (PLIP) NO.7: 4 residues within 4Å: Chain D: H.63, V.67, H.92 Ligands: HEM.8 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:H.63

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

HEM.2: 14 residues within 4Å: Chain A: Y.43, F.44, H.46, W.47, H.60, K.63, V.64, L.85, H.89, L.93, V.95, N.99, L.103 Ligands: NO.1 18 PLIP interactions: 17 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:Y.43, A:Y.43, A:F.44, A:F.44, A:K.63, A:L.85, A:L.93, A:L.93, A:V.95, A:V.95, A:L.103, A:L.103 Salt bridges: A:H.46, A:H.60, A:K.63, A:K.63 Metal complexes: A:H.89, NO.1 HEM.4: 14 residues within 4Å: Chain B: H.41, F.42, H.63, V.67, G.70, L.71, L.91, H.92, L.96, V.98, N.102, F.103, L.141 Ligands: NO.3 14 PLIP interactions: 14 interactions with chain B, Hydrophobic interactions: B:H.41, B:F.42, B:F.42, B:F.42, B:L.91, B:L.96, B:V.98, B:V.98, B:N.102, B:F.103, B:L.141 Salt bridges: B:H.63 pi-Stacking: B:H.63 Metal complexes: B:H.92 HEM.6: 17 residues within 4Å: Chain C: T.40, Y.43, F.44, W.47, H.60, K.63, V.64, I.68, L.85, Q.88, H.89, L.93, V.95, N.99, F.100, L.103 Ligands: NO.5 16 PLIP interactions: 16 interactions with chain C, Hydrophobic interactions: C:Y.43, C:Y.43, C:F.44, C:W.47, C:V.64, C:I.68, C:L.85, C:L.93, C:L.93, C:V.95, C:N.99, C:F.100, C:L.103 Salt bridges: C:H.60, C:K.63 Metal complexes: C:H.89 HEM.8: 14 residues within 4Å: Chain D: T.38, H.41, F.42, H.63, K.66, V.67, G.70, H.92, L.96, V.98, N.102, F.103, L.141 Ligands: NO.7 11 PLIP interactions: 11 interactions with chain D, Hydrophobic interactions: D:H.41, D:F.42, D:L.96, D:L.96, D:V.98, D:N.102, D:L.141 Salt bridges: D:K.66, D:K.66 pi-Stacking: D:H.63 Metal complexes: D:H.92

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Merlino, A. et al., Selective X-ray-induced NO photodissociation in haemoglobin crystals: evidence from a Raman-assisted crystallographic study. Acta Crystallogr.,Sect.D (2013)

Release Date

2013-01-16

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

Related Entries With Identical Sequence