SMTL ID : 2g3h.1

Cyanide Binding and Heme Cavity Conformational Transitions in Drosophila melanogaster Hexa-coordinate Hemoglobin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 3 residues within 4Å: Chain A: F.35, P.36, S.37 Ligand excluded by PLIP CL.2: 4 residues within 4Å: Chain A: T.19, P.20, T.21, D.22 Ligand excluded by PLIP

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 2 residues within 4Å: Chain A: K.11, E.14 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:E.14, H2O.1, H2O.1, H2O.1, H2O.1, H2O.1

1 x CYN: CYANIDE ION(Non-covalent)

CYN.4: 5 residues within 4Å: Chain A: L.28, F.42, H.61, I.65 Ligands: HEM.5 No protein-ligand interaction detected (PLIP)

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

HEM.5: 20 residues within 4Å: Chain A: N.38, K.41, F.42, P.43, R.57, H.61, R.64, I.65, V.68, W.89, S.95, H.96, R.99, V.101, S.105, Y.106, L.109, I.113, Y.139 Ligands: CYN.4 22 PLIP interactions: 22 interactions with chain A, Hydrophobic interactions: A:N.38, A:K.41, A:K.41, A:F.42, A:F.42, A:F.42, A:I.65, A:I.65, A:V.68, A:V.68, A:V.101, A:Y.106, A:Y.106, A:I.113 Hydrogen bonds: A:S.95 Salt bridges: A:R.57, A:H.61, A:H.96, A:R.99 pi-Stacking: A:H.61, A:H.96 Metal complexes: A:H.96

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

de Sanctis, D. et al., Cyanide binding and heme cavity conformational transitions in Drosophila melanogaster hexacoordinate hemoglobin. Biochemistry (2006)

Release Date

2006-10-03

Peptides

globin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

globin