SMTL ID : 1ru3.1

Crystal Structure of the monomeric acetyl-CoA synthase from Carboxydothermus hydrogenoformans

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

2 x NI: NICKEL (II) ION(Non-covalent)

NI.1: 6 residues within 4Å: Chain A: C.512, F.515, C.598, C.600 Ligands: NI.2, SF4.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.512, A:C.598, A:C.600, H2O.1 NI.2: 7 residues within 4Å: Chain A: F.515, L.530, C.598, G.599, C.600, F.601 Ligands: NI.1 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:C.598, A:C.600

1 x SF4: IRON/SULFUR CLUSTER(Non-covalent)

SF4.3: 11 residues within 4Å: Chain A: C.509, L.511, C.512, C.521, G.529, L.530, C.531, I.534, C.598, C.600 Ligands: NI.1 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.509, A:C.512, A:C.521, A:C.531

12 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 5 residues within 4Å: Chain A: E.40, L.43, S.44, V.83, N.87 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.44 GOL.5: 2 residues within 4Å: Chain A: E.40 Ligands: GOL.6 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.40 GOL.6: 3 residues within 4Å: Chain A: S.44 Ligands: GOL.5, GOL.13 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.44 GOL.7: 7 residues within 4Å: Chain A: V.56, G.57, Y.58, T.61, F.64, V.76, R.77 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.58 Water bridges: A:V.56, A:V.56, A:F.64 GOL.8: 3 residues within 4Å: Chain A: N.87, R.90, A.91 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.91 Water bridges: A:N.87 GOL.9: 4 residues within 4Å: Chain A: A.502, W.536, K.540 Ligands: GOL.10 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.502 Water bridges: A:K.540 GOL.10: 7 residues within 4Å: Chain A: V.503, D.504, T.505, Y.507, W.536, K.540 Ligands: GOL.9 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.504, A:D.504, A:D.504, A:T.505 GOL.11: 4 residues within 4Å: Chain A: L.608, P.609, E.610 Ligands: GOL.12 No protein-ligand interaction detected (PLIP) GOL.12: 4 residues within 4Å: Chain A: M.629, M.637, F.647 Ligands: GOL.11 No protein-ligand interaction detected (PLIP) GOL.13: 4 residues within 4Å: Chain A: S.44, R.45, E.48 Ligands: GOL.6 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.45 GOL.14: 4 residues within 4Å: Chain A: A.62, Y.63, L.230, M.231 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.63 Water bridges: A:R.69 GOL.15: 3 residues within 4Å: Chain A: Y.147, I.156, G.183 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Svetlitchnyi, V. et al., A functional Ni-Ni-[4Fe-4S] cluster in the monomeric acetyl-CoA synthase from Carboxydothermus hydrogenoformans. Proc.Natl.Acad.Sci.USA (2004)

Release Date

2003-12-23

Peptides

Acetyl-CoA synthase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Acetyl-CoA synthase