SMTL ID : 3i39.1

NI,FE-CODH-320 MV+CN state

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.36 Å

Oligo State

homo-dimer

Ligands

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

SF4.1: 11 residues within 4Å: Chain A: C.68, H.70, C.71, Q.73, G.74, C.76, G.88, I.89, C.90, R.100, M.219 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.68, A:C.71, A:C.76, A:C.90 SF4.7: 11 residues within 4Å: Chain B: C.68, H.70, C.71, Q.73, G.74, C.76, G.88, I.89, C.90, R.100, M.219 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.68, B:C.71, B:C.76, B:C.90

2 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)

FES.2: 8 residues within 4Å: Chain A: C.59, F.61, G.62, C.67 Chain B: C.59, C.67, R.69 Ligands: FES.8 2 PLIP interactions: 2 interactions with chain A, Metal complexes: A:C.59, A:C.67 FES.8: 8 residues within 4Å: Chain A: C.59, C.67, R.69 Chain B: C.59, F.61, G.62, C.67 Ligands: FES.2 2 PLIP interactions: 2 interactions with chain B, Metal complexes: B:C.59, B:C.67

2 x WCC: FE(3)-NI(1)-S(4) CLUSTER(Non-covalent)

WCC.3: 15 residues within 4Å: Chain A: H.281, C.314, C.315, S.332, C.353, G.465, C.466, C.496, C.546, M.580, H.581, K.583 Ligands: FE2.4, FE2.5, CYN.6 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.353, A:C.466, A:C.496, A:C.546 WCC.9: 15 residues within 4Å: Chain B: H.281, C.314, C.315, S.332, C.353, G.465, C.466, C.496, C.546, M.580, H.581, K.583 Ligands: FE2.10, FE2.11, CYN.12 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.353, B:C.466, B:C.496, B:C.546

4 x FE2: FE (II) ION(Non-covalent)

FE2.4: 6 residues within 4Å: Chain A: H.281, C.315, C.546 Ligands: WCC.3, FE2.5, CYN.6 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.281, A:C.315, A:C.546 FE2.5: 7 residues within 4Å: Chain A: H.281, C.315, C.546, K.583 Ligands: WCC.3, FE2.4, CYN.6 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.281 FE2.10: 6 residues within 4Å: Chain B: H.281, C.315, C.546 Ligands: WCC.9, FE2.11, CYN.12 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.281, B:C.315, B:C.546 FE2.11: 7 residues within 4Å: Chain B: H.281, C.315, C.546, K.583 Ligands: WCC.9, FE2.10, CYN.12 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:H.281

2 x CYN: CYANIDE ION(Non-covalent)

CYN.6: 7 residues within 4Å: Chain A: H.113, H.281, C.546, K.583 Ligands: WCC.3, FE2.4, FE2.5 No protein-ligand interaction detected (PLIP) CYN.12: 7 residues within 4Å: Chain B: H.113, H.281, C.546, K.583 Ligands: WCC.9, FE2.10, FE2.11 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jeoung, J.H. et al., Structural basis of cyanide inhibition of Ni, Fe-containing carbon monoxide dehydrogenase. J.Am.Chem.Soc. (2009)

Release Date

2009-08-11

Peptides

Carbon monoxide dehydrogenase 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
X

B
X

Carbon monoxide dehydrogenase 2

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