SMTL ID : 8x9f.1

Crystal structure of CO dehydrogenase mutant in complex with EV

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.48 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 SF4.6: 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: 7 residues within 4Å: Chain A: C.59, F.61, G.62, C.67 Chain B: C.59, R.69 Ligands: FES.7 2 PLIP interactions: 2 interactions with chain A, Metal complexes: A:C.59, A:C.67 FES.7: 7 residues within 4Å: Chain A: C.59, 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 XCC: FE(4)-NI(1)-S(4) CLUSTER(Covalent)

XCC.3: 10 residues within 4Å: Chain A: H.281, C.315, S.332, C.353, G.465, C.466, C.496, C.546, H.581, K.583 6 PLIP interactions: 6 interactions with chain A, Metal complexes: A:H.281, A:C.315, A:C.353, A:C.466, A:C.496, A:C.546 XCC.8: 10 residues within 4Å: Chain B: H.281, C.315, S.332, C.353, G.465, C.466, C.496, C.546, H.581, K.583 6 PLIP interactions: 6 interactions with chain B, Metal complexes: B:H.281, B:C.315, B:C.353, B:C.466, B:C.496, B:C.546

2 x S8I: 1-ethyl-4-(1-ethylpyridin-1-ium-4-yl)pyridin-1-ium

S8I.4: 5 residues within 4Å: Chain A: G.60, E.63, T.64, L.603, L.632 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.603, A:L.632 S8I.9: 5 residues within 4Å: Chain B: G.60, E.63, T.64, L.603, L.632 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:L.603, B:L.632

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 4 residues within 4Å: Chain A: C.59 Chain B: C.59, F.61 Ligands: EDO.10 No protein-ligand interaction detected (PLIP) EDO.10: 4 residues within 4Å: Chain A: C.59, F.61 Chain B: C.59 Ligands: EDO.5 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, S.M. et al., Identifying a key spot for electron mediator-interaction to tailor CO dehydrogenase's affinity. Nat Commun (2024)

Release Date

2024-04-17

Peptides

Carbon monoxide dehydrogenase 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Carbon monoxide dehydrogenase 2

Related Entries With Identical Sequence