SMTL ID : 9c0r.1

Carbon monoxide dehydrogenase (CODH) from Methanosarcina thermophila, specimen prepared on chameleon plunger

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-mer

Ligands

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

SF4.1: 11 residues within 4Å: Chain A: C.75, Y.77, C.78, F.80, G.81, C.83, G.91, A.92, C.93, R.103, A.183 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.75, A:C.78, A:C.83, A:C.93 SF4.3: 7 residues within 4Å: Chain A: C.72, Q.74, C.76, E.104 Chain B: C.72, C.76, E.104 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A, Salt bridges: B:E.104, A:E.104 Metal complexes: B:C.72, B:C.76, A:C.72, A:C.76 SF4.4: 9 residues within 4Å: Chain A: C.424, P.425, I.430, C.452, V.453, C.455, R.456, R.457, C.458 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.424, A:C.452, A:C.455, A:C.458 SF4.5: 11 residues within 4Å: Chain A: C.414, V.415, A.416, C.417, G.418, C.420, P.431, I.434, C.462, N.463, I.466 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.414, A:C.417, A:C.420, A:C.462 SF4.6: 11 residues within 4Å: Chain B: C.75, Y.77, C.78, F.80, G.81, C.83, G.91, A.92, C.93, R.103, A.183 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.75, B:C.78, B:C.83, B:C.93 SF4.8: 9 residues within 4Å: Chain B: C.424, P.425, I.430, C.452, V.453, C.455, R.456, R.457, C.458 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.424, B:C.452, B:C.455, B:C.458 SF4.9: 11 residues within 4Å: Chain B: C.414, V.415, A.416, C.417, G.418, C.420, P.431, I.434, C.462, N.463, I.466 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.414, B:C.417, B:C.420, B:C.462

2 x RQM: Fe(3)-Ni(1)-S(4) cluster(Non-covalent)

RQM.2: 11 residues within 4Å: Chain A: H.249, C.276, C.277, C.322, G.519, C.520, C.549, C.584, Y.631, S.632, K.634 6 PLIP interactions: 6 interactions with chain A, Metal complexes: A:H.249, A:C.277, A:C.322, A:C.520, A:C.549, A:C.584 RQM.7: 12 residues within 4Å: Chain B: H.249, C.276, C.277, I.301, C.322, G.519, C.520, C.549, C.584, Y.631, S.632, K.634 6 PLIP interactions: 6 interactions with chain B, Metal complexes: B:H.249, B:C.277, B:C.322, B:C.520, B:C.549, B:C.584

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Biester, A. et al., Capturing a methanogenic carbon monoxide dehydrogenase/acetyl-CoA synthase complex via cryogenic electron microscopy. Proc.Natl.Acad.Sci.USA (2024)

Release Date

2024-10-16

Peptides

Acetyl-CoA decarbonylase/synthase complex subunit alpha 2: AB
Acetyl-CoA decarbonylase/synthase complex subunit epsilon 2: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Acetyl-CoA decarbonylase/synthase complex subunit alpha 2

Acetyl-CoA decarbonylase/synthase complex subunit epsilon 2

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