2z8y

Xenon-bound structure of bifunctional carbon monoxide dehydrogenase/acetyl-CoA synthase(CODH/ACS) from Moorella thermoacetica

Method: X-RAY DIFFRACTION
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1. Protein Identity and Related Structures Protein Identity & Related Structures

Carbon monoxide dehydrogenase/acetyl CoA synthase subunit beta

OrganismNot specified

UniProt P27989

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 4 Carbon monoxide dehydrogenase/acetyl CoA synthase subunit alpha × 2 (P27988) IRON/SULFUR CLUSTER × 5 FE(4)-NI(1)-S(4) CLUSTER × 2 XENON × 19 GLYCEROL × 7 COPPER (I) ION × 2 NICKEL (II) ION × 2 water × 4 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 4 Carbon monoxide dehydrogenase/acetyl CoA synthase subunit alpha × 2 (P27988) IRON/SULFUR CLUSTER × 5 FE(4)-NI(1)-S(4) CLUSTER × 2 XENON × 19 GLYCEROL × 4 COPPER (I) ION × 2 NICKEL (II) ION × 2 water × 4 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name DCMB_MOOTH
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–674; UniProt 1–674 Author chain B; PDBConstruct 1–674; UniProt 1–674 Author chain C; PDBConstruct 1–674; UniProt 1–674 Author chain D; PDBConstruct 1–674; UniProt 1–674

Carbon monoxide dehydrogenase/acetyl CoA synthase subunit alpha

OrganismNot specified

UniProt P27988

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 4 Carbon monoxide dehydrogenase/acetyl CoA synthase subunit beta × 2 (P27989) IRON/SULFUR CLUSTER × 5 FE(4)-NI(1)-S(4) CLUSTER × 2 XENON × 19 GLYCEROL × 7 COPPER (I) ION × 2 NICKEL (II) ION × 2 water × 4 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 4 Carbon monoxide dehydrogenase/acetyl CoA synthase subunit beta × 2 (P27989) IRON/SULFUR CLUSTER × 5 FE(4)-NI(1)-S(4) CLUSTER × 2 XENON × 19 GLYCEROL × 4 COPPER (I) ION × 2 NICKEL (II) ION × 2 water × 4 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name DCMA_MOOTH
Isoform —
PDB entities 2
Chains and sequence ranges Author chain M; PDBConstruct 1–729; UniProt 1–729 Author chain N; PDBConstruct 1–729; UniProt 1–729 Author chain O; PDBConstruct 1–729; UniProt 1–729 Author chain P; PDBConstruct 1–729; UniProt 1–729

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id2z8y
Deposition date deposition_date2007-09-12
Structure title titleXenon-bound structure of bifunctional carbon monoxide dehydrogenase/acetyl-CoA synthase(CODH/ACS) from Moorella thermoacetica
Keywords keywords;Xenon, carbon monoxide (CO) channel, Nickel-Iron-Sulfur (Ni-Fe-S) cluster, Nickel-Copper-Iron-Sulfur (Ni-Cu-Fe-S) cluster, Helical domain, Rossmann fold, Clostridium thermoaceticum, Wood-Ljundahl pathway, Carbon dioxide fixation, Electron transport, Metal-binding, Oxidoreductase, Transport, Transferase, Oxidoreductase-Transferase COMPLEX ;; Oxidoreductase/Transferase
Experimental Method methodX-RAY DIFFRACTION
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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

2z8y__assembly_2__model_1

Assembly 2 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

2z8y__assembly_2__model_1 | I(q)

10-2 10-1 106 107 108 109 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

2z8y__assembly_2__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg(Guinier)51.01 Å
Rg (electron density)52.00 Å
Total Rg51.41 Å
Atom count21758
Residues2801
Excluded volume390080 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 2z8y__assembly_1__model_1 tetrameric (4) Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 2z8y__assembly_2__model_1 tetrameric (4) Success 4.1.3-1-20251215 (887e7ef) View Download
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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (9)

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6. Fold Classification (SCOP + CATH) 40 domains

SCOP 2.08 (8 domains)

Domain ID domain_idd2z8ya_
Class classe — Multi-domain proteins (alpha and beta)
Fold Fold folde.26 — Prismane protein-like
Superfamily Superfamily superfamilye.26.1 — Prismane protein-like
Family Family familye.26.1.2 — Carbon monoxide dehydrogenase
Domain ID domain_idd2z8yb_
Class classe — Multi-domain proteins (alpha and beta)
Fold Fold folde.26 — Prismane protein-like
Superfamily Superfamily superfamilye.26.1 — Prismane protein-like
Family Family familye.26.1.2 — Carbon monoxide dehydrogenase
Domain ID domain_idd2z8yc_
Class classe — Multi-domain proteins (alpha and beta)
Fold Fold folde.26 — Prismane protein-like
Superfamily Superfamily superfamilye.26.1 — Prismane protein-like
Family Family familye.26.1.2 — Carbon monoxide dehydrogenase
Domain ID domain_idd2z8yd_
Class classe — Multi-domain proteins (alpha and beta)
Fold Fold folde.26 — Prismane protein-like
Superfamily Superfamily superfamilye.26.1 — Prismane protein-like
Family Family familye.26.1.2 — Carbon monoxide dehydrogenase
Domain ID domain_idd2z8ym_
Class classe — Multi-domain proteins (alpha and beta)
Fold Fold folde.26 — Prismane protein-like
Superfamily Superfamily superfamilye.26.1 — Prismane protein-like
Family Family familye.26.1.3 — Acetyl-CoA synthase
Domain ID domain_idd2z8yn_
Class classe — Multi-domain proteins (alpha and beta)
Fold Fold folde.26 — Prismane protein-like
Superfamily Superfamily superfamilye.26.1 — Prismane protein-like
Family Family familye.26.1.3 — Acetyl-CoA synthase
Domain ID domain_idd2z8yo_
Class classe — Multi-domain proteins (alpha and beta)
Fold Fold folde.26 — Prismane protein-like
Superfamily Superfamily superfamilye.26.1 — Prismane protein-like
Family Family familye.26.1.3 — Acetyl-CoA synthase
Domain ID domain_idd2z8yp_
Class classe — Multi-domain proteins (alpha and beta)
Fold Fold folde.26 — Prismane protein-like
Superfamily Superfamily superfamilye.26.1 — Prismane protein-like
Family Family familye.26.1.3 — Acetyl-CoA synthase

CATH v4.4 (32 domains)

Domain ID domain_id2z8yA01
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1270 — Substrate Binding Domain Of Dnak; Chain:A; Domain 2
Homologous superfamily homologous superfamily30 —
Domain ID domain_id2z8yA02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2030 —
Domain ID domain_id2z8yA03
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2030 —
Domain ID domain_id2z8yB01
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1270 — Substrate Binding Domain Of Dnak; Chain:A; Domain 2
Homologous superfamily homologous superfamily30 —
Domain ID domain_id2z8yB02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2030 —
Domain ID domain_id2z8yB03
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2030 —
Domain ID domain_id2z8yC01
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1270 — Substrate Binding Domain Of Dnak; Chain:A; Domain 2
Homologous superfamily homologous superfamily30 —
Domain ID domain_id2z8yC02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2030 —
Domain ID domain_id2z8yC03
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2030 —
Domain ID domain_id2z8yD01
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1270 — Substrate Binding Domain Of Dnak; Chain:A; Domain 2
Homologous superfamily homologous superfamily30 —
Domain ID domain_id2z8yD02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2030 —
Domain ID domain_id2z8yD03
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2030 —
Domain ID domain_id2z8yM01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily190 — Carbon monoxide dehydrogenase alpha subunit. Chain M, domain 1
Domain ID domain_id2z8yM02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2030 —
Domain ID domain_id2z8yM03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1650 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 3
Homologous superfamily homologous superfamily10 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 3
Domain ID domain_id2z8yM04
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology970 — Ribonuclease HI; Chain A
Homologous superfamily homologous superfamily20 — Carbon monoxide dehydrogenase alpha subunit. Chain D, domain 4
Domain ID domain_id2z8yM05
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1470 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 5
Homologous superfamily homologous superfamily10 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 5
Domain ID domain_id2z8yN01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily190 — Carbon monoxide dehydrogenase alpha subunit. Chain M, domain 1
Domain ID domain_id2z8yN02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2030 —
Domain ID domain_id2z8yN03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1650 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 3
Homologous superfamily homologous superfamily10 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 3
Domain ID domain_id2z8yN04
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology970 — Ribonuclease HI; Chain A
Homologous superfamily homologous superfamily20 — Carbon monoxide dehydrogenase alpha subunit. Chain D, domain 4
Domain ID domain_id2z8yN05
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1470 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 5
Homologous superfamily homologous superfamily10 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 5
Domain ID domain_id2z8yO01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily190 — Carbon monoxide dehydrogenase alpha subunit. Chain M, domain 1
Domain ID domain_id2z8yO02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2030 —
Domain ID domain_id2z8yO03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1650 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 3
Homologous superfamily homologous superfamily10 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 3
Domain ID domain_id2z8yO04
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology970 — Ribonuclease HI; Chain A
Homologous superfamily homologous superfamily20 — Carbon monoxide dehydrogenase alpha subunit. Chain D, domain 4
Domain ID domain_id2z8yO05
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1470 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 5
Homologous superfamily homologous superfamily10 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 5
Domain ID domain_id2z8yP01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily190 — Carbon monoxide dehydrogenase alpha subunit. Chain M, domain 1
Domain ID domain_id2z8yP02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily2030 —
Domain ID domain_id2z8yP03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1650 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 3
Homologous superfamily homologous superfamily10 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 3
Domain ID domain_id2z8yP04
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology970 — Ribonuclease HI; Chain A
Homologous superfamily homologous superfamily20 — Carbon monoxide dehydrogenase alpha subunit. Chain D, domain 4
Domain ID domain_id2z8yP05
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1470 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 5
Homologous superfamily homologous superfamily10 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 5
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7. Citations (1)