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1n62

Crystal Structure of the Mo,Cu-CO Dehydrogenase (CODH), n-butylisocyanide-bound state

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

Carbon monoxide dehydrogenase small chain

OrganismNot specified

UniProt P19921

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 6 Carbon monoxide dehydrogenase large chain × 2 （P19919） Carbon monoxide dehydrogenase medium chain × 2 （P19920） PHOSPHATE ION × 1 FE2/S2 (INORGANIC) CLUSTER × 4 CU(I)-S-MO(IV)(=O)O-NBIC CLUSTER × 2 PTERIN CYTOSINE DINUCLEOTIDE × 2 FLAVIN-ADENINE DINUCLEOTIDE × 2 water × 6 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1n5w 1n60 1n61 1n62 1n63 1zxi

6 assemblies

View Construct and Data Evidence
UniProt name DCMS_OLICA
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–166； UniProt 1–166 Author chain D； PDBConstruct 1–166； UniProt 1–166

Carbon monoxide dehydrogenase large chain

OrganismNot specified

UniProt P19919

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 6 Carbon monoxide dehydrogenase small chain × 2 （P19921） Carbon monoxide dehydrogenase medium chain × 2 （P19920） PHOSPHATE ION × 1 FE2/S2 (INORGANIC) CLUSTER × 4 CU(I)-S-MO(IV)(=O)O-NBIC CLUSTER × 2 PTERIN CYTOSINE DINUCLEOTIDE × 2 FLAVIN-ADENINE DINUCLEOTIDE × 2 water × 6 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1n5w 1n60 1n61 1n62 1n63 1zxi

6 assemblies

View Construct and Data Evidence
UniProt name DCML_OLICA
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 1–809； UniProt 1–809 Author chain E； PDBConstruct 1–809； UniProt 1–809

Carbon monoxide dehydrogenase medium chain

OrganismNot specified

UniProt P19920

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 6 Carbon monoxide dehydrogenase small chain × 2 （P19921） Carbon monoxide dehydrogenase large chain × 2 （P19919） PHOSPHATE ION × 1 FE2/S2 (INORGANIC) CLUSTER × 4 CU(I)-S-MO(IV)(=O)O-NBIC CLUSTER × 2 PTERIN CYTOSINE DINUCLEOTIDE × 2 FLAVIN-ADENINE DINUCLEOTIDE × 2 water × 6 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1n5w 1n60 1n61 1n62 1n63 1zxi

6 assemblies

View Construct and Data Evidence
UniProt name DCMM_OLICA
Isoform —
PDB entities 3
Chains and sequence ranges Author chain C； PDBConstruct 1–288； UniProt 1–288 Author chain F； PDBConstruct 1–288； UniProt 1–288

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_id1n62
Deposition date deposition_date2002-11-08
Structure title titleCrystal Structure of the Mo,Cu-CO Dehydrogenase (CODH), n-butylisocyanide-bound state
Keywords keywordsCODH, molybdenum, molybdopterin, oxidoreductase; OXIDOREDUCTASE
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.

1n62__assembly_1__model_1

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

Download this curve (.dat)

1n62__assembly_1__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.

1n62__assembly_1__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）43.50 Å
Rg (electron density)43.58 Å
Total Rg43.68 Å
Atom count19162
Residues2492
Excluded volume340570 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1n62__assembly_1__model_1 hexameric （6） 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) 32 domains

SCOP 2.08 (12 domains)

Domain ID domain_idd1n62a1
Class classa — All alpha proteins
Fold Fold folda.56 — CO dehydrogenase ISP C-domain like
Superfamily Superfamily superfamilya.56.1 — CO dehydrogenase ISP C-domain like
Family Family familya.56.1.1 — CO dehydrogenase ISP C-domain like
Domain ID domain_idd1n62a2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.15 — beta-Grasp (ubiquitin-like)
Superfamily Superfamily superfamilyd.15.4 — 2Fe-2S ferredoxin-like
Family Family familyd.15.4.2 — 2Fe-2S ferredoxin domains from multidomain proteins
Domain ID domain_idd1n62b1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.41 — alpha/beta-Hammerhead
Superfamily Superfamily superfamilyd.41.1 — CO dehydrogenase molybdoprotein N-domain-like
Family Family familyd.41.1.1 — CO dehydrogenase molybdoprotein N-domain-like
Domain ID domain_idd1n62b2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.133 — Molybdenum cofactor-binding domain
Superfamily Superfamily superfamilyd.133.1 — Molybdenum cofactor-binding domain
Family Family familyd.133.1.1 — Molybdenum cofactor-binding domain
Domain ID domain_idd1n62c1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.87 — CO dehydrogenase flavoprotein C-domain-like
Superfamily Superfamily superfamilyd.87.2 — CO dehydrogenase flavoprotein C-terminal domain-like
Family Family familyd.87.2.1 — CO dehydrogenase flavoprotein C-terminal domain-like
Domain ID domain_idd1n62c2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.145 — FAD-binding/transporter-associated domain-like
Superfamily Superfamily superfamilyd.145.1 — FAD-binding/transporter-associated domain-like
Family Family familyd.145.1.3 — CO dehydrogenase flavoprotein N-terminal domain-like
Domain ID domain_idd1n62d1
Class classa — All alpha proteins
Fold Fold folda.56 — CO dehydrogenase ISP C-domain like
Superfamily Superfamily superfamilya.56.1 — CO dehydrogenase ISP C-domain like
Family Family familya.56.1.1 — CO dehydrogenase ISP C-domain like
Domain ID domain_idd1n62d2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.15 — beta-Grasp (ubiquitin-like)
Superfamily Superfamily superfamilyd.15.4 — 2Fe-2S ferredoxin-like
Family Family familyd.15.4.2 — 2Fe-2S ferredoxin domains from multidomain proteins
Domain ID domain_idd1n62e1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.41 — alpha/beta-Hammerhead
Superfamily Superfamily superfamilyd.41.1 — CO dehydrogenase molybdoprotein N-domain-like
Family Family familyd.41.1.1 — CO dehydrogenase molybdoprotein N-domain-like
Domain ID domain_idd1n62e2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.133 — Molybdenum cofactor-binding domain
Superfamily Superfamily superfamilyd.133.1 — Molybdenum cofactor-binding domain
Family Family familyd.133.1.1 — Molybdenum cofactor-binding domain
Domain ID domain_idd1n62f1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.87 — CO dehydrogenase flavoprotein C-domain-like
Superfamily Superfamily superfamilyd.87.2 — CO dehydrogenase flavoprotein C-terminal domain-like
Family Family familyd.87.2.1 — CO dehydrogenase flavoprotein C-terminal domain-like
Domain ID domain_idd1n62f2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.145 — FAD-binding/transporter-associated domain-like
Superfamily Superfamily superfamilyd.145.1 — FAD-binding/transporter-associated domain-like
Family Family familyd.145.1.3 — CO dehydrogenase flavoprotein N-terminal domain-like

CATH v4.4 (20 domains)

Domain ID domain_id1n62A01
Class class3 — Alpha Beta
Architecture architecture10 — Roll
Topology topology20 — Ubiquitin-like (UB roll)
Homologous superfamily homologous superfamily30 — Beta-grasp domain
Domain ID domain_id1n62A02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology150 — DNA polymerase; domain 1
Homologous superfamily homologous superfamily120 — [2Fe-2S]-binding domain
Domain ID domain_id1n62B01
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology1170 — Aldehyde Oxidoreductase; domain 3
Homologous superfamily homologous superfamily50 — Aldehyde oxidase/xanthine dehydrogenase, a/b hammerhead
Domain ID domain_id1n62B02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology365 — Aldehyde Oxidoreductase; domain 4
Homologous superfamily homologous superfamily10 — Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain
Domain ID domain_id1n62B03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology365 — Aldehyde Oxidoreductase; domain 4
Homologous superfamily homologous superfamily10 — Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain
Domain ID domain_id1n62B04
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology365 — Aldehyde Oxidoreductase; domain 4
Homologous superfamily homologous superfamily10 — Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain
Domain ID domain_id1n62B05
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology365 — Aldehyde Oxidoreductase; domain 4
Homologous superfamily homologous superfamily10 — Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain
Domain ID domain_id1n62C01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology43 — Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 2
Homologous superfamily homologous superfamily10 — Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase, domain 2
Domain ID domain_id1n62C02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology390 — Enolase-like; domain 1
Homologous superfamily homologous superfamily50 — CO dehydrogenase flavoprotein, C-terminal domain
Domain ID domain_id1n62C03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology465 — Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3
Homologous superfamily homologous superfamily10 —
Domain ID domain_id1n62D01
Class class3 — Alpha Beta
Architecture architecture10 — Roll
Topology topology20 — Ubiquitin-like (UB roll)
Homologous superfamily homologous superfamily30 — Beta-grasp domain
Domain ID domain_id1n62D02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology150 — DNA polymerase; domain 1
Homologous superfamily homologous superfamily120 — [2Fe-2S]-binding domain
Domain ID domain_id1n62E01
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology1170 — Aldehyde Oxidoreductase; domain 3
Homologous superfamily homologous superfamily50 — Aldehyde oxidase/xanthine dehydrogenase, a/b hammerhead
Domain ID domain_id1n62E02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology365 — Aldehyde Oxidoreductase; domain 4
Homologous superfamily homologous superfamily10 — Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain
Domain ID domain_id1n62E03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology365 — Aldehyde Oxidoreductase; domain 4
Homologous superfamily homologous superfamily10 — Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain
Domain ID domain_id1n62E04
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology365 — Aldehyde Oxidoreductase; domain 4
Homologous superfamily homologous superfamily10 — Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain
Domain ID domain_id1n62E05
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology365 — Aldehyde Oxidoreductase; domain 4
Homologous superfamily homologous superfamily10 — Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain
Domain ID domain_id1n62F01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology43 — Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 2
Homologous superfamily homologous superfamily10 — Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase, domain 2
Domain ID domain_id1n62F02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology390 — Enolase-like; domain 1
Homologous superfamily homologous superfamily50 — CO dehydrogenase flavoprotein, C-terminal domain
Domain ID domain_id1n62F03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology465 — Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3
Homologous superfamily homologous superfamily10 —
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7. Citations (1)