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1n5x

Xanthine Dehydrogenase from Bovine Milk with Inhibitor TEI-6720 Bound

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

Xanthine Dehydrogenase

OrganismNot specified

UniProt P80457

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein homooligomer Homooligomer Protein 2 FE2/S2 (INORGANIC) CLUSTER × 4 PHOSPHONIC ACIDMONO-(2-AMINO-5,6-DIMERCAPTO-4-OXO-3,7,8A,9,10,10A-HEXAHYDRO-4H-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-7-YLMETHYL)ESTER × 2 DIOXOTHIOMOLYBDENUM(VI) ION × 2 FLAVIN-ADENINE DINUCLEOTIDE × 2 2-(3-CYANO-4-ISOBUTOXY-PHENYL)-4-METHYL-5-THIAZOLE-CARBOXYLIC ACID × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer
1fo4 1n5x 1v97 1vdv 3am9 3amz 3ax7 3ax9 3bdj 3una 3unc 3uni

13 assemblies; showing the first 12

Homotetramer

None

Other homooligomers
1fiq 3b9j 3b9j 3etr 3etr 3etr 3eub 3eub 3nrz 3ns1 3nvv 3nvw

15 assemblies; showing the first 12

Heteromeric or nucleic-acid complex

None

View Construct and Data Evidence
UniProt name XDH_BOVIN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–1331； UniProt 1–1331 Author chain B； PDBConstruct 1–1331； UniProt 1–1331

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_id1n5x
Deposition date deposition_date2002-11-07
Structure title titleXanthine Dehydrogenase from Bovine Milk with Inhibitor TEI-6720 Bound
Keywords keywordsOxidoreductase, Molybdopterin, TEI-6720, Flavoprotein, FAD, Iron-Sulfur Center, Fe2/S2 Center; 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.

1n5x__assembly_1__model_1

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

Download this curve (.dat)

1n5x__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.

1n5x__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）44.99 Å
Rg (electron density)45.28 Å
Total Rg45.35 Å
Atom count20268
Residues2580
Excluded volume361970 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1n5x__assembly_1__model_1 dimeric （2） 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 (6)

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6. Fold Classification (SCOP + CATH) 32 domains

SCOP 2.08 (12 domains)

Domain ID domain_idd1n5xa1
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_idd1n5xa2
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_idd1n5xa3
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_idd1n5xa4
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_idd1n5xa5
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_idd1n5xa6
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_idd1n5xb1
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_idd1n5xb2
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_idd1n5xb3
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_idd1n5xb4
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_idd1n5xb5
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_idd1n5xb6
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_id1n5xA01
Class class3 — Alpha Beta
Architecture architecture10 — Roll
Topology topology20 — Ubiquitin-like (UB roll)
Homologous superfamily homologous superfamily30 — Beta-grasp domain
Domain ID domain_id1n5xA02
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_id1n5xA03
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_id1n5xA04
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_id1n5xA05
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_id1n5xA06
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_id1n5xA07
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_id1n5xA08
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_id1n5xA09
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_id1n5xA10
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_id1n5xB01
Class class3 — Alpha Beta
Architecture architecture10 — Roll
Topology topology20 — Ubiquitin-like (UB roll)
Homologous superfamily homologous superfamily30 — Beta-grasp domain
Domain ID domain_id1n5xB02
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_id1n5xB03
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_id1n5xB04
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_id1n5xB05
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_id1n5xB06
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_id1n5xB07
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_id1n5xB08
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_id1n5xB09
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_id1n5xB10
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
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7. Citations (2)