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1c0w

CRYSTAL STRUCTURE OF THE COBALT-ACTIVATED DIPHTHERIA TOXIN REPRESSOR-DNA COMPLEX REVEALS A METAL BINDING SH-LIKE DOMAIN

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

DIPHTHERIA TOXIN REPRESSOR

Corynebacterium diphtheriae

UniProt P33120

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Homooligomer Protein 4 DNA 2 ;DNA (5'-D(P*AP*TP*TP*AP*GP*GP*TP*TP*AP*GP*CP*CP*TP*AP*CP*CP*CP*TP*AP*AP*T)-3') ; × 1 ;DNA (5'-D(P*AP*TP*TP*AP*GP*GP*TP*TP*AP*GP*GP*CP*TP*AP*CP*CP*CP*TP*AP*AP*T)-3') ; × 1 COBALT (II) ION × 8 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
1bi0 1bi1 1bym 1p92 1qvp 1qw1

6 assemblies

Homodimer
1bi2 1bi3 1dpr 1fwz 1g3s 1g3t 1g3w 1g3y 1p92 1xcv 2dtr 2qq9

16 assemblies; showing the first 12

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1c0w 1ddn 1f5t

3 assemblies

View Construct and Data Evidence
UniProt name DTXR_CORDI
Isoform —
PDB entities 3
Chains and sequence ranges Author chain A； PDBConstruct 1–225； UniProt 2–226 Author chain B； PDBConstruct 1–225； UniProt 2–226 Author chain C； PDBConstruct 1–225； UniProt 2–226 Author chain D； PDBConstruct 1–225； UniProt 2–226

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_id1c0w
Deposition date deposition_date1999-07-22
Structure title titleCRYSTAL STRUCTURE OF THE COBALT-ACTIVATED DIPHTHERIA TOXIN REPRESSOR-DNA COMPLEX REVEALS A METAL BINDING SH-LIKE DOMAIN
Keywords keywordsTOXIN REPRESSOR-DNA COMPLEX, METAL BINDING SH-LIKE DOMAIN, GENE REGULATION-DNA COMPLEX; GENE REGULATION/DNA
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.

1c0w__assembly_1__model_1

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

Download this curve (.dat)

1c0w__assembly_1__model_1 | I(q)

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

1c0w__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）33.59 Å
Rg (electron density)34.29 Å
Total Rg34.42 Å
Atom count6575
Residues784
Excluded volume114210 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1c0w__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 (4)

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6. Fold Classification (SCOP + CATH) 24 domains

SCOP 2.08 (12 domains)

Domain ID domain_idd1c0wa1
Class classa — All alpha proteins
Fold Fold folda.4 — DNA/RNA-binding 3-helical bundle
Superfamily Superfamily superfamilya.4.5 — 'Winged helix' DNA-binding domain
Family Family familya.4.5.24 — Iron-dependent repressor protein
Domain ID domain_idd1c0wa2
Class classa — All alpha proteins
Fold Fold folda.76 — Iron-dependent repressor protein, dimerization domain
Superfamily Superfamily superfamilya.76.1 — Iron-dependent repressor protein, dimerization domain
Family Family familya.76.1.1 — Iron-dependent repressor protein, dimerization domain
Domain ID domain_idd1c0wa3
Class classb — All beta proteins
Fold Fold foldb.34 — SH3-like barrel
Superfamily Superfamily superfamilyb.34.1 — C-terminal domain of transcriptional repressors
Family Family familyb.34.1.2 — FeoA-like
Domain ID domain_idd1c0wb1
Class classa — All alpha proteins
Fold Fold folda.4 — DNA/RNA-binding 3-helical bundle
Superfamily Superfamily superfamilya.4.5 — 'Winged helix' DNA-binding domain
Family Family familya.4.5.24 — Iron-dependent repressor protein
Domain ID domain_idd1c0wb2
Class classa — All alpha proteins
Fold Fold folda.76 — Iron-dependent repressor protein, dimerization domain
Superfamily Superfamily superfamilya.76.1 — Iron-dependent repressor protein, dimerization domain
Family Family familya.76.1.1 — Iron-dependent repressor protein, dimerization domain
Domain ID domain_idd1c0wb3
Class classb — All beta proteins
Fold Fold foldb.34 — SH3-like barrel
Superfamily Superfamily superfamilyb.34.1 — C-terminal domain of transcriptional repressors
Family Family familyb.34.1.2 — FeoA-like
Domain ID domain_idd1c0wc1
Class classa — All alpha proteins
Fold Fold folda.4 — DNA/RNA-binding 3-helical bundle
Superfamily Superfamily superfamilya.4.5 — 'Winged helix' DNA-binding domain
Family Family familya.4.5.24 — Iron-dependent repressor protein
Domain ID domain_idd1c0wc2
Class classa — All alpha proteins
Fold Fold folda.76 — Iron-dependent repressor protein, dimerization domain
Superfamily Superfamily superfamilya.76.1 — Iron-dependent repressor protein, dimerization domain
Family Family familya.76.1.1 — Iron-dependent repressor protein, dimerization domain
Domain ID domain_idd1c0wc3
Class classb — All beta proteins
Fold Fold foldb.34 — SH3-like barrel
Superfamily Superfamily superfamilyb.34.1 — C-terminal domain of transcriptional repressors
Family Family familyb.34.1.2 — FeoA-like
Domain ID domain_idd1c0wd1
Class classa — All alpha proteins
Fold Fold folda.4 — DNA/RNA-binding 3-helical bundle
Superfamily Superfamily superfamilya.4.5 — 'Winged helix' DNA-binding domain
Family Family familya.4.5.24 — Iron-dependent repressor protein
Domain ID domain_idd1c0wd2
Class classa — All alpha proteins
Fold Fold folda.76 — Iron-dependent repressor protein, dimerization domain
Superfamily Superfamily superfamilya.76.1 — Iron-dependent repressor protein, dimerization domain
Family Family familya.76.1.1 — Iron-dependent repressor protein, dimerization domain
Domain ID domain_idd1c0wd3
Class classb — All beta proteins
Fold Fold foldb.34 — SH3-like barrel
Superfamily Superfamily superfamilyb.34.1 — C-terminal domain of transcriptional repressors
Family Family familyb.34.1.2 — FeoA-like

CATH v4.4 (12 domains)

Domain ID domain_id1c0wA01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily10 — Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
Domain ID domain_id1c0wA02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology60 — Diphtheria Toxin Repressor; domain 2
Homologous superfamily homologous superfamily10 — Iron dependent repressor, metal binding and dimerisation domain
Domain ID domain_id1c0wA03
Class class6 — Special
Architecture architecture10 — Helix non-globular
Topology topology140 — Helix Hairpins
Homologous superfamily homologous superfamily1920 —
Domain ID domain_id1c0wB01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily10 — Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
Domain ID domain_id1c0wB02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology60 — Diphtheria Toxin Repressor; domain 2
Homologous superfamily homologous superfamily10 — Iron dependent repressor, metal binding and dimerisation domain
Domain ID domain_id1c0wB03
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily90 — Ferrous iron transport protein A (FeoA)
Domain ID domain_id1c0wC01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily10 — Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
Domain ID domain_id1c0wC02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology60 — Diphtheria Toxin Repressor; domain 2
Homologous superfamily homologous superfamily10 — Iron dependent repressor, metal binding and dimerisation domain
Domain ID domain_id1c0wC03
Class class6 — Special
Architecture architecture10 — Helix non-globular
Topology topology140 — Helix Hairpins
Homologous superfamily homologous superfamily1920 —
Domain ID domain_id1c0wD01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily10 — Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
Domain ID domain_id1c0wD02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology60 — Diphtheria Toxin Repressor; domain 2
Homologous superfamily homologous superfamily10 — Iron dependent repressor, metal binding and dimerisation domain
Domain ID domain_id1c0wD03
Class class6 — Special
Architecture architecture10 — Helix non-globular
Topology topology140 — Helix Hairpins
Homologous superfamily homologous superfamily1920 —
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7. Citations (1)