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2yvh

Crystal structure of the operator-binding form of the multi-drug binding transcriptional repressor CgmR

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

Transcriptional regulator

Corynebacterium glutamicum

UniProt Q8NMG3

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Homooligomer Protein 4 DNA 4 5'-D(*DTP*DAP*DAP*DCP*DTP*DGP*DTP*DAP*DCP*DCP*DGP*DAP*DCP*DC)-3' × 2 5'-D(*DGP*DGP*DTP*DCP*DGP*DGP*DTP*DAP*DCP*DAP*DGP*DTP*DTP*DA)-3' × 2 water × 3 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer
2yve 2zoy 2zoz 2zoz

4 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
2yvh

1 assemblies

View Construct and Data Evidence
UniProt name Q8NMG3_CORGL
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–177； UniProt 1–177 Author chain B； PDBConstruct 1–177； UniProt 1–177 Author chain C； PDBConstruct 1–177； UniProt 1–177 Author chain D； PDBConstruct 1–177； UniProt 1–177

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_id2yvh
Deposition date deposition_date2007-04-12
Structure title titleCrystal structure of the operator-binding form of the multi-drug binding transcriptional repressor CgmR
Keywords keywordsProtein-DNA complex, helix-turn-helix, TetR-family, TRANSCRIPTION-DNA COMPLEX; TRANSCRIPTION/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.

2yvh__assembly_1__model_1

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

Download this curve (.dat)

2yvh__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.

2yvh__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）36.29 Å
Rg (electron density)36.80 Å
Total Rg37.00 Å
Atom count6666
Residues730
Excluded volume115150 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 2yvh__assembly_1__model_1 octameric （8） 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) 4 domains

CATH v4.4 (4 domains)

Domain ID domain_id2yvhA00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology357 — Tetracycline Repressor; domain 2
Homologous superfamily homologous superfamily10 — Tetracycline Repressor, domain 2
Domain ID domain_id2yvhB00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology357 — Tetracycline Repressor; domain 2
Homologous superfamily homologous superfamily10 — Tetracycline Repressor, domain 2
Domain ID domain_id2yvhC00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology357 — Tetracycline Repressor; domain 2
Homologous superfamily homologous superfamily10 — Tetracycline Repressor, domain 2
Domain ID domain_id2yvhD00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology357 — Tetracycline Repressor; domain 2
Homologous superfamily homologous superfamily10 — Tetracycline Repressor, domain 2
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7. Citations (1)