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4qpq

Mechanistic basis of plasmid-specific DNA binding of the F plasmid regulatory protein, TraM

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

Relaxosome protein TraM

Escherichia coli

UniProt P10026

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Homooligomer Protein 8 DNA 2 sbmA DNA1 × 1 sbmA DNA2 × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer
2g7o 2g9e 4qpo

3 assemblies

Other homooligomers

None

Heteromeric or nucleic-acid complex
3d8a 3d8a 4qpq

3 assemblies

View Construct and Data Evidence
UniProt name TRAM1_ECOLI
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–53； UniProt 2–54 Author chain B； PDBConstruct 1–53； UniProt 2–54 Author chain C； PDBConstruct 1–53； UniProt 2–54 Author chain D； PDBConstruct 1–53； UniProt 2–54 Author chain E； PDBConstruct 1–53； UniProt 2–54 Author chain F； PDBConstruct 1–53； UniProt 2–54 Author chain G； PDBConstruct 1–53； UniProt 2–54 Author chain H； PDBConstruct 1–53； UniProt 2–54

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_id4qpq
Deposition date deposition_date2014-06-24
Structure title titleMechanistic basis of plasmid-specific DNA binding of the F plasmid regulatory protein, TraM
Keywords keywordsRHH Motif, DNA Binding, 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.

4qpq__assembly_1__model_1

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

Download this curve (.dat)

4qpq__assembly_1__model_1 | I(q)

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

4qpq__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）30.01 Å
Rg (electron density)29.98 Å
Total Rg30.43 Å
Atom count4280
Residues465
Excluded volume72161 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 4qpq__assembly_1__model_1 decameric （10） 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 (3)

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6. Fold Classification (SCOP + CATH) 8 domains

CATH v4.4 (8 domains)

Domain ID domain_id4qpqA00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily450 — TraM protein, DNA-binding
Domain ID domain_id4qpqB00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily450 — TraM protein, DNA-binding
Domain ID domain_id4qpqC00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily450 — TraM protein, DNA-binding
Domain ID domain_id4qpqD00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily450 — TraM protein, DNA-binding
Domain ID domain_id4qpqE00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily450 — TraM protein, DNA-binding
Domain ID domain_id4qpqF00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily450 — TraM protein, DNA-binding
Domain ID domain_id4qpqG00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily450 — TraM protein, DNA-binding
Domain ID domain_id4qpqH00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily450 — TraM protein, DNA-binding
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7. Citations (1)