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2kdz

Structure of the R2R3 DNA binding domain of MYB1 protein from protozoan parasite trichomonas vaginalis in complex with MRE-1/MRE-2R DNA

Method: SOLUTION NMR
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1. Protein Identity and Related Structures Protein Identity & Related Structures

MYB24

Trichomonas vaginalis

UniProt Q58HP2

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Monomer Protein 1 DNA 2 5'-D(*AP*AP*GP*AP*TP*AP*AP*CP*GP*AP*TP*AP*TP*TP*TP*A)-3' × 1 5'-D(*TP*AP*AP*AP*TP*AP*TP*CP*GP*TP*TP*AP*TP*CP*TP*T)-3' × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
2k9n

1 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
2kdz

1 assemblies

View Construct and Data Evidence
UniProt name Q58HP2_TRIVA
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–107； UniProt 35–141

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_id2kdz
Deposition date deposition_date2009-01-21
Structure title titleStructure of the R2R3 DNA binding domain of MYB1 protein from protozoan parasite trichomonas vaginalis in complex with MRE-1/MRE-2R DNA
Keywords keywordsMyb1, R2R3 Domain, DNA-binding, Nucleus, TRANSCRIPTION-DNA COMPLEX; TRANSCRIPTION/DNA
Experimental Method methodSOLUTION NMR
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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.

2kdz__assembly_1__model_6

Assembly 1 · Model 6 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

2kdz__assembly_1__model_6 | I(q)

10-2 10-1 105 106 107 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

2kdz__assembly_1__model_6 | 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）18.50 Å
Rg (electron density)17.92 Å
Total Rg18.78 Å
Atom count2881
Residues139
Excluded volume26011 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 2kdz__assembly_1__model_1 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
1 2 2kdz__assembly_1__model_2 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
1 3 2kdz__assembly_1__model_3 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
1 4 2kdz__assembly_1__model_4 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
1 5 2kdz__assembly_1__model_5 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
1 6 2kdz__assembly_1__model_6 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
1 7 2kdz__assembly_1__model_7 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
1 8 2kdz__assembly_1__model_8 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
1 9 2kdz__assembly_1__model_9 trimeric （3） Success 4.1.3-1-20251215 (887e7ef) View Download
1 10 2kdz__assembly_1__model_10 trimeric （3） 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) 4 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd2kdza1
Class classa — All alpha proteins
Fold Fold folda.4 — DNA/RNA-binding 3-helical bundle
Superfamily Superfamily superfamilya.4.1 — Homeodomain-like
Family Family familya.4.1.0 — automated matches
Domain ID domain_idd2kdza2
Class classa — All alpha proteins
Fold Fold folda.4 — DNA/RNA-binding 3-helical bundle
Superfamily Superfamily superfamilya.4.1 — Homeodomain-like
Family Family familya.4.1.0 — automated matches

CATH v4.4 (2 domains)

Domain ID domain_id2kdzA01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily60 — Homeodomain-like
Domain ID domain_id2kdzA02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily60 — Homeodomain-like
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7. Citations (1)