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1ytf

YEAST TFIIA/TBP/DNA COMPLEX

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

PROTEIN (TATA BINDING PROTEIN (TBP))

Saccharomyces cerevisiae

UniProt P13393

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 4 DNA 2 ;DNA (5'-D(*TP*GP*TP*AP*TP*GP*TP*AP*TP*AP*TP*AP*AP*AP*AP*C)-3') ; × 1 ;DNA (5'-D(*GP*TP*TP*TP*TP*AP*TP*AP*TP*AP*CP*AP*TP*AP*CP*A)-3') ; × 1 PROTEIN (TRANSCRIPTION FACTOR IIA - TOA1N SUBUNIT) × 1 （P32773） PROTEIN (TRANSCRIPTION FACTOR IIA - TOA1C SUBUNIT) × 1 （P32773） PROTEIN (TRANSCRIPTION FACTOR IIA - TOA2 SUBUNIT) × 1 （P32774） Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer
1tbp

1 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1ngm 1ngm 1ngm 1ngm 1nh2 1rm1 1tba 1ytb 1ytb 1ytf 4b0a 4v1n

52 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name TBP_YEAST
Isoform —
PDB entities 3
Chains and sequence ranges Author chain A； PDBConstruct 1–180； UniProt 60–239

PROTEIN (TRANSCRIPTION FACTOR IIA - TOA1N SUBUNIT)

Saccharomyces cerevisiae

UniProt P32773

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 4 DNA 2 ;DNA (5'-D(*TP*GP*TP*AP*TP*GP*TP*AP*TP*AP*TP*AP*AP*AP*AP*C)-3') ; × 1 ;DNA (5'-D(*GP*TP*TP*TP*TP*AP*TP*AP*TP*AP*CP*AP*TP*AP*CP*A)-3') ; × 1 PROTEIN (TATA BINDING PROTEIN (TBP)) × 1 （P13393） PROTEIN (TRANSCRIPTION FACTOR IIA - TOA2 SUBUNIT) × 1 （P32774） Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1nh2 1rm1 1ytf 5fyw 5fz5 5oqj 5oqm 5sva 6gyk 6gyl 6gym 7o4i

19 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name TOA1_YEAST
Isoform —
PDB entities 4, 5
Chains and sequence ranges Author chain B； PDBConstruct 1–53； UniProt 2–54 Author chain C； PDBConstruct 3–79； UniProt 210–286

PROTEIN (TRANSCRIPTION FACTOR IIA - TOA2 SUBUNIT)

Saccharomyces cerevisiae

UniProt P32774

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 4 DNA 2 ;DNA (5'-D(*TP*GP*TP*AP*TP*GP*TP*AP*TP*AP*TP*AP*AP*AP*AP*C)-3') ; × 1 ;DNA (5'-D(*GP*TP*TP*TP*TP*AP*TP*AP*TP*AP*CP*AP*TP*AP*CP*A)-3') ; × 1 PROTEIN (TATA BINDING PROTEIN (TBP)) × 1 （P13393） PROTEIN (TRANSCRIPTION FACTOR IIA - TOA1N SUBUNIT) × 1 （P32773） PROTEIN (TRANSCRIPTION FACTOR IIA - TOA1C SUBUNIT) × 1 （P32773） Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1nh2 1rm1 1ytf 5fmf 5fyw 5fz5 5oqj 5oqm 5sva 6gyk 6gyl 6gym

22 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name TOA2_YEAST
Isoform —
PDB entities 6
Chains and sequence ranges Author chain D； PDBConstruct 1–121； UniProt 2–122

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_id1ytf
Deposition date deposition_date1996-04-05
Structure title titleYEAST TFIIA/TBP/DNA COMPLEX
Keywords keywordsTRANSCRIPTION REGULATION, DNA, COMPLEX, 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.

1ytf__assembly_1__model_1

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

Download this curve (.dat)

1ytf__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.

1ytf__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）27.87 Å
Rg (electron density)28.18 Å
Total Rg28.50 Å
Atom count3605
Residues404
Excluded volume62876 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1ytf__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 (6)

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6. Fold Classification (SCOP + CATH) 12 domains

SCOP 2.08 (6 domains)

Domain ID domain_idd1ytfa1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.129 — TBP-like
Superfamily Superfamily superfamilyd.129.1 — TATA-box binding protein-like
Family Family familyd.129.1.1 — TATA-box binding protein (TBP), C-terminal domain
Domain ID domain_idd1ytfa2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.129 — TBP-like
Superfamily Superfamily superfamilyd.129.1 — TATA-box binding protein-like
Family Family familyd.129.1.1 — TATA-box binding protein (TBP), C-terminal domain
Domain ID domain_idd1ytfb_
Class classa — All alpha proteins
Fold Fold folda.32 — Transcription factor IIA (TFIIA), alpha-helical domain
Superfamily Superfamily superfamilya.32.1 — Transcription factor IIA (TFIIA), alpha-helical domain
Family Family familya.32.1.1 — Transcription factor IIA (TFIIA), alpha-helical domain
Domain ID domain_idd1ytfc_
Class classb — All beta proteins
Fold Fold foldb.56 — Transcription factor IIA (TFIIA), beta-barrel domain
Superfamily Superfamily superfamilyb.56.1 — Transcription factor IIA (TFIIA), beta-barrel domain
Family Family familyb.56.1.1 — Transcription factor IIA (TFIIA), beta-barrel domain
Domain ID domain_idd1ytfd1
Class classa — All alpha proteins
Fold Fold folda.32 — Transcription factor IIA (TFIIA), alpha-helical domain
Superfamily Superfamily superfamilya.32.1 — Transcription factor IIA (TFIIA), alpha-helical domain
Family Family familya.32.1.1 — Transcription factor IIA (TFIIA), alpha-helical domain
Domain ID domain_idd1ytfd2
Class classb — All beta proteins
Fold Fold foldb.56 — Transcription factor IIA (TFIIA), beta-barrel domain
Superfamily Superfamily superfamilyb.56.1 — Transcription factor IIA (TFIIA), beta-barrel domain
Family Family familyb.56.1.1 — Transcription factor IIA (TFIIA), beta-barrel domain

CATH v4.4 (6 domains)

Domain ID domain_id1ytfA01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology310 — TATA-Binding Protein
Homologous superfamily homologous superfamily10 — TATA-Binding Protein
Domain ID domain_id1ytfA02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology310 — TATA-Binding Protein
Homologous superfamily homologous superfamily10 — TATA-Binding Protein
Domain ID domain_id1ytfB00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology287 — Helix Hairpins
Homologous superfamily homologous superfamily100 —
Domain ID domain_id1ytfC00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology18 — TATA box binding Protein, subunit D; domain 2
Homologous superfamily homologous superfamily10 — Transcription factor IIA (TFIIA), beta-barrel domain
Domain ID domain_id1ytfD01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology287 — Helix Hairpins
Homologous superfamily homologous superfamily190 — Transcription factor IIA gamma subunit, alpha-helical domain
Domain ID domain_id1ytfD02
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology18 — TATA box binding Protein, subunit D; domain 2
Homologous superfamily homologous superfamily10 — Transcription factor IIA (TFIIA), beta-barrel domain
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7. Citations (1)