1c9b

CRYSTAL STRUCTURE OF A HUMAN TBP CORE DOMAIN-HUMAN TFIIB CORE DOMAIN COMPLEX BOUND TO AN EXTENDED, MODIFIED ADENOVIRAL MAJOR LATE PROMOTER (ADMLP)

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

GENERAL TRANSCRIPTION FACTOR IIB

Homo sapiens

UniProt Q00403

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 2 DNA 2 ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT × 1 ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT × 1 TATA BOX BINDING PROTEIN × 1 (P20226) water × 4 Consistent with all polymers
2 Protein–DNA Heteromer Protein 2 DNA 2 ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT × 1 ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT × 1 TATA BOX BINDING PROTEIN × 1 (P20226) water × 4 Consistent with all polymers
3 Protein–DNA Heteromer Protein 2 DNA 2 ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT × 1 ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT × 1 TATA BOX BINDING PROTEIN × 1 (P20226) water × 4 Consistent with all polymers
4 Protein–DNA Heteromer Protein 2 DNA 2 ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT × 1 ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT × 1 TATA BOX BINDING PROTEIN × 1 (P20226) water × 4 Consistent with all polymers
5 Protein–DNA Heteromer Protein 2 DNA 2 ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT × 1 ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT × 1 TATA BOX BINDING PROTEIN × 1 (P20226) water × 4 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name TF2B_HUMAN
Isoform —
PDB entities 3
Chains and sequence ranges Author chain A; PDBConstruct 1–207; UniProt 110–316 Author chain E; PDBConstruct 1–207; UniProt 110–316 Author chain I; PDBConstruct 1–207; UniProt 110–316 Author chain M; PDBConstruct 1–207; UniProt 110–316 Author chain Q; PDBConstruct 1–207; UniProt 110–316

TATA BOX BINDING PROTEIN

Homo sapiens

UniProt P20226

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 2 DNA 2 ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT × 1 ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT × 1 GENERAL TRANSCRIPTION FACTOR IIB × 1 (Q00403) water × 4 Consistent with all polymers
2 Protein–DNA Heteromer Protein 2 DNA 2 ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT × 1 ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT × 1 GENERAL TRANSCRIPTION FACTOR IIB × 1 (Q00403) water × 4 Consistent with all polymers
3 Protein–DNA Heteromer Protein 2 DNA 2 ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT × 1 ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT × 1 GENERAL TRANSCRIPTION FACTOR IIB × 1 (Q00403) water × 4 Consistent with all polymers
4 Protein–DNA Heteromer Protein 2 DNA 2 ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT × 1 ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT × 1 GENERAL TRANSCRIPTION FACTOR IIB × 1 (Q00403) water × 4 Consistent with all polymers
5 Protein–DNA Heteromer Protein 2 DNA 2 ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT × 1 ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT × 1 GENERAL TRANSCRIPTION FACTOR IIB × 1 (Q00403) water × 4 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name TBP_HUMAN
Isoform —
PDB entities 4
Chains and sequence ranges Author chain B; PDBConstruct 1–180; UniProt 158–337 Author chain F; PDBConstruct 1–180; UniProt 158–337 Author chain J; PDBConstruct 1–180; UniProt 158–337 Author chain N; PDBConstruct 1–180; UniProt 158–337 Author chain R; PDBConstruct 1–180; UniProt 158–337

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_id1c9b
Deposition date deposition_date1999-08-01
Structure title titleCRYSTAL STRUCTURE OF A HUMAN TBP CORE DOMAIN-HUMAN TFIIB CORE DOMAIN COMPLEX BOUND TO AN EXTENDED, MODIFIED ADENOVIRAL MAJOR LATE PROMOTER (ADMLP)
Keywords keywordsPROTEIN-DNA COMPLEX, CYCLIN-LIKE FOLD, HELIX-TURN-HELIX, TATA-BOX, 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.

1c9b__assembly_1__model_1

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

Download this curve (.dat)

1c9b__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.

1c9b__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)25.25 Å
Rg (electron density)25.17 Å
Total Rg25.83 Å
Atom count3774
Residues423
Excluded volume65714 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1c9b__assembly_1__model_1 tetrameric (4) Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 1c9b__assembly_2__model_1 tetrameric (4) Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 1c9b__assembly_3__model_1 tetrameric (4) Success 4.1.3-1-20251215 (887e7ef) View Download
4 1 1c9b__assembly_4__model_1 tetrameric (4) Success 4.1.3-1-20251215 (887e7ef) View Download
5 1 1c9b__assembly_5__model_1 tetrameric (4) 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 (5)

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6. Fold Classification (SCOP + CATH) 40 domains

SCOP 2.08 (20 domains)

Domain ID domain_idd1c9ba1
Class classa — All alpha proteins
Fold Fold folda.74 — Cyclin-like
Superfamily Superfamily superfamilya.74.1 — Cyclin-like
Family Family familya.74.1.2 — Transcription factor IIB (TFIIB), core domain
Domain ID domain_idd1c9ba2
Class classa — All alpha proteins
Fold Fold folda.74 — Cyclin-like
Superfamily Superfamily superfamilya.74.1 — Cyclin-like
Family Family familya.74.1.2 — Transcription factor IIB (TFIIB), core domain
Domain ID domain_idd1c9bb1
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_idd1c9bb2
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_idd1c9be1
Class classa — All alpha proteins
Fold Fold folda.74 — Cyclin-like
Superfamily Superfamily superfamilya.74.1 — Cyclin-like
Family Family familya.74.1.2 — Transcription factor IIB (TFIIB), core domain
Domain ID domain_idd1c9be2
Class classa — All alpha proteins
Fold Fold folda.74 — Cyclin-like
Superfamily Superfamily superfamilya.74.1 — Cyclin-like
Family Family familya.74.1.2 — Transcription factor IIB (TFIIB), core domain
Domain ID domain_idd1c9bf1
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_idd1c9bf2
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_idd1c9bi1
Class classa — All alpha proteins
Fold Fold folda.74 — Cyclin-like
Superfamily Superfamily superfamilya.74.1 — Cyclin-like
Family Family familya.74.1.2 — Transcription factor IIB (TFIIB), core domain
Domain ID domain_idd1c9bi2
Class classa — All alpha proteins
Fold Fold folda.74 — Cyclin-like
Superfamily Superfamily superfamilya.74.1 — Cyclin-like
Family Family familya.74.1.2 — Transcription factor IIB (TFIIB), core domain
Domain ID domain_idd1c9bj1
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_idd1c9bj2
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_idd1c9bm1
Class classa — All alpha proteins
Fold Fold folda.74 — Cyclin-like
Superfamily Superfamily superfamilya.74.1 — Cyclin-like
Family Family familya.74.1.2 — Transcription factor IIB (TFIIB), core domain
Domain ID domain_idd1c9bm2
Class classa — All alpha proteins
Fold Fold folda.74 — Cyclin-like
Superfamily Superfamily superfamilya.74.1 — Cyclin-like
Family Family familya.74.1.2 — Transcription factor IIB (TFIIB), core domain
Domain ID domain_idd1c9bn1
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_idd1c9bn2
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_idd1c9bq1
Class classa — All alpha proteins
Fold Fold folda.74 — Cyclin-like
Superfamily Superfamily superfamilya.74.1 — Cyclin-like
Family Family familya.74.1.2 — Transcription factor IIB (TFIIB), core domain
Domain ID domain_idd1c9bq2
Class classa — All alpha proteins
Fold Fold folda.74 — Cyclin-like
Superfamily Superfamily superfamilya.74.1 — Cyclin-like
Family Family familya.74.1.2 — Transcription factor IIB (TFIIB), core domain
Domain ID domain_idd1c9br1
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_idd1c9br2
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

CATH v4.4 (20 domains)

Domain ID domain_id1c9bA01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology472 — Cyclin A; domain 1
Homologous superfamily homologous superfamily10 — Cyclin-like
Domain ID domain_id1c9bA02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology472 — Cyclin A; domain 1
Homologous superfamily homologous superfamily10 — Cyclin-like
Domain ID domain_id1c9bB01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology310 — TATA-Binding Protein
Homologous superfamily homologous superfamily10 — TATA-Binding Protein
Domain ID domain_id1c9bB02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology310 — TATA-Binding Protein
Homologous superfamily homologous superfamily10 — TATA-Binding Protein
Domain ID domain_id1c9bE01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology472 — Cyclin A; domain 1
Homologous superfamily homologous superfamily10 — Cyclin-like
Domain ID domain_id1c9bE02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology472 — Cyclin A; domain 1
Homologous superfamily homologous superfamily10 — Cyclin-like
Domain ID domain_id1c9bF01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology310 — TATA-Binding Protein
Homologous superfamily homologous superfamily10 — TATA-Binding Protein
Domain ID domain_id1c9bF02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology310 — TATA-Binding Protein
Homologous superfamily homologous superfamily10 — TATA-Binding Protein
Domain ID domain_id1c9bI01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology472 — Cyclin A; domain 1
Homologous superfamily homologous superfamily10 — Cyclin-like
Domain ID domain_id1c9bI02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology472 — Cyclin A; domain 1
Homologous superfamily homologous superfamily10 — Cyclin-like
Domain ID domain_id1c9bJ01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology310 — TATA-Binding Protein
Homologous superfamily homologous superfamily10 — TATA-Binding Protein
Domain ID domain_id1c9bJ02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology310 — TATA-Binding Protein
Homologous superfamily homologous superfamily10 — TATA-Binding Protein
Domain ID domain_id1c9bM01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology472 — Cyclin A; domain 1
Homologous superfamily homologous superfamily10 — Cyclin-like
Domain ID domain_id1c9bM02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology472 — Cyclin A; domain 1
Homologous superfamily homologous superfamily10 — Cyclin-like
Domain ID domain_id1c9bN01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology310 — TATA-Binding Protein
Homologous superfamily homologous superfamily10 — TATA-Binding Protein
Domain ID domain_id1c9bN02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology310 — TATA-Binding Protein
Homologous superfamily homologous superfamily10 — TATA-Binding Protein
Domain ID domain_id1c9bQ01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology472 — Cyclin A; domain 1
Homologous superfamily homologous superfamily10 — Cyclin-like
Domain ID domain_id1c9bQ02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology472 — Cyclin A; domain 1
Homologous superfamily homologous superfamily10 — Cyclin-like
Domain ID domain_id1c9bR01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology310 — TATA-Binding Protein
Homologous superfamily homologous superfamily10 — TATA-Binding Protein
Domain ID domain_id1c9bR02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology310 — TATA-Binding Protein
Homologous superfamily homologous superfamily10 — TATA-Binding Protein
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7. Citations (6)