← Back to search
4xls

Crystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter.

Method: X-RAY DIFFRACTION
▼

1. Protein Identity and Related Structures Protein Identity & Related Structures

DNA-directed RNA polymerase subunit alpha

OrganismNot specified

UniProt Q9KWU8

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 7 DNA 2 DNA-directed RNA polymerase subunit beta × 1 （Q9KWU7） ;DNA-directed RNA polymerase subunit beta' ; × 1 （Q9KWU6） DNA-directed RNA polymerase subunit omega × 1 （Q9EVV4） RNA polymerase sigma factor SigA × 1 （Q9EZJ8） CarD-like transcriptional regulator × 1 （H9ZP94） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers
2 Protein–DNA Heteromer Protein 7 DNA 2 DNA-directed RNA polymerase subunit beta × 1 （Q9KWU7） ;DNA-directed RNA polymerase subunit beta' ; × 1 （Q9KWU6） DNA-directed RNA polymerase subunit omega × 1 （Q9EVV4） RNA polymerase sigma factor SigA × 1 （Q9EZJ8） CarD-like transcriptional regulator × 1 （H9ZP94） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers
3 Protein–DNA Heteromer Protein 6 DNA 2 DNA-directed RNA polymerase subunit beta × 1 （Q9KWU7） ;DNA-directed RNA polymerase subunit beta' ; × 1 （Q9KWU6） DNA-directed RNA polymerase subunit omega × 1 （Q9EVV4） RNA polymerase sigma factor SigA × 1 （Q9EZJ8） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers
4 Protein–DNA Heteromer Protein 6 DNA 2 DNA-directed RNA polymerase subunit beta × 1 （Q9KWU7） ;DNA-directed RNA polymerase subunit beta' ; × 1 （Q9KWU6） DNA-directed RNA polymerase subunit omega × 1 （Q9EVV4） RNA polymerase sigma factor SigA × 1 （Q9EZJ8） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 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
1hqm 1i6v 1l9u 1l9u 1l9z 1ynj 1ynn 2gho 4xln 4xln 4xlp 4xlp

21 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RPOA_THEAQ
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–314； UniProt 1–314 Author chain B； PDBConstruct 1–314； UniProt 1–314 Author chain G； PDBConstruct 1–314； UniProt 1–314 Author chain H； PDBConstruct 1–314； UniProt 1–314

DNA-directed RNA polymerase subunit beta

OrganismNot specified

UniProt Q9KWU7

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 7 DNA 2 DNA-directed RNA polymerase subunit alpha × 2 （Q9KWU8） ;DNA-directed RNA polymerase subunit beta' ; × 1 （Q9KWU6） DNA-directed RNA polymerase subunit omega × 1 （Q9EVV4） RNA polymerase sigma factor SigA × 1 （Q9EZJ8） CarD-like transcriptional regulator × 1 （H9ZP94） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers
2 Protein–DNA Heteromer Protein 7 DNA 2 DNA-directed RNA polymerase subunit alpha × 2 （Q9KWU8） ;DNA-directed RNA polymerase subunit beta' ; × 1 （Q9KWU6） DNA-directed RNA polymerase subunit omega × 1 （Q9EVV4） RNA polymerase sigma factor SigA × 1 （Q9EZJ8） CarD-like transcriptional regulator × 1 （H9ZP94） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers
3 Protein–DNA Heteromer Protein 6 DNA 2 DNA-directed RNA polymerase subunit alpha × 2 （Q9KWU8） ;DNA-directed RNA polymerase subunit beta' ; × 1 （Q9KWU6） DNA-directed RNA polymerase subunit omega × 1 （Q9EVV4） RNA polymerase sigma factor SigA × 1 （Q9EZJ8） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers
4 Protein–DNA Heteromer Protein 6 DNA 2 DNA-directed RNA polymerase subunit alpha × 2 （Q9KWU8） ;DNA-directed RNA polymerase subunit beta' ; × 1 （Q9KWU6） DNA-directed RNA polymerase subunit omega × 1 （Q9EVV4） RNA polymerase sigma factor SigA × 1 （Q9EZJ8） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 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
1hqm 1i6v 1l9u 1l9u 1l9z 1ynj 1ynn 2gho 3mlq 3mlq 3mlq 3mlq

26 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RPOB_THEAQ
Isoform —
PDB entities 2
Chains and sequence ranges Author chain C； PDBConstruct 1–1119； UniProt 1–1119 Author chain I； PDBConstruct 1–1119； UniProt 1–1119

;DNA-directed RNA polymerase subunit beta' ;

OrganismNot specified

UniProt Q9KWU6

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 7 DNA 2 DNA-directed RNA polymerase subunit alpha × 2 （Q9KWU8） DNA-directed RNA polymerase subunit beta × 1 （Q9KWU7） DNA-directed RNA polymerase subunit omega × 1 （Q9EVV4） RNA polymerase sigma factor SigA × 1 （Q9EZJ8） CarD-like transcriptional regulator × 1 （H9ZP94） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers
2 Protein–DNA Heteromer Protein 7 DNA 2 DNA-directed RNA polymerase subunit alpha × 2 （Q9KWU8） DNA-directed RNA polymerase subunit beta × 1 （Q9KWU7） DNA-directed RNA polymerase subunit omega × 1 （Q9EVV4） RNA polymerase sigma factor SigA × 1 （Q9EZJ8） CarD-like transcriptional regulator × 1 （H9ZP94） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers
3 Protein–DNA Heteromer Protein 6 DNA 2 DNA-directed RNA polymerase subunit alpha × 2 （Q9KWU8） DNA-directed RNA polymerase subunit beta × 1 （Q9KWU7） DNA-directed RNA polymerase subunit omega × 1 （Q9EVV4） RNA polymerase sigma factor SigA × 1 （Q9EZJ8） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers
4 Protein–DNA Heteromer Protein 6 DNA 2 DNA-directed RNA polymerase subunit alpha × 2 （Q9KWU8） DNA-directed RNA polymerase subunit beta × 1 （Q9KWU7） DNA-directed RNA polymerase subunit omega × 1 （Q9EVV4） RNA polymerase sigma factor SigA × 1 （Q9EZJ8） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
2auj

1 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1hqm 1i6v 1l9u 1l9u 1l9z 1ynj 1ynn 2gho 4xln 4xln 4xlp 4xlp

21 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RPOC_THEAQ
Isoform —
PDB entities 3
Chains and sequence ranges Author chain D； PDBConstruct 1–1524； UniProt 1–1524 Author chain J； PDBConstruct 1–1524； UniProt 1–1524

DNA-directed RNA polymerase subunit omega

OrganismNot specified

UniProt Q9EVV4

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 7 DNA 2 DNA-directed RNA polymerase subunit alpha × 2 （Q9KWU8） DNA-directed RNA polymerase subunit beta × 1 （Q9KWU7） ;DNA-directed RNA polymerase subunit beta' ; × 1 （Q9KWU6） RNA polymerase sigma factor SigA × 1 （Q9EZJ8） CarD-like transcriptional regulator × 1 （H9ZP94） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers
2 Protein–DNA Heteromer Protein 7 DNA 2 DNA-directed RNA polymerase subunit alpha × 2 （Q9KWU8） DNA-directed RNA polymerase subunit beta × 1 （Q9KWU7） ;DNA-directed RNA polymerase subunit beta' ; × 1 （Q9KWU6） RNA polymerase sigma factor SigA × 1 （Q9EZJ8） CarD-like transcriptional regulator × 1 （H9ZP94） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers
3 Protein–DNA Heteromer Protein 6 DNA 2 DNA-directed RNA polymerase subunit alpha × 2 （Q9KWU8） DNA-directed RNA polymerase subunit beta × 1 （Q9KWU7） ;DNA-directed RNA polymerase subunit beta' ; × 1 （Q9KWU6） RNA polymerase sigma factor SigA × 1 （Q9EZJ8） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers
4 Protein–DNA Heteromer Protein 6 DNA 2 DNA-directed RNA polymerase subunit alpha × 2 （Q9KWU8） DNA-directed RNA polymerase subunit beta × 1 （Q9KWU7） ;DNA-directed RNA polymerase subunit beta' ; × 1 （Q9KWU6） RNA polymerase sigma factor SigA × 1 （Q9EZJ8） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 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
1hqm 1i6v 1l9u 1l9u 1l9z 1ynj 1ynn 4xln 4xln 4xlp 4xlp 4xlq

20 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RPOZ_THEAQ
Isoform —
PDB entities 4
Chains and sequence ranges Author chain E； PDBConstruct 1–99； UniProt 1–99 Author chain K； PDBConstruct 1–99； UniProt 1–99

RNA polymerase sigma factor SigA

Thermus aquaticus

UniProt Q9EZJ8

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 7 DNA 2 DNA-directed RNA polymerase subunit alpha × 2 （Q9KWU8） DNA-directed RNA polymerase subunit beta × 1 （Q9KWU7） ;DNA-directed RNA polymerase subunit beta' ; × 1 （Q9KWU6） DNA-directed RNA polymerase subunit omega × 1 （Q9EVV4） CarD-like transcriptional regulator × 1 （H9ZP94） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers
2 Protein–DNA Heteromer Protein 7 DNA 2 DNA-directed RNA polymerase subunit alpha × 2 （Q9KWU8） DNA-directed RNA polymerase subunit beta × 1 （Q9KWU7） ;DNA-directed RNA polymerase subunit beta' ; × 1 （Q9KWU6） DNA-directed RNA polymerase subunit omega × 1 （Q9EVV4） CarD-like transcriptional regulator × 1 （H9ZP94） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers
3 Protein–DNA Heteromer Protein 6 DNA 2 DNA-directed RNA polymerase subunit alpha × 2 （Q9KWU8） DNA-directed RNA polymerase subunit beta × 1 （Q9KWU7） ;DNA-directed RNA polymerase subunit beta' ; × 1 （Q9KWU6） DNA-directed RNA polymerase subunit omega × 1 （Q9EVV4） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers
4 Protein–DNA Heteromer Protein 6 DNA 2 DNA-directed RNA polymerase subunit alpha × 2 （Q9KWU8） DNA-directed RNA polymerase subunit beta × 1 （Q9KWU7） ;DNA-directed RNA polymerase subunit beta' ; × 1 （Q9KWU6） DNA-directed RNA polymerase subunit omega × 1 （Q9EVV4） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
1ku3 3les 3les 3lev

4 assemblies

Homodimer
1ku2

1 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1ku7 1l9u 1l9u 1l9z 1rio 3lev 3n97 3ugo 3ugp 4ki2 4ki2 4xln

24 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name SIGA_THEAQ
Isoform —
PDB entities 5
Chains and sequence ranges Author chain F； PDBConstruct 1–347； UniProt 92–438 Author chain L； PDBConstruct 1–347； UniProt 92–438

CarD-like transcriptional regulator

Thermus thermophilus JL-18

UniProt H9ZP94

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 7 DNA 2 DNA-directed RNA polymerase subunit alpha × 2 （Q9KWU8） DNA-directed RNA polymerase subunit beta × 1 （Q9KWU7） ;DNA-directed RNA polymerase subunit beta' ; × 1 （Q9KWU6） DNA-directed RNA polymerase subunit omega × 1 （Q9EVV4） RNA polymerase sigma factor SigA × 1 （Q9EZJ8） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers
2 Protein–DNA Heteromer Protein 7 DNA 2 DNA-directed RNA polymerase subunit alpha × 2 （Q9KWU8） DNA-directed RNA polymerase subunit beta × 1 （Q9KWU7） ;DNA-directed RNA polymerase subunit beta' ; × 1 （Q9KWU6） DNA-directed RNA polymerase subunit omega × 1 （Q9EVV4） RNA polymerase sigma factor SigA × 1 （Q9EZJ8） DNA (30-MER) × 1 ;DNA (5'-D(P*GP*CP*AP*CP*AP*AP*TP*TP*TP*AP*AP*CP*AP*CP*TP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 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
4xlr 4xlr 4xls 4xls

4 assemblies

View Construct and Data Evidence
UniProt name H9ZP94_THETH
Isoform —
PDB entities 6
Chains and sequence ranges Author chain M； PDBConstruct 1–164； UniProt 1–164 Author chain N； PDBConstruct 1–164； UniProt 1–164

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.

▼

2. Structure Basics 2. Structure Basics

Entry ID entry_id4xls
Deposition date deposition_date2015-01-13
Structure title titleCrystal structure of T. aquaticus transcription initiation complex with CarD containing upstream fork promoter.
Keywords keywordsprotein-DNA complex, Bacterial transcription initiation complex, TRANSCRIPTION; TRANSCRIPTION
Experimental Method methodX-RAY DIFFRACTION
▼

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.

4xls__assembly_1__model_1

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

Download this curve (.dat)

4xls__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 109 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

4xls__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）54.52 Å
Rg (electron density)54.64 Å
Total Rg54.70 Å
Atom count29974
Residues3710
Excluded volume532010 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 4xls__assembly_1__model_1 nonameric （9） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 4xls__assembly_2__model_1 nonameric （9） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 4xls__assembly_3__model_1 octameric （8） Success 4.1.3-1-20251215 (887e7ef) View Download
4 1 4xls__assembly_4__model_1 octameric （8） Success 4.1.3-1-20251215 (887e7ef) View Download
▶

4. Crystallography and Experiment 4. Crystallography & Experiment

▶

5. Entities and Polymers Entities & Polymers (10)

▶

7. Citations (1)