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1s0v

Structural basis for substrate selection by T7 RNA polymerase

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

DNA-directed RNA polymerase

Enterobacteria phage T7

UniProt P00573

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Monomer Protein 1 DNA 2 RNA 1 5'-D(*G*GP*GP*AP*AP*TP*CP*GP*AP*TP*AP*TP*CP*GP*CP*CP*GP*C)-3' × 1 5'-R(*AP*AP*CP*U*GP*CP*GP*GP*CP*GP*AP*U)-3' × 1 5'-D(*GP*TP*CP*GP*AP*TP*TP*CP*CP*C)-3' × 1 MAGNESIUM ION × 2 DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER × 1 water × 4 Consistent with all polymers
2 Other combination Monomer Protein 1 DNA 2 RNA 1 5'-D(*G*GP*GP*AP*AP*TP*CP*GP*AP*TP*AP*TP*CP*GP*CP*CP*GP*C)-3' × 1 5'-R(*AP*AP*CP*U*GP*CP*GP*GP*CP*GP*AP*U)-3' × 1 5'-D(*GP*TP*CP*GP*AP*TP*TP*CP*CP*C)-3' × 1 MAGNESIUM ION × 2 DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER × 1 water × 4 Consistent with all polymers
3 Other combination Monomer Protein 1 DNA 2 RNA 1 5'-D(*G*GP*GP*AP*AP*TP*CP*GP*AP*TP*AP*TP*CP*GP*CP*CP*GP*C)-3' × 1 5'-R(*AP*AP*CP*U*GP*CP*GP*GP*CP*GP*AP*U)-3' × 1 5'-D(*GP*TP*CP*GP*AP*TP*TP*CP*CP*C)-3' × 1 MAGNESIUM ION × 2 DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER × 1 water × 4 Consistent with all polymers
4 Other combination Monomer Protein 1 DNA 2 RNA 1 5'-D(*G*GP*GP*AP*AP*TP*CP*GP*AP*TP*AP*TP*CP*GP*CP*CP*GP*C)-3' × 1 5'-R(*AP*AP*CP*U*GP*CP*GP*GP*CP*GP*AP*U)-3' × 1 5'-D(*GP*TP*CP*GP*AP*TP*TP*CP*CP*C)-3' × 1 MAGNESIUM ION × 2 DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER × 1 water × 4 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
4rnp 4rnp 4rnp

3 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1aro 1cez 1h38 1h38 1h38 1h38 1msw 1s0v 1s0v 1s0v 1s0v 1s76

40 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RPOL_BPT7
Isoform —
PDB entities 4
Chains and sequence ranges Author chain A； PDBConstruct 1–883； UniProt 1–882 Author chain B； PDBConstruct 1–883； UniProt 1–882 Author chain C； PDBConstruct 1–883； UniProt 1–882 Author chain D； PDBConstruct 1–883； UniProt 1–882

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_id1s0v
Deposition date deposition_date2004-01-05
Structure title titleStructural basis for substrate selection by T7 RNA polymerase
Keywords keywords;T7 RNA polymerase, DNA, RNA, RIKEN Structural Genomics/Proteomics Initiative, RSGI, Structural Genomics, Transferase-DNA-RNA COMPLEX, Transferase-DNA-RNA HYBRID complex ;; Transferase/DNA-RNA HYBRID
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.

1s0v__assembly_3__model_1

Assembly 3 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

1s0v__assembly_3__model_1 | I(q)

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

1s0v__assembly_3__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）31.29 Å
Rg (electron density)30.99 Å
Total Rg31.55 Å
Atom count7475
Residues891
Excluded volume130790 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1s0v__assembly_1__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 1s0v__assembly_2__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 1s0v__assembly_3__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
4 1 1s0v__assembly_4__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 (7)

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6. Fold Classification (SCOP + CATH) 24 domains

SCOP 2.08 (4 domains)

Domain ID domain_idd1s0va_
Class classe — Multi-domain proteins (alpha and beta)
Fold Fold folde.8 — DNA/RNA polymerases
Superfamily Superfamily superfamilye.8.1 — DNA/RNA polymerases
Family Family familye.8.1.3 — T7 RNA polymerase
Domain ID domain_idd1s0vb_
Class classe — Multi-domain proteins (alpha and beta)
Fold Fold folde.8 — DNA/RNA polymerases
Superfamily Superfamily superfamilye.8.1 — DNA/RNA polymerases
Family Family familye.8.1.3 — T7 RNA polymerase
Domain ID domain_idd1s0vc_
Class classe — Multi-domain proteins (alpha and beta)
Fold Fold folde.8 — DNA/RNA polymerases
Superfamily Superfamily superfamilye.8.1 — DNA/RNA polymerases
Family Family familye.8.1.3 — T7 RNA polymerase
Domain ID domain_idd1s0vd_
Class classe — Multi-domain proteins (alpha and beta)
Fold Fold folde.8 — DNA/RNA polymerases
Superfamily Superfamily superfamilye.8.1 — DNA/RNA polymerases
Family Family familye.8.1.3 — T7 RNA polymerase

CATH v4.4 (20 domains)

Domain ID domain_id1s0vA01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology1320 — T7 RNA polymerase; domain 1
Homologous superfamily homologous superfamily10 — DNA-directed RNA polymerase, N-terminal domain
Domain ID domain_id1s0vA02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology287 — Helix Hairpins
Homologous superfamily homologous superfamily260 —
Domain ID domain_id1s0vA03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily370 —
Domain ID domain_id1s0vA04
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology287 — Helix Hairpins
Homologous superfamily homologous superfamily280 —
Domain ID domain_id1s0vA05
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology150 — DNA polymerase; domain 1
Homologous superfamily homologous superfamily20 — 5' to 3' exonuclease, C-terminal subdomain
Domain ID domain_id1s0vB01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology1320 — T7 RNA polymerase; domain 1
Homologous superfamily homologous superfamily10 — DNA-directed RNA polymerase, N-terminal domain
Domain ID domain_id1s0vB02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology287 — Helix Hairpins
Homologous superfamily homologous superfamily260 —
Domain ID domain_id1s0vB03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily370 —
Domain ID domain_id1s0vB04
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology287 — Helix Hairpins
Homologous superfamily homologous superfamily280 —
Domain ID domain_id1s0vB05
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology150 — DNA polymerase; domain 1
Homologous superfamily homologous superfamily20 — 5' to 3' exonuclease, C-terminal subdomain
Domain ID domain_id1s0vC01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology1320 — T7 RNA polymerase; domain 1
Homologous superfamily homologous superfamily10 — DNA-directed RNA polymerase, N-terminal domain
Domain ID domain_id1s0vC02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology287 — Helix Hairpins
Homologous superfamily homologous superfamily260 —
Domain ID domain_id1s0vC03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily370 —
Domain ID domain_id1s0vC04
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology287 — Helix Hairpins
Homologous superfamily homologous superfamily280 —
Domain ID domain_id1s0vC05
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology150 — DNA polymerase; domain 1
Homologous superfamily homologous superfamily20 — 5' to 3' exonuclease, C-terminal subdomain
Domain ID domain_id1s0vD01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology1320 — T7 RNA polymerase; domain 1
Homologous superfamily homologous superfamily10 — DNA-directed RNA polymerase, N-terminal domain
Domain ID domain_id1s0vD02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology287 — Helix Hairpins
Homologous superfamily homologous superfamily260 —
Domain ID domain_id1s0vD03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily370 —
Domain ID domain_id1s0vD04
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology287 — Helix Hairpins
Homologous superfamily homologous superfamily280 —
Domain ID domain_id1s0vD05
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology150 — DNA polymerase; domain 1
Homologous superfamily homologous superfamily20 — 5' to 3' exonuclease, C-terminal subdomain
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7. Citations (3)