1S0V

Structural basis for substrate selection by T7 RNA polymerase

Structural Biology Knowledgebase: 1S0V SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.307
  • R-Value Work: 0.255

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1S0V

Classification: Transferase / DNA-RNA HYBRID

Total Structure Weight: 447710.96


Macromolecule Entities
Molecule Chains Length Organism Details
DNA-directed RNA polymerase A, B, C, D 883 Enterobacteria phage t7 EC#: 2.7.7.6 IUBMB
Gene Name(s): 1
Macromolecule Entities
Molecule Chains Length Organism Details
5'-D(*G*GP*GP*AP*AP*TP*CP*GP*AP*TP*AP*TP*CP*GP*CP*CP*GP*C)-3' E, H, K, N 18 synthetic DNA Template strand
5'-R(*AP*AP*CP*U*GP*CP*GP*GP*CP*GP*AP*U)-3' F, I, L, O 12 synthetic RNA transcript
5'-D(*GP*TP*CP*GP*AP*TP*TP*CP*CP*C)-3' G, J, M, P 10 synthetic DNA Non-template strand

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
APC
Query on APC

A, B, C, D DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER
ALPHA,BETA-METHYLENEADENOSINE-5'-TRIPHOSPHATE (Synonym)
C11 H18 N5 O12 P3
CAWZRIXWFRFUQB-IOSLPCCCSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B, C, D, F MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.307
  • R-Value Work: 0.255
  • Space Group: P 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 81.13 α = 91.93
b = 87.70 β = 91.02
c = 206.53 γ = 110.66

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-01-05
  • Released Date: 2004-02-24
  • Deposition author(s): Temiakov, D., Patlan, V., Anikin, M., McAllister, W.T., Yokoyama, S., Vassylyev, D.G., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4