4C3I

Structure of 14-subunit RNA polymerase I at 3.0 A resolution, crystal form C2-100

Structural Biology Knowledgebase: 4C3I SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.231
  • R-Value Work: 0.199

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4C3I

Classification: TRANSFERASE

Total Structure Weight: 591157.02

Macromolecule Entities
Molecule Chains Length Organism Details
DNA-DIRECTED RNA POLYMERASE I SUBUNIT RPA190 A 1664 Saccharomyces cerevisiae EC#: 2.7.7.6 IUBMB
Gene Name(s): RPA190 RPA1 Gene View RRN1 YOR341W O6276
DNA-DIRECTED RNA POLYMERASE I SUBUNIT RPA135 B 1203 Saccharomyces cerevisiae EC#: 2.7.7.6 IUBMB
Gene Name(s): RPA135 RPA2 Gene View RRN2 SRP3 YPR010C YP9531.03C
DNA-DIRECTED RNA POLYMERASES I AND III SUBUNIT RPAC1 C 335 Saccharomyces cerevisiae Gene Name(s): RPC40 RPC5 YPR110C P8283.18
DNA-DIRECTED RNA POLYMERASE I SUBUNIT RPA14 D 137 Saccharomyces cerevisiae Mutation: T12S
Gene Name(s): RPA14 YDR156W YD8358.11
DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 1 E 215 Saccharomyces cerevisiae Gene Name(s): RPB5 RPA7 RPC9 YBR154C YBR1204
DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 2 F 155 Saccharomyces cerevisiae EC#: 4.2.1.99 IUBMB
Gene Name(s): RPO26 RPB6 YPR187W P9677.8
DNA-DIRECTED RNA POLYMERASE I SUBUNIT RPA43 G 326 Saccharomyces cerevisiae Gene Name(s): RPA43 RRN12 YOR340C O6271
DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 H 146 Saccharomyces cerevisiae Gene Name(s): RPB8 YOR224C YOR50-14
DNA-DIRECTED RNA POLYMERASE I SUBUNIT RPA12 I 125 Saccharomyces cerevisiae Gene Name(s): RPA12 RRN4 YJR063W J1747
DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 5 J 70 Saccharomyces cerevisiae Gene Name(s): RPB10 YOR210W
DNA-DIRECTED RNA POLYMERASES I AND III SUBUNIT RPAC2 K 142 Saccharomyces cerevisiae Gene Name(s): RPC19 YNL113W N1937
DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 4 L 70 Saccharomyces cerevisiae Gene Name(s): RPC10 RPB12 YHR143W-A YHR143BW
DNA-DIRECTED RNA POLYMERASE I SUBUNIT RPA49 M 415 Saccharomyces cerevisiae Gene Name(s): RPA49 RRN13 YNL248C N0880
DNA-DIRECTED RNA POLYMERASE I SUBUNIT RPA34 N 233 Saccharomyces cerevisiae Gene Name(s): RPA34 YJL148W J0637

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
MPD
Query on MPD

G (4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, K SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A, B, I, J, L ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

B MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.231
  • R-Value Work: 0.199
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 400.53 α = 90.00
b = 140.22 β = 100.14
c = 122.89 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-08-24
  • Released Date: 2013-10-23
  • Deposition author(s): Fernandez-Tornero, C., Moreno-Morcillo, M., Rashid, U.J., Taylor, N.M.I., Ruiz, F.M., Gruene, T., Legrand, P., Steuerwald, U., Muller, C.W.

Revision History

  • 2015-07-01
    Type: Data collection | Details: REMARK 200
  • 2013-11-06
    Type: Citation | Details: JRNL