3WFR

tRNA processing enzyme complex 2

Structural Biology Knowledgebase: 3WFR SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.269
  • R-Value Work: 0.224

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3WFR

Classification: Transferase / RNA

Total Structure Weight: 327332.47


Macromolecule Entities
Molecule Chains Length Organism Details
Poly A polymerase E, F, G, H 512 Aquifex aeolicus EC#: 2.7.7.72 IUBMB
Gene Name(s): pcnB2 aq_2158
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
RNA (74-MER) A, B 74 Thermotoga maritima
RNA (75-MER) C, D 75 Thermotoga maritima

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

E, F, G, H CYTIDINE-5'-TRIPHOSPHATE
C9 H16 N3 O14 P3
PCDQPRRSZKQHHS-XVFCMESISA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
POP
Query on POP

E, F, G, H PYROPHOSPHATE 2-
H2 O7 P2
XPPKVPWEQAFLFU-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

E, F, G, H MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
UNK
Query on UNK
E, F, G, H L-PEPTIDE LINKING C4 H9 N O2 --

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.269
  • R-Value Work: 0.224
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 152.81 α = 90.00
b = 154.59 β = 90.00
c = 174.67 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-07-23
  • Released Date: 2014-01-01
  • Deposition author(s): Yamashita, S., Takeshita, D., Tomita, K.

Revision History

  • 2014-08-13
    Type: Citation | Details: Citation update