1TFY

How CCA is added to the 3' end of immature tRNA without the use of an oligonucleotide template

Structural Biology Knowledgebase: 1TFY SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.290
  • R-Value Work: 0.235

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1TFY

Classification: TRANSFERASE / RNA

Total Structure Weight: 231200.05


Macromolecule Entities
Molecule Chains Length Organism Details
tRNA nucleotidyltransferase A, B, C, D 437 Archaeoglobus fulgidus EC#: 2.7.7.72 IUBMB
Gene Name(s): cca AF_2156
Macromolecule Entities
Molecule Chains Length Organism Details
5'-R(*GP*CP*GP*GP*AP*UP*AP*UP*CP*CP*GP*CP*G)-3' E, F 13 synthetic
5'-R(*GP*CP*GP*GP*AP*UP*AP*UP*CP*CP*GP*CP*AP*C)-3' H, I 14 synthetic
5'-R(*CP*GP*GP*AP*UP*CP*CP*GP*CP*AP*C)-3' G 11 synthetic
5'-R(*CP*GP*CP*GP*GP*AP*UP*C)-3' J 8 synthetic

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

A, B, C, D CYTIDINE-5'-TRIPHOSPHATE
C9 H16 N3 O14 P3
PCDQPRRSZKQHHS-XVFCMESISA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B, C, D 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: 0.290
  • R-Value Work: 0.235
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 114.09 α = 90.00
b = 84.02 β = 102.38
c = 134.56 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-05-27
  • Released Date: 2004-08-10
  • Deposition author(s): Xiong, Y., Steitz, T.A.

Revision History

  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4