3WC2

Crystal structure of C. albicans tRNA(His) guanylyltransferase (Thg1) with a tRNA(Phe)(GUG)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.641 Å
  • R-Value Free: 0.287 
  • R-Value Work: 0.253 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural basis of reverse nucleotide polymerization

Nakamura, A.Nemoto, T.Heinemann, I.U.Yamashita, K.Sonoda, T.Komoda, K.Tanaka, I.Soll, D.Yao, M.

(2013) Proc.Natl.Acad.Sci.USA 110: 20970-20975

  • DOI: 10.1073/pnas.1321312111
  • Primary Citation of Related Structures:  3WBZ, 3WC0, 3WC1

  • PubMed Abstract: 
  • Nucleotide polymerization proceeds in the forward (5'-3') direction. This tenet of the central dogma of molecular biology is found in diverse processes including transcription, reverse transcription, DNA replication, and even in lagging strand synthe ...

    Nucleotide polymerization proceeds in the forward (5'-3') direction. This tenet of the central dogma of molecular biology is found in diverse processes including transcription, reverse transcription, DNA replication, and even in lagging strand synthesis where reverse polymerization (3'-5') would present a "simpler" solution. Interestingly, reverse (3'-5') nucleotide addition is catalyzed by the tRNA maturation enzyme tRNA(His) guanylyltransferase, a structural homolog of canonical forward polymerases. We present a Candida albicans tRNA(His) guanylyltransferase-tRNA(His) complex structure that reveals the structural basis of reverse polymerization. The directionality of nucleotide polymerization is determined by the orientation of approach of the nucleotide substrate. The tRNA substrate enters the enzyme's active site from the opposite direction (180° flip) compared with similar nucleotide substrates of canonical 5'-3' polymerases, and the finger domains are on opposing sides of the core palm domain. Structural, biochemical, and phylogenetic data indicate that reverse polymerization appeared early in evolution and resembles a mirror image of the forward process.


    Organizational Affiliation

    Faculty of Advanced Life Science, Hokkaido University, Sapporo 060-0810, Japan.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Likely histidyl tRNA-specific guanylyltransferase
A, B, C, D
271N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 2
MoleculeChainsLengthOrganism
76mer-tRNAP,Q76N/A
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.641 Å
  • R-Value Free: 0.287 
  • R-Value Work: 0.253 
  • Space Group: P 31 2 1
Unit Cell:
Length (Å)Angle (°)
a = 96.740α = 90.00
b = 96.740β = 90.00
c = 299.360γ = 120.00
Software Package:
Software NamePurpose
XSCALEdata scaling
XDSdata reduction
XDSdata scaling
PHASERphasing
PDB_EXTRACTdata extraction
PHENIXrefinement
SERGUIdata collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-12-18
    Type: Initial release
  • Version 1.1: 2014-01-15
    Type: Database references
  • Version 1.2: 2017-11-22
    Type: Refinement description