3S24

Crystal structure of human mRNA guanylyltransferase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0137 Å
  • R-Value Free: 0.296 
  • R-Value Work: 0.258 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structure of the guanylyltransferase domain of human mRNA capping enzyme.

Chu, C.Das, K.Tyminski, J.R.Bauman, J.D.Guan, R.Qiu, W.Montelione, G.T.Arnold, E.Shatkin, A.J.

(2011) Proc.Natl.Acad.Sci.USA 108: 10104-10108

  • DOI: 10.1073/pnas.1106610108

  • PubMed Abstract: 
  • The enzyme guanylyltransferase (GTase) plays a central role in the three-step catalytic process of adding an (m7)GpppN cap cotranscriptionally to nascent mRNA (pre-mRNAs). The 5'-mRNA capping process is functionally and evolutionarily conserved from ...

    The enzyme guanylyltransferase (GTase) plays a central role in the three-step catalytic process of adding an (m7)GpppN cap cotranscriptionally to nascent mRNA (pre-mRNAs). The 5'-mRNA capping process is functionally and evolutionarily conserved from unicellular organisms to human. However, the GTases from viruses and yeast have low amino acid sequence identity (∼25%) with GTases from mammals that, in contrast, are highly conserved (∼98%). We have defined by limited proteolysis of human capping enzyme residues 229-567 as comprising the minimum enzymatically active human GTase (hGTase) domain and have determined the structure by X-ray crystallography. Seven related conformational states of hGTase exist in the crystal. The GTP-binding site is evolutionarily and structurally conserved. The positional variations of the oligonucleotide/oligosaccharide binding fold lid domain over the GTP-binding site provide snapshots of the opening and closing of the active site cleft through a swivel motion. The pattern of conserved surface residues in mammals, but not in yeast, supports the finding that the recognition of the capping apparatus by RNA polymerase II and associated transcription factors is highly conserved in mammals, and the mechanism may differ somewhat from that in yeast. The hGTase structure should help in the design of biochemical and molecular biology experiments to explore the proteinprotein and proteinRNA interactions that ensure regulated transcription of genes in humans and other mammals.


    Organizational Affiliation

    Center for Advanced Biotechnology and Medicine, Piscataway, NJ 08854, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
mRNA-capping enzyme
A, B, C, D, E, G, F
347Homo sapiensMutation(s): 0 
Gene Names: RNGTT (CAP1A)
Find proteins for O60942 (Homo sapiens)
Go to Gene View: RNGTT
Go to UniProtKB:  O60942
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A, B
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0137 Å
  • R-Value Free: 0.296 
  • R-Value Work: 0.258 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 92.121α = 90.00
b = 104.658β = 94.95
c = 149.571γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
PHASERphasing
MOLREPphasing
CBASSdata collection
SCALEPACKdata scaling
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-06-15
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance