3P9Y

Crystal structure of the Drosophila melanogaster Ssu72-pCTD complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.241 
  • R-Value Work: 0.209 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

cis-Proline-mediated Ser(P)5 Dephosphorylation by the RNA Polymerase II C-terminal Domain Phosphatase Ssu72.

Werner-Allen, J.W.Lee, C.J.Liu, P.Nicely, N.I.Wang, S.Greenleaf, A.L.Zhou, P.

(2011) J.Biol.Chem. 286: 5717-5726

  • DOI: 10.1074/jbc.M110.197129

  • PubMed Abstract: 
  • RNA polymerase II coordinates co-transcriptional events by recruiting distinct sets of nuclear factors to specific stages of transcription via changes of phosphorylation patterns along its C-terminal domain (CTD). Although it has become increasingly ...

    RNA polymerase II coordinates co-transcriptional events by recruiting distinct sets of nuclear factors to specific stages of transcription via changes of phosphorylation patterns along its C-terminal domain (CTD). Although it has become increasingly clear that proline isomerization also helps regulate CTD-associated processes, the molecular basis of its role is unknown. Here, we report the structure of the Ser(P)(5) CTD phosphatase Ssu72 in complex with substrate, revealing a remarkable CTD conformation with the Ser(P)(5)-Pro(6) motif in the cis configuration. We show that the cis-Ser(P)(5)-Pro(6) isomer is the minor population in solution and that Ess1-catalyzed cis-trans-proline isomerization facilitates rapid dephosphorylation by Ssu72, providing an explanation for recently discovered in vivo connections between these enzymes and a revised model for CTD-mediated small nuclear RNA termination. This work presents the first structural evidence of a cis-proline-specific enzyme and an unexpected mechanism of isomer-based regulation of phosphorylation, with broad implications for CTD biology.


    Organizational Affiliation

    Department of Biochemistry, Duke University Medical Center, Durham, North Carolina 27710, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CG14216
A, B, C, D
198Drosophila melanogasterMutation(s): 2 
Gene Names: Ssu72 (BEST:CK01830, Dmel\CG14216, dSsu72)
EC: 3.1.3.-, 3.1.3.16, 3.1.3.41
Find proteins for Q9VWE4 (Drosophila melanogaster)
Go to UniProtKB:  Q9VWE4
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
pSer5 CTD peptide
E, F, G, H
7N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PG4
Query on PG4

Download SDF File 
Download CCD File 
A
TETRAETHYLENE GLYCOL
C8 H18 O5
UWHCKJMYHZGTIT-UHFFFAOYSA-N
 Ligand Interaction
IMD
Query on IMD

Download SDF File 
Download CCD File 
A, B, C
IMIDAZOLE
C3 H5 N2
RAXXELZNTBOGNW-UHFFFAOYSA-O
 Ligand Interaction
Modified Residues  3 Unique
IDChainsTypeFormula2D DiagramParent
N7P
Query on N7P
E, F, G, H
L-peptide linkingC7 H11 N O3PRO
SEP
Query on SEP
E, F, G, H
L-PEPTIDE LINKINGC3 H8 N O6 PSER
SET
Query on SET
E, F, G, H
L-PEPTIDE LINKINGC3 H8 N2 O2SER
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.241 
  • R-Value Work: 0.209 
  • Space Group: H 3
Unit Cell:
Length (Å)Angle (°)
a = 157.459α = 90.00
b = 157.459β = 90.00
c = 118.802γ = 120.00
Software Package:
Software NamePurpose
SCALEPACKdata scaling
PHENIXrefinement
PHASERphasing
HKL-2000data collection
DENZOdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-12-15
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2016-08-17
    Type: Non-polymer description