5L3X

Crystal structure of negative elongation factor subcomplex NELF-AC


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.237 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Architecture and RNA binding of the human negative elongation factor.

Vos, S.M.Pollmann, D.Caizzi, L.Hofmann, K.B.Rombaut, P.Zimniak, T.Herzog, F.Cramer, P.

(2016) Elife 5: --

  • DOI: 10.7554/eLife.14981

  • PubMed Abstract: 
  • Transcription regulation in metazoans often involves promoter-proximal pausing of RNA polymerase (Pol) II, which requires the 4-subunit negative elongation factor (NELF). Here we discern the functional architecture of human NELF through X-ray crystal ...

    Transcription regulation in metazoans often involves promoter-proximal pausing of RNA polymerase (Pol) II, which requires the 4-subunit negative elongation factor (NELF). Here we discern the functional architecture of human NELF through X-ray crystallography, protein crosslinking, biochemical assays, and RNA crosslinking in cells. We identify a NELF core subcomplex formed by conserved regions in subunits NELF-A and NELF-C, and resolve its crystal structure. The NELF-AC subcomplex binds single-stranded nucleic acids in vitro, and NELF-C associates with RNA in vivo. A positively charged face of NELF-AC is involved in RNA binding, whereas the opposite face of the NELF-AC subcomplex binds NELF-B. NELF-B is predicted to form a HEAT repeat fold, also binds RNA in vivo, and anchors the subunit NELF-E, which is confirmed to bind RNA in vivo. These results reveal the three-dimensional architecture and three RNA-binding faces of NELF.


    Organizational Affiliation

    Department of Molecular Biology, Max Planck Institute for Biophysical Chemistry, Göttingen, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Negative elongation factor A
A
177Homo sapiensMutation(s): 0 
Gene Names: NELFA (WHSC2)
Find proteins for Q9H3P2 (Homo sapiens)
Go to Gene View: NELFA
Go to UniProtKB:  Q9H3P2
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Negative elongation factor C/D
B
405Homo sapiensMutation(s): 0 
Gene Names: NELFCD (NELFD, TH1, TH1L)
Find proteins for Q8IXH7 (Homo sapiens)
Go to Gene View: NELFCD
Go to UniProtKB:  Q8IXH7
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CL
Query on CL

Download SDF File 
Download CCD File 
B
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.237 
  • Space Group: I 21 3
Unit Cell:
Length (Å)Angle (°)
a = 185.070α = 90.00
b = 185.070β = 90.00
c = 185.070γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
XSCALEdata scaling
SHELXDEphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research FoundationGermanySFB 860
European Research CouncilGermanyTRANSIT
Volkswagen FoundationGermany--

Revision History 

  • Version 1.0: 2016-06-22
    Type: Initial release
  • Version 1.1: 2016-07-06
    Type: Data collection
  • Version 1.2: 2017-09-06
    Type: Author supporting evidence, Refinement description