5OOB

COMPLEX OF HUMAN NUCLEAR CAP-BINDING COMPLEX WITH M7GTP AND NELF-E C-TERMINAL PEPTIDE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.79 Å
  • R-Value Free: 0.229 
  • R-Value Work: 0.202 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural basis for mutually exclusive co-transcriptional nuclear cap-binding complexes with either NELF-E or ARS2.

Schulze, W.M.Cusack, S.

(2017) Nat Commun 8: 1302-1302

  • DOI: 10.1038/s41467-017-01402-w
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Pol II transcribes diverse classes of RNAs that need to be directed into the appropriate nuclear maturation pathway. All nascent Pol II transcripts are 5'-capped and the cap is immediately sequestered by the nuclear cap-binding complex (CBC). Mutuall ...

    Pol II transcribes diverse classes of RNAs that need to be directed into the appropriate nuclear maturation pathway. All nascent Pol II transcripts are 5'-capped and the cap is immediately sequestered by the nuclear cap-binding complex (CBC). Mutually exclusive interactions of CBC with different partner proteins have been implicated in transcript fate determination. Here, we characterise the direct interactions between CBC and NELF-E, a subunit of the negative elongation factor complex, ARS2 and PHAX. Our biochemical and crystal structure results show that the homologous C-terminal peptides of NELF-E and ARS2 bind identically to CBC and in each case the affinity is enhanced when CBC is bound to a cap analogue. Furthermore, whereas PHAX forms a complex with CBC and ARS2, NELF-E binding to CBC is incompatible with PHAX binding. We thus define two mutually exclusive complexes CBC-NELF-E and CBC-ARS2-PHAX, which likely act in respectively earlier and later phases of transcription.


    Organizational Affiliation

    European Molecular Biology Laboratory, Grenoble Outstation, 71 Avenue des Martyrs, CS 90181, 38042, Grenoble Cedex 9, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Nuclear cap-binding protein subunit 1
A, C, F, I
772Homo sapiensMutation(s): 0 
Gene Names: NCBP1 (CBP80, NCBP)
Find proteins for Q09161 (Homo sapiens)
Go to Gene View: NCBP1
Go to UniProtKB:  Q09161
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Nuclear cap-binding protein subunit 2
B, D, G, J
158Homo sapiensMutation(s): 0 
Gene Names: NCBP2 (CBP20)
Find proteins for P52298 (Homo sapiens)
Go to Gene View: NCBP2
Go to UniProtKB:  P52298
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Negative elongation factor E
E, K, Z
21Tupaia chinensisMutation(s): 0 
Find proteins for L9KL62 (Tupaia chinensis)
Go to UniProtKB:  L9KL62
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MGT
Query on MGT

Download SDF File 
Download CCD File 
B, D, G, J
7N-METHYL-8-HYDROGUANOSINE-5'-TRIPHOSPHATE
C11 H20 N5 O14 P3
BUJQMJUTTBGELS-KQYNXXCUSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.79 Å
  • R-Value Free: 0.229 
  • R-Value Work: 0.202 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 113.800α = 90.00
b = 147.230β = 91.48
c = 153.880γ = 90.00
Software Package:
Software NamePurpose
XSCALEdata scaling
PHASERphasing
XDSdata reduction
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-11-15
    Type: Initial release
  • Version 1.1: 2017-11-22
    Type: Database references, Source and taxonomy, Structure summary