4W5V

Crystal structure of Human SUMO E2-conjugating enzyme (Ubc9) in complex with E1-activating enzyme (Uba2) ubiquitin fold domain (Ufd)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.283 
  • R-Value Work: 0.221 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Crystal structure of human SUMO complex

Reiter, K.H.Boucher, L.E.Bosch, J.Matunis, M.J.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
SUMO-conjugating enzyme UBC9
A
163Homo sapiensMutation(s): 0 
Gene Names: UBE2I (UBC9, UBCE9)
EC: 2.3.2.-
Find proteins for P63279 (Homo sapiens)
Go to Gene View: UBE2I
Go to UniProtKB:  P63279
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
SUMO-activating enzyme subunit 2
B
122Homo sapiensMutation(s): 0 
Gene Names: UBA2 (SAE2, UBLE1B)
EC: 2.3.2.-
Find proteins for Q9UBT2 (Homo sapiens)
Go to Gene View: UBA2
Go to UniProtKB:  Q9UBT2
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
K
Query on K

Download SDF File 
Download CCD File 
B
POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
 Ligand Interaction
FMT
Query on FMT

Download SDF File 
Download CCD File 
A
FORMIC ACID
C H2 O2
BDAGIHXWWSANSR-UHFFFAOYSA-N
 Ligand Interaction
GOL
Query on GOL

Download SDF File 
Download CCD File 
B
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.283 
  • R-Value Work: 0.221 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 161.273α = 90.00
b = 35.272β = 96.69
c = 58.672γ = 90.00
Software Package:
Software NamePurpose
MOLREPphasing
PHENIXrefinement
Cootmodel building
XSCALEdata scaling
XDSdata scaling
Blu-Icedata collection
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical SciencesUnited StatesGM060980

Revision History 

  • Version 1.0: 2015-09-09
    Type: Initial release
  • Version 1.1: 2017-09-06
    Type: Author supporting evidence, Derived calculations