5ZQ6

SidE-Ubi-ADPr


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.009 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.180 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural Insights into Non-canonical Ubiquitination Catalyzed by SidE.

Wang, Y.Shi, M.Feng, H.Zhu, Y.Liu, S.Gao, A.Gao, P.

(2018) Cell 173: 1231-1243.e16


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
SidE
A, C
845Legionella pneumophilaMutation(s): 0 
Gene Names: laiD
Find proteins for Q6BBR6 (Legionella pneumophila)
Go to UniProtKB:  Q6BBR6
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Ubiquitin
B, D
79Homo sapiensMutation(s): 1 
Gene Names: UBC
Find proteins for P0CG48 (Homo sapiens)
Go to Gene View: UBC
Go to UniProtKB:  P0CG48
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ADP
Query on ADP

Download SDF File 
Download CCD File 
A, C
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, C
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.009 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.180 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 92.322α = 90.00
b = 128.003β = 90.00
c = 191.065γ = 90.00
Software Package:
Software NamePurpose
Cootmodel building
PHENIXrefinement
PHENIXphasing
HKL-3000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
China91753133
China31670903
China31700687
ChinaXDB08020204

Revision History 

  • Version 1.0: 2018-05-23
    Type: Initial release
  • Version 1.1: 2018-05-30
    Type: Data collection, Database references