6ZHU

Yeast Uba1 in complex with Ubc3 and ATP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.18 Å
  • R-Value Free: 0.263 
  • R-Value Work: 0.217 
  • R-Value Observed: 0.219 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.0 of the entry. See complete history


Literature

ATP induced conformational changes facilitate E1-E2 disulfide bridging in the ubiquitin system

Misra, M.Schaefer, A.Kuhn, M.Pluska, L.Tessmer, I.Sommer, T.Schindelin, H.

To be published.

Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Ubiquitin-conjugating enzyme E2-34 kDaA [auth B], C [auth D], B [auth F], D [auth H]295Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: CDC34DNA6UBC3YDR054CD4211YD9609.08C
EC: 2.3.2.23
UniProt
Find proteins for P14682 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P14682 
Go to UniProtKB:  P14682
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Ubiquitin-activating enzyme E1 1E [auth A], G [auth C], F [auth E], H [auth G]1024Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: UBA1YKL210W
EC: 6.2.1.45
UniProt
Find proteins for P22515 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P22515 
Go to UniProtKB:  P22515
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.18 Å
  • R-Value Free: 0.263 
  • R-Value Work: 0.217 
  • R-Value Observed: 0.219 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 75.636α = 90
b = 152.408β = 90.448
c = 252.567γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
Aimlessdata scaling
PDB_EXTRACTdata extraction
XDSdata reduction
PHASERphasing
PARROTmodel building

Structure Validation

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Ligand Structure Quality Assessment  



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research Foundation (DFG)GermanySCHI 425-6/1

Revision History  (Full details and data files)

  • Version 1.0: 2022-01-12
    Type: Initial release