7Q30

Mutant T91A of uridine phosphorylase from Shewanella oneidensis


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 0.211 
  • R-Value Work: 0.157 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Role of Conformational Changes of Hexameric Bacterial Uridine Phosphorylases in Substrate Binding

Polyakov, K.P.Mordkovich, N.N.Safonova, T.N.Antipov, A.N.Okorokova, N.A.Dorovatovskii, P.V.Veiko, V.P.

(2021) Crystallogr Rep 66: 786-790


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Uridine phosphorylaseA [auth DDD],
B [auth AAA]
251Shewanella oneidensis MR-1Mutation(s): 1 
Gene Names: udpSO_4133
EC: 2.4.2.3
UniProt
Find proteins for Q8E9X9 (Shewanella oneidensis (strain ATCC 700550 / JCM 31522 / CIP 106686 / LMG 19005 / NCIMB 14063 / MR-1))
Explore Q8E9X9 
Go to UniProtKB:  Q8E9X9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8E9X9
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
SO4 (Subject of Investigation/LOI)
Query on SO4

Download Ideal Coordinates CCD File 
E [auth DDD]
F [auth DDD]
G [auth DDD]
J [auth AAA]
K [auth AAA]
E [auth DDD],
F [auth DDD],
G [auth DDD],
J [auth AAA],
K [auth AAA],
L [auth AAA]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
GOL (Subject of Investigation/LOI)
Query on GOL

Download Ideal Coordinates CCD File 
C [auth DDD],
D [auth DDD],
H [auth AAA],
I [auth AAA]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
LI (Subject of Investigation/LOI)
Query on LI

Download Ideal Coordinates CCD File 
M [auth AAA]LITHIUM ION
Li
HBBGRARXTFLTSG-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 0.211 
  • R-Value Work: 0.157 
  • Space Group: P 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 91.66α = 90
b = 91.66β = 90
c = 47.56γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
MOLREPphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not fundedRussian Federation--

Revision History  (Full details and data files)

  • Version 1.0: 2022-04-06
    Type: Initial release
  • Version 1.1: 2024-01-31
    Changes: Data collection, Derived calculations, Refinement description