6D50

Bacteroides uniforms beta-glucuronidase 2 bound to D-glucaro-1,5-lactone


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.166 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Three structurally and functionally distinct beta-glucuronidases from the human gut microbeBacteroides uniformis.

Pellock, S.J.Walton, W.G.Biernat, K.A.Torres-Rivera, D.Creekmore, B.C.Xu, Y.Liu, J.Tripathy, A.Stewart, L.J.Redinbo, M.R.

(2018) J. Biol. Chem. 293: 18559-18573


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Glycosyl hydrolases family 2, sugar binding domain protein
A, B
886Bacteroides uniformis str. 3978 T3 iiMutation(s): 0 
Find proteins for A0A078SUX9 (Bacteroides uniformis str. 3978 T3 ii)
Go to UniProtKB:  A0A078SUX9
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NA
Query on NA

Download SDF File 
Download CCD File 
A, B
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
GCB
Query on GCB

Download SDF File 
Download CCD File 
A, B
D-SACCHARIC ACID 1,5-LACTONE
D-GLUCARO-1,5-LACTONE
C6 H8 O7
YLKFQNUGXOLRNI-QDQPNEQZSA-N
 Ligand Interaction
CA
Query on CA

Download SDF File 
Download CCD File 
A, B
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.166 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 74.489α = 90.00
b = 141.880β = 90.00
c = 180.803γ = 90.00
Software Package:
Software NamePurpose
Aimlessdata scaling
XDSdata reduction
PHENIXphasing
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Cancer InstituteUnited StatesCA098468
National Institutes of Health/National Cancer InstituteUnited StatesCA207416

Revision History 

  • Version 1.0: 2018-10-17
    Type: Initial release
  • Version 1.1: 2018-10-24
    Type: Data collection, Database references
  • Version 1.2: 2018-12-19
    Type: Data collection, Database references