5GTA

3D Crystal Structure of LsrB Bound to Furanosyl diester (R)-THMF, from Salmonella typhi


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 0.252 
  • R-Value Work: 0.196 
  • R-Value Observed: 0.199 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 2.0 of the entry. See complete history


Literature

3D Crystal Structure of LsrB Bound to Furanosyl diester (R)-THMF, from Salmonella typhi

Gopinath, S.Perumal, P.Rahul, R.Arockiasamy, A.Sundarabaalaji, N.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Autoinducer 2-binding protein LsrBA340Salmonella enterica subsp. enterica serovar TyphiMutation(s): 0 
Gene Names: lsrBSTY3793t3541
UniProt
Find proteins for Q8Z2X8 (Salmonella typhi)
Explore Q8Z2X8 
Go to UniProtKB:  Q8Z2X8
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PAV (Subject of Investigation/LOI)
Query on PAV

Download Ideal Coordinates CCD File 
B [auth A](2R,4S)-2-methyl-2,3,3,4-tetrahydroxytetrahydrofuran
C5 H10 O5
BVIYGXUQVXBHQS-IUYQGCFVSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 0.252 
  • R-Value Work: 0.196 
  • R-Value Observed: 0.199 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 41.582α = 90
b = 61.754β = 90
c = 115.753γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data processing
HKL-2000data scaling
PHENIXphasing
PHENIXmodel building

Structure Validation

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Ligand Structure Quality Assessment  



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Indian Council of Medical ResearchIndia2011-15260

Revision History  (Full details and data files)

  • Version 1.0: 2017-08-23
    Type: Initial release
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Advisory, Atomic model, Derived calculations, Structure summary