3TVA

Crystal Structure of Xylose isomerase domain protein from Planctomyces limnophilus


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.148 Å
  • R-Value Free: 0.193 
  • R-Value Work: 0.168 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Crystal Structure of Xylose isomerase domain protein from Planctomyces limnophilus

Kim, Y.Wu, R.Bearden, J.Joachimiak, A.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Xylose isomerase domain protein TIM barrel
A, B
290Planctopirus limnophila (strain ATCC 43296 / DSM 3776 / IFAM 1008 / 290)Mutation(s): 0 
Find proteins for D5SXE5 (Planctopirus limnophila (strain ATCC 43296 / DSM 3776 / IFAM 1008 / 290))
Go to UniProtKB:  D5SXE5
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CL
Query on CL

Download SDF File 
Download CCD File 
A
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
GOL
Query on GOL

Download SDF File 
Download CCD File 
A, B
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
A, B
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

Unit Cell:
Length (Å)Angle (°)
a = 105.324α = 90.00
b = 105.324β = 90.00
c = 178.936γ = 90.00
Software Package:
Software NamePurpose
HKL-3000data reduction
HKL-3000phasing
HKL-3000data scaling
RESOLVEphasing
HKL-3000data collection
SOLVEphasing
SBC-Collectdata collection
RESOLVEmodel building
MLPHAREphasing
SHELXSphasing
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-10-05
    Type: Initial release