Loading
PDBj
MenuPDBj@FacebookPDBj@TwitterPDBj@YouTubewwPDB FoundationwwPDB
RCSB PDBPDBeBMRBAdv. SearchSearch help

5JXM

Crystal Structure of Prenyltransferase PriB Apo Form

Experimental procedure
Experimental methodSINGLE WAVELENGTH
Source typeSYNCHROTRON
Source detailsAPS BEAMLINE 31-ID
Synchrotron siteAPS
Beamline31-ID
Temperature [K]100
Detector technologyCCD
Collection date2015-07-09
DetectorRAYONIX MX225HE
Wavelength(s)0.97931
Spacegroup nameC 1 2 1
Unit cell lengths103.526, 83.723, 41.527
Unit cell angles90.00, 106.27, 90.00
Refinement procedure
Resolution27.555 - 1.150
R-factor0.1792
Rwork0.179
R-free0.21080
Structure solution methodMOLECULAR REPLACEMENT
Starting model (for MR)5inj
RMSD bond length0.018
RMSD bond angle1.516
Data reduction softwareXDS
Data scaling softwareXDS
Phasing softwareAutoSol
Refinement softwarePHENIX (1.10_2155)
Data quality characteristics
 OverallInner shellOuter shell
Low resolution limit [Å]49.69149.6911.150
High resolution limit [Å]1.0803.2401.080
Rmerge0.0690.0382.602
Number of reflections131276
<I/σ(I)>8.1532.10.32
Completeness [%]90.698.651.9
Redundancy3.5
CC(1/2)0.998
Crystallization Conditions
crystal IDmethodpHtemperaturedetails
1VAPOR DIFFUSION, SITTING DROP8.5293.15PriB was crystallized by sitting drop vapor diffusion method by 1:1 v/v mixing of 10 mg/mL PriB solution in the presence of 1 mM L-Tryptophan and 1 mM daptomycin with reservoir solution containing 0.1 M Tris pH 8.5, 20% w/v PEG 3350, 0.1 M MgCl2. The mixed drops of 0.4-1 uL were equilibrated over a reservoir solution of 50 uL and incubated at 20oC in the dark. The iodine derivative was prepared by 1:3 v/v soaking a solution of 0.5 M sodium iodide, 0.05 M Tris pH 8.5, 10% w/v PEG 3350, 0.05 M MgCl2 into PriB crystals

217705

PDB entries from 2024-03-27

PDB statisticsPDBj update infoContact PDBjnumon