Loading
PDBj
MenuPDBj@FacebookPDBj@X(formerly Twitter)PDBj@BlueSkyPDBj@YouTubewwPDB FoundationwwPDBDonate
RCSB PDBPDBeBMRBAdv. SearchSearch help

4Y9D

Crystal structure of LigD in complex with NADH from Sphingobium sp. strain SYK-6

Experimental procedure
Experimental methodSINGLE WAVELENGTH
Source typeSYNCHROTRON
Source detailsALS BEAMLINE 8.2.2
Synchrotron siteALS
Beamline8.2.2
Temperature [K]100
Detector technologyCCD
Collection date2012-12-03
DetectorADSC QUANTUM 315r
Wavelength(s)1.00000
Spacegroup nameP 31 2 1
Unit cell lengths61.762, 61.762, 134.713
Unit cell angles90.00, 90.00, 120.00
Refinement procedure
Resolution49.712 - 2.012
R-factor0.2147
Rwork0.211
R-free0.24850
RMSD bond length0.008
RMSD bond angle1.003
Data reduction softwareHKL-2000
Data scaling softwareHKL-2000
Phasing softwarePHENIX
Refinement softwarePHENIX (dev_1839)
Data quality characteristics
 Overall
Low resolution limit [Å]50.000
High resolution limit [Å]2.010
Number of reflections19774
<I/σ(I)>26.1
Completeness [%]96.5
Redundancy10.6
Crystallization Conditions
crystal IDmethodpHtemperaturedetails
1VAPOR DIFFUSION, SITTING DROP2980.1M Hepes pH7.5, 1.5 M Lithium Sulfate

237423

PDB entries from 2025-06-11

PDB statisticsPDBj update infoContact PDBjnumon