X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2NCK 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP2952M NH4 Sulfate, 5% Isopropanol, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties
Matthews coefficientSolvent content
3.3963.73

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 85.672α = 90
b = 88.142β = 90
c = 110.925γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCDMIRROR2010-10-21MMOLECULAR REPLACEMENT
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 21-ID-F0.97872APS21-ID-F

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.1301000.08422.27.44970449704-340.3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
2.12.141000.573.67.52433

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT2NCK2.128.44697646976251199.150.170720.169560.19199RANDOM38.152
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
0.710.94-1.66
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.515
r_dihedral_angle_4_deg19.856
r_dihedral_angle_3_deg14.42
r_dihedral_angle_1_deg6.184
r_scangle_it4.41
r_scbond_it2.684
r_mcangle_it1.557
r_angle_refined_deg1.484
r_mcbond_it0.854
r_chiral_restr0.11
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.515
r_dihedral_angle_4_deg19.856
r_dihedral_angle_3_deg14.42
r_dihedral_angle_1_deg6.184
r_scangle_it4.41
r_scbond_it2.684
r_mcangle_it1.557
r_angle_refined_deg1.484
r_mcbond_it0.854
r_chiral_restr0.11
r_bond_refined_d0.017
r_gen_planes_refined0.007
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4255
Nucleic Acid Atoms
Solvent Atoms328
Heterogen Atoms60

Software

Software
Software NamePurpose
Blu-Icedata collection
PHENIXmodel building
CCP4model building
MrBUMPphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
PHENIXphasing
CCP4phasing