X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2NRLPDB entry 2NRL

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.62930.2 M potassium/sodium tartrate, 0.1 M sodium citrate, 2.0 M ammonium sulfate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.1442.59

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 34.063α = 90
b = 51.989β = 104.03
c = 38.609γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMAR CCD 165 mm2006-06-06MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 31-ID0.92APS31-ID

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
10.9115.7592.520.05830.45.788943818282
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)
10.910.93480.90.4882.554.46478

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 DIFFRACTIONRIGID BODY refinementTHROUGHOUTPDB entry 2NRL0.9115.758894381824431992.520.127760.127080.14038RANDOM7.919
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]
1.64.01-1.670.07
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.244
r_dihedral_angle_4_deg14.036
r_dihedral_angle_3_deg13.314
r_scangle_it6.083
r_dihedral_angle_1_deg5.126
r_scbond_it4.806
r_mcangle_it3.254
r_angle_refined_deg2.266
r_mcbond_it2.162
r_rigid_bond_restr2.071
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.244
r_dihedral_angle_4_deg14.036
r_dihedral_angle_3_deg13.314
r_scangle_it6.083
r_dihedral_angle_1_deg5.126
r_scbond_it4.806
r_mcangle_it3.254
r_angle_refined_deg2.266
r_mcbond_it2.162
r_rigid_bond_restr2.071
r_angle_other_deg1.106
r_mcbond_other0.816
r_chiral_restr0.126
r_bond_refined_d0.028
r_gen_planes_refined0.012
r_gen_planes_other0.004
r_bond_other_d0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1091
Nucleic Acid Atoms
Solvent Atoms177
Heterogen Atoms57

Software

Software
Software NamePurpose
HKL-2000data collection
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling