X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop Nanodrop
pH 5.6
Temperature 293.0
Details 2M ammonium sulfate, 0.1M tri-sodium citrate dihydrate pH 5.6, 0.2M potassium sodium tartrate tetrahydrate , VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 103.25 α = 90
b = 103.25 β = 90
c = 65.44 γ = 90
Symmetry
Space Group I 4 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 flat mirror 2003-02-03
Diffraction Radiation
Monochromator Protocol
single crystal Si(111) bent monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL11-1 -- SSRL BL11-1

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
1.77 24.37 95.4 -- 0.072 -- 7.2 16697 16697 -- -- 34.3
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
1.77 1.82 73.8 -- 0.452 2.1 3.5 931

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 1.77 24.37 -- 0.0 -- 15859 838 95.17 -- 0.1514 0.14981 0.18177 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 1.77 1.816 -- 46 885 0.234 0.236 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model ISOTROPIC
Mean Isotropic B 26.807
Anisotropic B[1][1] -2.05
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -2.05
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 4.11
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_2_deg 37.012
r_dihedral_angle_4_deg 14.694
r_mcangle_it 1.589
r_gen_planes_refined 0.007
r_mcbond_it 0.873
r_bond_other_d 0.006
r_gen_planes_other 0.001
r_angle_other_deg 0.927
r_nbd_refined 0.223
r_nbd_other 0.176
r_nbtor_other 0.085
r_scbond_it 2.684
r_dihedral_angle_3_deg 14.792
r_symmetry_hbond_refined 0.243
r_symmetry_vdw_refined 0.314
r_symmetry_vdw_other 0.209
r_dihedral_angle_1_deg 5.245
r_xyhbond_nbd_refined 0.21
r_scangle_it 4.544
r_chiral_restr 0.093
r_bond_refined_d 0.016
r_angle_refined_deg 1.468
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1280
Nucleic Acid Atoms 0
Heterogen Atoms 10
Solvent Atoms 118

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling version: 4.2)
MOLREP phasing
REFMAC refinement
CCP4 data scaling version: (SCALA)