X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop Nanodrop
pH 9.2
Temperature 293.0
Details 50% PEG-400, 0.1M CHES pH 9.5, 0.2M NaCl, pH 9.2, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 67.57 α = 90
b = 84.59 β = 95.39
c = 107.22 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2001-12-10
Diffraction Radiation
Monochromator Protocol
double crystal monochromator MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-2 0.97999, 0.97980, 0.91837 SSRL BL9-2

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
1.8 48.66 87.6 -- 0.038 -- 4.1 97122 97122 -- -- 29.14
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)
1.8 1.85 59.7 -- 0.273 4.3 3.2 4897

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
MAD 1.8 48.66 -- -- -- 92219 4874 87.24 -- 0.15938 0.15738 0.19807 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 1.8 1.847 -- 259 4631 0.177 0.208 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model ISOTROPIC
Mean Isotropic B 22.156
Anisotropic B[1][1] -1.43
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.86
Anisotropic B[2][2] 1.2
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.4
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.206
r_scbond_it 2.338
r_bond_refined_d 0.017
r_chiral_restr 0.086
r_gen_planes_refined 0.005
r_symmetry_vdw_refined 0.109
r_dihedral_angle_2_deg 33.43
r_nbd_refined 0.211
r_bond_other_d 0.001
r_dihedral_angle_1_deg 5.552
r_mcangle_it 1.307
r_gen_planes_other 0.001
r_nbtor_other 0.081
r_angle_other_deg 0.862
r_angle_refined_deg 1.414
r_dihedral_angle_4_deg 16.248
r_symmetry_vdw_other 0.275
r_symmetry_hbond_refined 0.196
r_xyhbond_nbd_refined 0.021
r_dihedral_angle_3_deg 13.097
r_nbd_other 0.185
r_mcbond_it 0.977
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8391
Nucleic Acid Atoms 0
Heterogen Atoms 40
Solvent Atoms 937

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling
MLPHARE phasing
SOLVE phasing
RESOLVE model building
REFMAC refinement version: 5.1.9999
CCP4 data scaling version: (SCALA)
RESOLVE phasing