X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop Nanodrop
Temperature 277.0
Details 25.5% PEG-4000, 0.17M ammonium sulfate, 15% glycerol anhydrous , VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 39.63 α = 90
b = 74.73 β = 91.02
c = 42.21 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 -- 2001-06-03
Diffraction Radiation
Monochromator Protocol
single crystal Si(311) bent monochromator single wavelength
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-1 -- SSRL BL9-1

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
1.81 36.76 94.9 -- 0.045 -- 2.6 21322 21322 -- -- 36.92
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)
1.81 1.85 34.6 -- 0.307 3.1 1.8 461

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 1.83 27.98 -- -- -- 20232 1071 98.15 -- 0.17277 0.17011 0.22239 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 1.83 1.879 -- 61 1445 0.197 0.246 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model ISOTROPIC
Mean Isotropic B 33.54
Anisotropic B[1][1] 0.84
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.38
Anisotropic B[2][2] -0.86
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.04
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.506
r_scbond_it 2.821
r_mcangle_it 1.496
r_mcbond_it 1.36
r_symmetry_hbond_refined 0.191
r_symmetry_vdw_other 0.343
r_symmetry_vdw_refined 0.227
r_xyhbond_nbd_refined 0.078
r_nbtor_other 0.084
r_nbd_other 0.179
r_bond_refined_d 0.017
r_bond_other_d 0.001
r_angle_refined_deg 1.649
r_angle_other_deg 0.842
r_dihedral_angle_1_deg 7.884
r_dihedral_angle_2_deg 28.751
r_dihedral_angle_3_deg 12.71
r_dihedral_angle_4_deg 24.74
r_chiral_restr 0.117
r_gen_planes_refined 0.008
r_gen_planes_other 0.001
r_nbd_refined 0.194
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1504
Nucleic Acid Atoms 0
Heterogen Atoms 13
Solvent Atoms 282

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.1.9999 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.9999 refinement
MOLREP model building
SCALA(CCP4 version: 5.0) data reduction
MOSFLM data collection