X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop Nanodrop
pH 5
Temperature 293.0
Details 40% MPD, 0.1M sodium acetate trihydrate, pH 5.0, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 64.25 α = 90
b = 74.99 β = 90
c = 143.7 γ = 90
Symmetry
Space Group I 2 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 2003-06-01
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
1.65 35.93 95.9 -- 0.055 -- 4.7 40334 40334 -- -- 31.78
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)
1.65 1.74 78.8 -- 0.433 1.9 2.2 4754

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 1.65 35.93 -- -- -- 38297 2036 95.7 -- 0.15918 0.15768 0.18762 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 1.65 1.693 -- 121 2128 0.277 0.276 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model ISOTROPIC
Mean Isotropic B 27.161
Anisotropic B[1][1] 0.67
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.31
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.98
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.015
r_nbtor_other 0.082
r_scbond_it 2.522
r_chiral_restr 0.083
r_gen_planes_other 0.001
r_symmetry_vdw_refined 0.2
r_nbd_other 0.181
r_angle_refined_deg 1.409
r_nbd_refined 0.21
r_dihedral_angle_3_deg 14.127
r_xyhbond_nbd_refined 0.236
r_gen_planes_refined 0.006
r_angle_other_deg 0.755
r_mcangle_it 1.759
r_dihedral_angle_1_deg 5.544
r_symmetry_hbond_refined 0.26
r_dihedral_angle_4_deg 12.53
r_symmetry_vdw_other 0.245
r_bond_other_d 0.001
r_scangle_it 4.32
r_dihedral_angle_2_deg 29.186
r_mcbond_it 0.959
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2090
Nucleic Acid Atoms 0
Heterogen Atoms 1
Solvent Atoms 295

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling version: 4.2)
MOLREP phasing
REFMAC refinement version: 5.1.9999
CCP4 data scaling version: (SCALA)