X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.9
Temperature 293.0
Details 100 mM Bicine pH 7.9, 25% PEG 10000, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 60.96 α = 90
b = 48.44 β = 102.84
c = 119.81 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 MARMOSAIC 225 mm CCD -- 2007-03-03
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X10SA 0.97900 SLS X10SA

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
1.9 59.44 100.0 0.08 0.08 -- 3.7 54178 54178 0.0 0.0 24.7
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)
1.9 2.0 100.0 0.389 0.389 3.3 3.6 --

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 1.9 59.44 -- 0.0 51408 51408 2761 99.96 0.16627 0.16627 0.16352 0.21725 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 1.9 1.949 -- 221 3746 0.211 0.293 -- 99.85
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 30.663
Anisotropic B[1][1] -0.14
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.41
Anisotropic B[2][2] 0.5
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.17
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.518
r_gen_planes_other 0.001
r_symmetry_vdw_refined 0.079
r_symmetry_hbond_refined 0.142
r_bond_refined_d 0.018
r_chiral_restr 0.094
r_gen_planes_refined 0.007
r_xyhbond_nbd_other 0.024
r_nbd_other 0.206
r_mcbond_other 2.414
r_mcbond_it 5.098
r_nbd_refined 0.213
r_mcangle_it 5.956
r_scangle_it 9.561
r_scbond_it 8.346
r_symmetry_vdw_other 0.284
r_dihedral_angle_2_deg 33.784
r_dihedral_angle_4_deg 14.162
r_bond_other_d 0.001
r_nbtor_other 0.087
r_xyhbond_nbd_refined 0.169
r_dihedral_angle_3_deg 14.027
r_dihedral_angle_1_deg 6.145
r_nbtor_refined 0.188
r_angle_other_deg 0.941
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4830
Nucleic Acid Atoms 0
Heterogen Atoms 17
Solvent Atoms 369

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019
MAR345 data collection version: CCD
MOSFLM data reduction
CCP4 data scaling version: (SCALA)
PHASER phasing