X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 293.0
Details PEG 4000, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 65.51 α = 90
b = 81.97 β = 90
c = 86.95 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL PSI PILATUS 6M -- 2008-11-24
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA 1.0 SLS X06SA

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
2.14 25 99.0 0.08 0.09 -- 4.1 -- 26185 2.0 2.0 --
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)
2.14 2.26 98.6 0.41 0.48 3.0 3.0 3739

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 2.14 15.0 -- -- -- 24739 1321 98.77 -- 0.19041 0.18886 0.2201 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 2.14 2.194 -- 100 1741 0.207 0.252 -- 97.05
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 22.912
Anisotropic B[1][1] 1.14
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.7
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.43
RMS Deviations
Key Refinement Restraint Deviation
r_metal_ion_refined 0.202
r_scangle_it 2.488
r_dihedral_angle_4_deg 20.581
r_mcbond_it 0.619
r_bond_other_d 0.0
r_dihedral_angle_1_deg 5.84
r_nbtor_refined 0.172
r_gen_planes_other 0.005
r_dihedral_angle_3_deg 17.161
r_nbtor_other 0.109
r_angle_other_deg 4.258
r_chiral_restr 0.083
r_nbd_refined 0.207
r_mcbond_other 0.0
r_symmetry_vdw_refined 0.233
r_nbd_other 0.251
r_symmetry_vdw_other 0.363
r_mcangle_it 1.107
r_gen_planes_refined 0.004
r_symmetry_hbond_refined 0.145
r_bond_refined_d 0.012
r_scbond_it 1.646
r_dihedral_angle_2_deg 37.155
r_angle_refined_deg 1.309
r_xyhbond_nbd_refined 0.161
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3557
Nucleic Acid Atoms 0
Heterogen Atoms 13
Solvent Atoms 225

Software

Software
Software Name Purpose
MOLREP phasing
REFMAC refinement version: 5.2.0019
MOSFLM data reduction
SCALA data scaling