X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.5
Temperature 277.0
Details 20% MPD, 0.1M Sodium Acetate, pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 101.29 α = 90
b = 101.29 β = 90
c = 41.81 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH mirror 2000-09-01
Diffraction Radiation
Monochromator Protocol
Si 311 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-1 0.98 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
2 25 99.6 -- 0.054 -- -- 15770 15770 0.0 -3.0 --
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)
2.0 2.08 99.6 -- 0.333 -- -- --

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 2.0 23.96 -- 0.0 14892 14892 795 92.61 0.22873 0.22873 0.22788 0.24449 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 2.0 2.052 -- 66 1160 0.265 0.314 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 35.983
Anisotropic B[1][1] -1.29
Anisotropic B[1][2] -0.64
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.29
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.93
RMS Deviations
Key Refinement Restraint Deviation
r_nbtor_other 0.389
r_dihedral_angle_3_deg 23.505
r_symmetry_vdw_other 0.255
r_gen_planes_refined 0.011
r_symmetry_vdw_refined 0.309
r_bond_refined_d 0.03
r_mcangle_it 2.88
r_bond_other_d 0.001
r_angle_refined_deg 2.462
r_mcbond_it 1.618
r_angle_other_deg 1.424
r_dihedral_angle_1_deg 5.157
r_scbond_it 4.093
r_gen_planes_other 0.008
r_xyhbond_nbd_other 0.12
r_xyhbond_nbd_refined 0.409
r_chiral_restr 0.156
r_scangle_it 6.526
r_nbd_refined 0.306
r_nbd_other 0.232
r_symmetry_hbond_refined 0.667
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 828
Nucleic Acid Atoms 0
Heterogen Atoms 14
Solvent Atoms 71

Software

Software
Software Name Purpose
HKL-2000 data collection
TRUNCATE data reduction
REFMAC refinement version: 5.0
HKL-2000 data reduction
CCP4 data scaling version: (TRUNCATE)