X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 6.5
Details 0.2 M sodium acetate trihydrate, 0.1 M sodium cacodylate, pH 6.5 and 30% PEG8000, VAPOR DIFFUSION

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 62.49 α = 90
b = 90.99 β = 90
c = 100.41 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 93
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV++ -- 2006-04-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RUH3R -- -- --

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
2.3 26.53 99.88 -- -- -- -- 23488 23460 -- -- --
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)
2.3 2.424 -- -- -- -- -- --

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 2.3 26.53 -- -- 23488 23460 2613 99.88 -- 0.18889 0.18267 0.24514 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 2.3 2.424 -- 349 3390 0.209 0.291 -- 99.97
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 44.075
Anisotropic B[1][1] 0.9
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] -0.2
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.005
r_nbd_refined 0.201
r_nbtor_refined 0.309
r_symmetry_hbond_refined 0.168
r_xyhbond_nbd_refined 0.16
r_bond_refined_d 0.013
r_dihedral_angle_4_deg 16.13
r_chiral_restr 0.106
r_dihedral_angle_1_deg 6.63
r_dihedral_angle_3_deg 17.081
r_angle_refined_deg 1.473
r_scangle_it 2.312
r_mcbond_it 0.547
r_mcangle_it 0.924
r_dihedral_angle_2_deg 35.783
r_scbond_it 1.495
r_symmetry_vdw_refined 0.163
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4173
Nucleic Acid Atoms 0
Heterogen Atoms 127
Solvent Atoms 149

Software

Software
Software Name Purpose
HKL-2000 data collection
PHASER phasing
REFMAC refinement version: 5.2.0005
HKL-2000 data reduction
HKL-2000 data scaling