X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 7
Temperature 298.0
Details 14-18% PEG 3350, 0.2M tri-Potassium Citrate (pH 6.5-7.5) and 2% isopropanol., pH 7.0, VAPOR DIFFUSION, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 64.26 α = 90
b = 63.19 β = 90
c = 175.57 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
IMAGE PLATE RIGAKU RAXIS IV mirrors 2003-06-23
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU300 1.5418 -- --

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
2.5 20 94.18 0.07 -- -- -- 24255 22844 -1.0 -1.0 --
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)
2.5 2.59 76.3 0.315 -- 2.0 -- 1897

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 2.5 20.0 -- 0.0 24255 22844 1224 94.18 0.24846 0.24846 0.24558 0.30315 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 2.499 2.564 1312 71 1241 0.286 0.38 -- 70.16
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 48.907
Anisotropic B[1][1] 1.4
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.14
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.54
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.208
r_symmetry_vdw_refined 0.229
r_dihedral_angle_1_deg 5.549
r_angle_refined_deg 1.222
r_gen_planes_refined 0.004
r_xyhbond_nbd_refined 0.177
r_scbond_it 1.059
r_symmetry_hbond_refined 0.095
r_nbtor_refined 0.305
r_dihedral_angle_3_deg 17.053
r_dihedral_angle_2_deg 38.016
r_dihedral_angle_4_deg 16.465
r_mcangle_it 0.95
r_scangle_it 1.671
r_chiral_restr 0.083
r_bond_refined_d 0.01
r_mcbond_it 0.543
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3965
Nucleic Acid Atoms 0
Heterogen Atoms 82
Solvent Atoms 178

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019
CrystalClear data collection version: (MSC/RIGAKU)
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing