X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.6
Temperature 22.0
Details 20% PEG, 200 mM ammonium acetate, 100 mM sodium acetate, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 22K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 50.44 α = 90
b = 91.19 β = 102.35
c = 53.9 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 ADSC QUANTUM 4 -- 2002-12-05
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 14-BM-C 0.9 APS 14-BM-C

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
1.5 10 86.0 -- 0.066 -- 2.3 63714 63714 0.0 0.0 --
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)
1.5 1.55 94.0 -- 0.18 2.9 2.2 7119

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
-- 1.5 10.0 -- 0.0 63714 63714 3211 83.74 -- 0.19283 0.19099 0.22757 from pdb entry 1KV7
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 1.5 1.539 -- 284 5148 0.184 0.206 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic, except copper, chlorine anisotropic
Mean Isotropic B 15.712
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_other 0.254
r_mcangle_it 1.625
r_bond_other_d 0.002
r_nbtor_other 0.085
r_mcbond_it 0.927
r_dihedral_angle_1_deg 6.678
r_chiral_restr 0.097
r_scangle_it 4.091
r_symmetry_hbond_refined 0.153
r_symmetry_vdw_other 0.254
r_gen_planes_refined 0.009
r_scbond_it 2.592
r_angle_other_deg 0.851
r_xyhbond_nbd_refined 0.134
r_bond_refined_d 0.015
r_nbd_refined 0.204
r_angle_refined_deg 1.571
r_gen_planes_other 0.01
r_symmetry_vdw_refined 0.146
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3565
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 427

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.22
CrystalClear data scaling version: D*TREK (MSC/RIGAKU)