X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 7
Temperature 277.0
Details 3.0 M NaCl, 100 mM Tris-HCl pH 7.0, temperature 277K, VAPOR DIFFUSION

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 132.53 α = 90
b = 132.53 β = 90
c = 82.76 γ = 120
Symmetry
Space Group H 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2006-04-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.1 1.00 ALS 5.0.1

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
1.95 50 97.8 0.094 -- -- 4.4 38912 38912 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)
1.95 2.02 83.4 0.802 -- 1.0 2.5 3283

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
-- 1.95 10.0 0.0 0.0 38432 38432 1936 97.97 0.181 0.181 0.18 0.203 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 1.95 1.999 3283 123 2214 0.288 0.324 -- 82.64
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 41.014
Anisotropic B[1][1] -0.3
Anisotropic B[1][2] -0.15
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.3
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.46
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.34
r_symmetry_vdw_refined 0.209
r_mcangle_it 1.396
r_xyhbond_nbd_refined 0.157
r_bond_refined_d 0.013
r_nbtor_refined 0.309
r_dihedral_angle_4_deg 18.371
r_nbd_refined 0.202
r_mcbond_it 0.834
r_scbond_it 1.925
r_scangle_it 2.902
r_chiral_restr 0.102
r_dihedral_angle_1_deg 6.215
r_dihedral_angle_3_deg 14.568
r_symmetry_hbond_refined 0.257
r_dihedral_angle_2_deg 36.758
r_gen_planes_refined 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1743
Nucleic Acid Atoms 0
Heterogen Atoms 26
Solvent Atoms 193

Software

Software
Software Name Purpose
REFMAC refinement
PDB_EXTRACT data extraction version: 3.000
ADSC data collection version: Quantum
DENZO data reduction
SCALEPACK data scaling
HKL-2000 data scaling
MOLREP phasing