X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 293.0
Details PEG 400, calcium chloride, sodium chloride, bis-tris propane, DTT, spermine, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 70.14 α = 90
b = 78.89 β = 90
c = 161.52 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 105
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2001-06-01
Diffraction Radiation
Monochromator Protocol
double crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-2 0.98008 SSRL BL9-2

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
1.4 100 99.8 -- 0.051 -- 38.0 88384 88384 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)
1.4 1.42 97.8 -- 0.493 3.0 5.2 --

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
MAD 1.4 81.65 0.0 0.0 83611 83611 4438 99.81 0.19544 0.19544 0.19484 0.20636 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 1.4 1.436 -- 317 6037 0.269 0.287 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 19.621
Anisotropic B[1][1] 0.1
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.82
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.92
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.515
r_nbd_refined 0.216
r_scangle_it 3.359
r_mcbond_it 1.132
r_symmetry_hbond_refined 0.215
r_bond_refined_d 0.011
r_bond_other_d 0.001
r_angle_other_deg 0.948
r_nbd_other 0.21
r_symmetry_vdw_refined 0.276
r_scbond_it 2.229
r_dihedral_angle_3_deg 16.107
r_chiral_restr 0.098
r_symmetry_vdw_other 0.258
r_xyhbond_nbd_other 0.106
r_xyhbond_nbd_refined 0.136
r_gen_planes_refined 0.008
r_gen_planes_other 0.003
r_dihedral_angle_1_deg 4.713
r_mcangle_it 2.081
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2330
Nucleic Acid Atoms 568
Heterogen Atoms 0
Solvent Atoms 342

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
SOLVE phasing
REFMAC refinement version: 5.0