X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Batch
pH 7
Temperature 296.0
Details PEG 4K, Hepes, pH 7.0, Batch, temperature 296K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 57.3 α = 90
b = 84.99 β = 90
c = 121.78 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD APS-1 -- 2004-07-31
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-BM 0.97934 APS 19-BM

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
1.9 69.01 96.3322 0.084 -- -- 6.5 43714 43714 -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)
1.9 1.97 96.1 0.521 -- 4.027 5.9 --

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 1.9 69.01 -- 0.0 43714 43714 2327 96.33 -- 0.24573 0.24298 0.29717 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 1.898 1.947 -- 168 3128 0.253 0.322 -- 94.99
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 33.047
Anisotropic B[1][1] 1.54
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.58
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.04
RMS Deviations
Key Refinement Restraint Deviation
r_bond_other_d 0.001
r_gen_planes_refined 0.007
r_symmetry_hbond_refined 0.169
r_nbtor_refined 0.316
r_mcangle_it 3.036
r_chiral_restr 0.138
r_nbtor_other 0.341
r_mcbond_it 1.78
r_mcbond_other 0.08
r_dihedral_angle_4_deg 16.963
r_dihedral_angle_1_deg 6.887
r_scbond_it 5.027
r_nbd_other 0.311
r_angle_refined_deg 1.809
r_gen_planes_other 0.001
r_xyhbond_nbd_refined 0.175
r_scangle_it 6.581
r_symmetry_vdw_refined 0.26
r_bond_refined_d 0.018
r_angle_other_deg 0.807
r_dihedral_angle_3_deg 18.947
r_nbd_refined 0.244
r_dihedral_angle_2_deg 41.365
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4476
Nucleic Acid Atoms 0
Heterogen Atoms 172
Solvent Atoms 219

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0005
HKL-2000 data reduction
SCALEPACK data scaling
AMoRE phasing