X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.74
Temperature 293.0
Details PEG 4000, magnesium chloride, HEPES, pH 7.74, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 76.83 α = 90
b = 91.13 β = 90
c = 165.03 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
CCD ADSC QUANTUM 4 mirrors 2002-05-17
Diffraction Radiation
Monochromator Protocol
Si 111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SRS BEAMLINE PX14.2 0.979 SRS PX14.2

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
1.95 40 91.7 0.102 -- -- 7.3 85157 78138 -- 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)
1.95 2.001 -- -- -- -- -- --

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 1.95 40.0 -- 0.0 -- 68290 3635 84.5 0.1803 0.1803 0.17786 0.22675 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 2.001 4019 215 4019 0.217 0.257 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 29.258
Anisotropic B[1][1] 1.79
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.87
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.66
RMS Deviations
Key Refinement Restraint Deviation
r_nbtor_other 0.123
r_nbd_other 0.218
r_nbd_refined 0.266
r_gen_planes_other 0.003
r_gen_planes_refined 0.01
r_chiral_restr 0.204
r_dihedral_angle_2_deg 19.757
r_dihedral_angle_1_deg 4.991
r_angle_other_deg 1.228
r_angle_refined_deg 2.111
r_bond_other_d 0.001
r_bond_refined_d 0.023
r_xyhbond_nbd_refined 0.222
r_xyhbond_nbd_other 0.184
r_metal_ion_refined 0.182
r_symmetry_vdw_refined 0.197
r_symmetry_vdw_other 0.29
r_symmetry_hbond_refined 0.192
r_symmetry_hbond_other 0.116
r_mcbond_it 1.286
r_mcangle_it 2.132
r_scbond_it 3.046
r_scangle_it 4.775
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7083
Nucleic Acid Atoms 0
Heterogen Atoms 217
Solvent Atoms 611

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.0 refinement