X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.1
Temperature 293.0
Details PEG 300, Sodium acetate, pH 5.1, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 78.35 α = 90
b = 92.62 β = 90
c = 36.89 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MACSCIENCE -- 2002-12-05
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM14 1.024 ESRF BM14

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
1.92 28.87 99.04 -- -- -- -- -- 10522 2.0 2.0 28.02
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)
1.919 1.969 98.6 -- -- -- -- --

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 1.92 28.87 -- 2.0 -- 9519 1018 99.04 -- 0.18839 0.1846 0.22382 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 1.919 1.969 -- 60 656 0.225 0.193 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 28.022
Anisotropic B[1][1] 3.61
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -2.21
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.39
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.875
r_scbond_it 2.797
r_mcangle_it 1.879
r_mcbond_it 1.004
r_symmetry_hbond_refined 0.498
r_symmetry_vdw_other 0.333
r_symmetry_vdw_refined 0.261
r_bond_refined_d 0.02
r_bond_other_d 0.002
r_angle_refined_deg 1.66
r_angle_other_deg 0.902
r_dihedral_angle_1_deg 6.141
r_chiral_restr 0.107
r_gen_planes_refined 0.006
r_gen_planes_other 0.002
r_nbd_refined 0.248
r_nbd_other 0.25
r_nbtor_other 0.093
r_xyhbond_nbd_refined 0.242
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 935
Nucleic Acid Atoms 0
Heterogen Atoms 4
Solvent Atoms 56

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.1.27 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.27 refinement