X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 291.0
Details 0.2M imidazole malate, 11% PEG 4000, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 78.23 α = 90
b = 110.96 β = 89.97
c = 80.38 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 345 mm plate -- 2009-06-19
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE OTHER 1.541790 -- --

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
1.82 111 95.2 0.076 0.03 -- 4.6 -- 116249 0.0 -3.0 --
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)
1.82 1.92 73.5 0.482 0.628 3.0 3.4 --

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 1.82 80.38 -- -- 114194 108452 5742 93.56 -- 0.21435 0.21219 0.25563 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 1.82 1.871 -- 105 2566 0.656 0.698 -- 29.59
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 20.895
Anisotropic B[1][1] -1.26
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.15
Anisotropic B[2][2] -0.56
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.82
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.799
r_scbond_it 2.362
r_mcangle_it 1.377
r_mcbond_it 0.758
r_gen_planes_refined 0.007
r_chiral_restr 0.096
r_dihedral_angle_4_deg 18.678
r_dihedral_angle_3_deg 13.136
r_dihedral_angle_2_deg 34.382
r_dihedral_angle_1_deg 5.424
r_angle_refined_deg 1.448
r_bond_refined_d 0.014
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9813
Nucleic Acid Atoms 0
Heterogen Atoms 168
Solvent Atoms 1087

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL Data Reduction (intensity integration)
XSCALE Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.5.0102 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.10 data extraction
REFMAC5 refinement
MOLREP molecular replacement
Xscale data reduction