X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 7.5
Temperature 298.0
Details PEG400, ammonium sulfate, pH 7.5, vapor diffusion, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 51.33 α = 90
b = 56.01 β = 116.15
c = 53.53 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MAR scanner 300 mm plate -- 2011-03-21
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-D 1.00 APS 21-ID-D

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
1.55 30 99.9 0.099 -- -- 7.1 39492 39492 2.0 2.0 --
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)
1.55 1.61 99.6 0.626 -- -- 5.8 3900

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 1.55 30.0 -- 2.0 39635 39469 2823 99.78 -- 0.1797 0.1786 0.1927 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 1.551 1.591 -- 197 2618 0.24 0.262 -- 97.54
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 24.3917
Anisotropic B[1][1] 2.35
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.17
Anisotropic B[2][2] -1.15
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.16
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.252
r_scbond_it 2.585
r_mcangle_it 1.828
r_mcbond_other 0.249
r_bond_refined_d 0.013
r_bond_other_d 0.001
r_angle_refined_deg 1.272
r_angle_other_deg 0.903
r_dihedral_angle_1_deg 5.072
r_dihedral_angle_2_deg 35.354
r_dihedral_angle_3_deg 10.572
r_dihedral_angle_4_deg 13.365
r_chiral_restr 0.085
r_gen_planes_refined 0.006
r_gen_planes_other 0.001
r_mcbond_it 0.995
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2082
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 114

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
REFMAC 5.5.0072 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
REFMAC5 version: 5.5.0072 refinement
SCALEPACK data reduction