X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 37.9 α = 90
b = 48.98 β = 104.07
c = 54 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CLSI BEAMLINE 08ID-1 1.25 CLSI 08ID-1

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
1.87 34.3 93.0 -- -- -- -- 15795 140183 2.0 2.0 23.0

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 1.873 29.4 -- 0.0 -- 15795 1588 99.4 -- -- 0.207 0.255 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 1.87 1.99 -- 242 2197 0.285 0.357 0.023 92.8
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 30.8333
Anisotropic B[1][1] -1.14
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 2.35
Anisotropic B[2][2] -4.88
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 6.02
RMS Deviations
Key Refinement Restraint Deviation
c_improper_angle_d 0.66
c_dihedral_angle_d 15.2
c_angle_deg 0.9
c_bond_d 0.005
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.2
Luzzati Sigma A (Observed) 0.19
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.26
Luzzati Sigma A (R-Free Set) 0.26
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1810
Nucleic Acid Atoms 0
Heterogen Atoms 20
Solvent Atoms 245

Software

Computing
Computing Package Purpose
CNS 1.3 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.10 data extraction
CNS version: 1.3 refinement