X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 4.6
Temperature 295.0
Details sodium acetate, sodium formate, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 75.5 α = 90
b = 86.4 β = 90
c = 175.7 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 MARRESEARCH -- 2004-04-01
Diffraction Radiation
Monochromator Protocol
Silicon mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 32-ID 0.9793 APS 32-ID

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
2.9 28.8 99.2 -- 0.095 -- 3.7 25958 25958 0.0 0.0 --
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)
2.9 3.0 98.5 -- 0.328 2.3 3.2 --

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 2.9 28.8 -- -- 24588 24591 1319 98.9 -- 0.23973 0.23618 0.30787 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 2.9 2.975 -- 90 1765 0.307 0.412 -- 98.04
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 52.119
Anisotropic B[1][1] 1.68
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.5
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.18
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 1.2
r_scbond_it 0.657
r_mcangle_it 0.578
r_mcbond_it 0.319
r_nbd_refined 0.207
r_gen_planes_refined 0.003
r_chiral_restr 0.081
r_dihedral_angle_4_deg 18.329
r_dihedral_angle_3_deg 20.548
r_dihedral_angle_2_deg 35.474
r_dihedral_angle_1_deg 4.826
r_angle_refined_deg 1.111
r_bond_refined_d 0.007
r_nbtor_refined 0.298
r_xyhbond_nbd_refined 0.159
r_symmetry_vdw_refined 0.223
r_symmetry_hbond_refined 0.133
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8390
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 0

Software

Computing
Computing Package Purpose
MAR Data Reduction (intensity integration)
XDS Data Reduction (data scaling)
CNS Structure Solution
REFMAC 5.2.0003 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.0 refinement
CNS model building
XDS data reduction
MAR data collection