X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details 2.1 MALONATE PH 6.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 83.13 α = 90
b = 83.13 β = 90
c = 180.66 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH MIRRORS 2003-03-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE ENRAF-NONIUS FR571 -- -- --

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
2.33 20 99.7 0.066 -- -- 6.96 -- 193519 -- 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)
2.33 2.41 100.0 0.165 -- 11.8 6.84 --

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 2.33 74.54 -- -- -- 26420 1391 99.6 -- 0.171 0.168 0.22 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 2.33 2.39 -- 97 1933 0.154 0.255 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 27.94
Anisotropic B[1][1] -0.4
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.4
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.8
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.102
r_dihedral_angle_1_deg 6.628
r_symmetry_vdw_refined 0.263
r_symmetry_vdw_other 0.254
r_angle_refined_deg 1.742
r_xyhbond_nbd_refined 0.188
r_symmetry_hbond_refined 0.116
r_mcbond_it 0.934
r_mcangle_it 1.685
r_nbd_other 0.253
r_gen_planes_refined 0.008
r_nbd_refined 0.206
r_scbond_it 2.575
r_scangle_it 4.119
r_nbtor_other 0.088
r_bond_refined_d 0.024
r_bond_other_d 0.002
r_gen_planes_other 0.005
r_angle_other_deg 0.872
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4048
Nucleic Acid Atoms 0
Heterogen Atoms 1
Solvent Atoms 389

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.19
DENZO data reduction
SCALEPACK data scaling
MOLREP phasing