X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 4.24
Details CITRIC ACID, LITHIUM CHLORIDE, pH 4.24

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 50.37 α = 90
b = 50.37 β = 90
c = 66.63 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 115
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV MIRRORS 2001-06-29
Diffraction Radiation
Monochromator Protocol
NI FILTER SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU300 -- -- --

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
1.9 26.48 99.8 0.059 -- -- 5.4 -- 8091 -- -3.0 18.73
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)
1.9 1.97 99.7 0.194 -- 8.4 4.9 --

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 1.9 26.48 -- -- -- 7693 372 99.8 -- 0.172 0.171 0.186 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 1.9 1.95 -- 22 563 0.203 0.256 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 15.73
Anisotropic B[1][1] 0.78
Anisotropic B[1][2] 0.39
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.78
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.17
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.006
r_nbd_refined 0.232
r_chiral_restr 0.077
r_symmetry_hbond_refined 0.173
r_angle_refined_deg 1.609
r_dihedral_angle_3_deg 14.459
r_gen_planes_other 0.003
r_symmetry_vdw_refined 0.284
r_nbd_other 0.206
r_xyhbond_nbd_other 0.057
r_symmetry_vdw_other 0.25
r_bond_refined_d 0.014
r_dihedral_angle_1_deg 3.87
r_scangle_it 4.545
r_xyhbond_nbd_refined 0.155
r_mcbond_it 1.117
r_scbond_it 2.62
r_angle_other_deg 0.708
r_bond_other_d 0.001
r_mcangle_it 2.041
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 682
Nucleic Acid Atoms 0
Heterogen Atoms 4
Solvent Atoms 106

Software

Software
Software Name Purpose
REFMAC refinement version: 5.0
DENZO data reduction
SCALEPACK data scaling
MOLREP phasing