X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 9
Details SATURATED SODIUM CITRATE, pH 9.00

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 117.52 α = 90
b = 126.88 β = 90
c = 221.39 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 -- -- 2002-05-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-1 -- ESRF ID14-1

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
3.1 20 98.6 0.091 -- -- 3.0 -- 58411 -- -- --
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)
3.1 3.2 98.5 0.301 -- 2.1 2.1 --

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 3.1 19.92 -- -- -- 56199 2989 100.0 -- 0.215 0.212 0.278 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 3.1 3.18 -- 208 4041 0.255 0.374 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 55.11
Anisotropic B[1][1] -2.66
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 4.75
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.09
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 7.078
r_scbond_it 4.306
r_mcangle_it 2.376
r_mcbond_it 1.219
r_nbd_refined 0.278
r_gen_planes_refined 0.009
r_chiral_restr 0.164
r_dihedral_angle_4_deg 22.956
r_dihedral_angle_3_deg 21.045
r_dihedral_angle_2_deg 39.36
r_dihedral_angle_1_deg 8.933
r_angle_refined_deg 2.813
r_bond_refined_d 0.032
r_xyhbond_nbd_refined 0.193
r_symmetry_vdw_refined 0.388
r_symmetry_hbond_refined 0.14
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 16789
Nucleic Acid Atoms 0
Heterogen Atoms 304
Solvent Atoms 0

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5.1.08 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.08 refinement
AMORE model building