X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details 0.9 M NA CITRATE, 0.1 M MES PH 6.5, 0.1 M MGSO4, 10 % GLYCEROL

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 170.93 α = 90
b = 177.09 β = 90
c = 181.66 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 (QUANTUM 315) ADSC -- 2010-07-02
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I03 -- DIAMOND I03

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
2.09 73.06 99.2 0.05 -- -- 4.9 -- 318966 -- 2.0 39.0
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)
2.09 2.15 99.1 0.66 -- 2.4 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 2.1 73.064 -- -- -- 316491 15989 99.095 -- 0.224 0.2227 0.2428 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 2.1 2.155 -- 1135 21282 0.309 0.307 -- 98.967
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 41.087
Anisotropic B[1][1] 0.838
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.754
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.084
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 5.47
r_scbond_it 6.397
r_mcangle_it 3.652
r_mcbond_other 0.538
r_mcbond_it 2.298
r_nbd_refined 0.215
r_gen_planes_other 0.006
r_gen_planes_refined 0.006
r_chiral_restr 0.087
r_dihedral_angle_4_deg 19.741
r_dihedral_angle_3_deg 14.589
r_dihedral_angle_2_deg 36.933
r_dihedral_angle_1_deg 5.292
r_angle_other_deg 1.608
r_angle_refined_deg 1.362
r_bond_other_d 0.008
r_bond_refined_d 0.009
r_nbd_other 0.368
r_nbtor_refined 0.178
r_xyhbond_nbd_refined 0.12
r_xyhbond_nbd_other 0.07
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 29081
Nucleic Acid Atoms 0
Heterogen Atoms 60
Solvent Atoms 976

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
XSCALE Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.6.0117 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.6.0117 refinement
PHASER model building