X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.6
Temperature 291.0
Details 0.1 M Sodium citrate tribasic dihydrate pH 5.6, 1.0 Ammonium phosphate monobasic., VAPOR DIFFUSION, SITTING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 93.17 α = 90
b = 95.4 β = 90
c = 112.69 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 mirrors 2011-10-06
Diffraction Radiation
Monochromator Protocol
Si 111 CHANNEL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X29A 0.9793 NSLS X29A

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
2.4 50 95.0 0.137 -- -- 14.1 -- 37720 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)
2.4 2.5 100.0 0.51 -- 3.1 14.5 4911

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
SAD 2.4 48.216 -- 0.03 -- 37720 1904 94.38 -- 0.2464 0.2443 0.2847 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 2.4 2.46 -- 127 2433 0.2835 0.3638 -- 91.0
X Ray Diffraction 2.46 2.5265 -- 133 2457 0.2851 0.3618 -- 93.0
X Ray Diffraction 2.5265 2.6009 -- 135 2477 0.2794 0.3059 -- 93.0
X Ray Diffraction 2.6009 2.6848 -- 132 2570 0.2726 0.3258 -- 95.0
X Ray Diffraction 2.6848 2.7808 -- 144 2571 0.2816 0.3551 -- 97.0
X Ray Diffraction 2.7808 2.8921 -- 130 2640 0.2647 0.3327 -- 97.0
X Ray Diffraction 2.8921 3.0237 -- 132 2610 0.2729 0.3544 -- 98.0
X Ray Diffraction 3.0237 3.1831 -- 124 2678 0.2796 0.3354 -- 98.0
X Ray Diffraction 3.1831 3.3825 -- 141 2673 0.2697 0.3607 -- 99.0
X Ray Diffraction 3.3825 3.6435 -- 130 2195 0.2551 0.3066 -- 93.0
X Ray Diffraction 3.6435 4.0101 -- 115 2144 0.2294 0.2707 -- 81.0
X Ray Diffraction 4.0101 4.5899 -- 146 2734 0.1869 0.2153 -- 100.0
X Ray Diffraction 4.5899 5.7813 -- 143 2761 0.212 0.2287 -- 100.0
X Ray Diffraction 5.7813 48.2254 -- 172 2873 0.2223 0.2284 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Anisotropic B[1][1] 1.2876
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 11.1371
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -12.4247
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 0.998
f_plane_restr 0.004
f_bond_d 0.007
f_dihedral_angle_d 16.822
f_chiral_restr 0.063
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6491
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 128

Software

Software
Software Name Purpose
CBASS data collection
SOLVE phasing
PHENIX refinement version: (phenix.refine)
HKL-2000 data reduction
HKL-2000 data scaling