X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 277.15
Details 15% PEG 8000, 20mM sodium phosphate, 175mM sodium chloride, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277.15K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 70.5 α = 90
b = 71.3 β = 100.5
c = 72.5 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX-225 COLLIMATING MIRROR 2010-06-25
Diffraction Radiation
Monochromator Protocol
DOUBLE CRYSTAL MONOCHROMATOR SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.2 0.91841 BESSY 14.2

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
1.34 50 98.7 -- 0.051 -- 3.3 78347 78347 -- -- 11.59
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)
1.34 1.36 97.3 -- 0.519 2.2 3.3 3850

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 1.34 21.512 -- 0.0 77869 74108 3761 93.71 0.1409 0.1409 0.1395 0.1656 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 1.34 1.3879 -- 346 6251 0.2177 0.2702 -- 84.0
X Ray Diffraction 1.3879 1.4434 -- 329 6468 0.1693 0.2028 -- 87.0
X Ray Diffraction 1.4434 1.5091 -- 335 6740 0.1444 0.2016 -- 90.0
X Ray Diffraction 1.5091 1.5887 -- 368 6939 0.113 0.1567 -- 93.0
X Ray Diffraction 1.5887 1.6882 -- 399 7048 0.1081 0.1454 -- 94.0
X Ray Diffraction 1.6882 1.8184 -- 403 7180 0.1081 0.1409 -- 96.0
X Ray Diffraction 1.8184 2.0013 -- 381 7294 0.1185 0.1509 -- 97.0
X Ray Diffraction 2.0013 2.2906 -- 399 7439 0.1302 0.1474 -- 99.0
X Ray Diffraction 2.2906 2.8849 -- 422 7446 0.1491 0.1689 -- 99.0
X Ray Diffraction 2.8849 21.5146 -- 379 7542 0.1507 0.1702 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 19.9263
Anisotropic B[1][1] 1.687
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 2.4863
Anisotropic B[2][2] -1.5998
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.1452
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 17.623
f_plane_restr 0.005
f_chiral_restr 0.074
f_angle_d 1.112
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2340
Nucleic Acid Atoms 0
Heterogen Atoms 97
Solvent Atoms 361

Software

Computing
Computing Package Purpose
MAR345dtb Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.6.4_486) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.6.4_486) refinement
PHASER model building
MAR345dtb data collection