X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.3
Temperature 293.0
Details 35% PEG8000, 0.2M LiAc, 0.1M NaAc, pH 6.3, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 42.38 α = 90
b = 129.57 β = 111.02
c = 44.73 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 180
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2011-07-22
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL44XU 1 SPRING-8 BL44XU

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
1.35 20 51.4 -- -- -- -- -- 96822 3.0 3.0 9.81
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)
1.35 1.4 100.0 -- -- -- -- --

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 1.35 19.869 -- 1.35 -- 95339 4770 96.97 -- 0.143 0.1412 0.1775 --
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 1.35 1.3982 -- 442 8915 0.1888 0.2246 -- 95.0
X Ray Diffraction 1.3982 1.4542 -- 457 8924 0.1612 0.196 -- 95.0
X Ray Diffraction 1.4542 1.5204 -- 440 8975 0.1404 0.1784 -- 96.0
X Ray Diffraction 1.5204 1.6005 -- 508 9011 0.1351 0.1688 -- 97.0
X Ray Diffraction 1.6005 1.7007 -- 478 9059 0.1309 0.1676 -- 97.0
X Ray Diffraction 1.7007 1.832 -- 505 9087 0.1374 0.1734 -- 98.0
X Ray Diffraction 1.832 2.0161 -- 471 9197 0.1385 0.1737 -- 98.0
X Ray Diffraction 2.0161 2.3075 -- 492 9193 0.1388 0.1758 -- 99.0
X Ray Diffraction 2.3075 2.9058 -- 496 9254 0.1444 0.1834 -- 99.0
X Ray Diffraction 2.9058 19.8714 -- 481 8954 0.1371 0.1733 -- 95.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 18.6257
Anisotropic B[1][1] 1.8825
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -2.8861
Anisotropic B[2][2] -3.8798
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.9973
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 12.097
f_plane_restr 0.005
f_chiral_restr 0.07
f_angle_d 1.046
f_bond_d 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4223
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 1055

Software

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