X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.6
Temperature 293.0
Details 16% PEG 4000, 0.150 M ammonium acetate, 0.100 M sodium acetate, 0.100 M magnesium nitrate, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 86.09 α = 90
b = 55.96 β = 90
c = 61.68 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 120
Diffraction Detector
Detector Diffraction Type Details Collection Date
AREA DETECTOR RIGAKU RAXIS IV++ Osmic VariMax 2012-01-24
Diffraction Radiation
Monochromator Protocol
Osmic VariMax SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54 -- --

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 50 98.9 0.063 -- -- 12.3 274181 n/a 0.0 -3.0 --
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)
2.0 2.03 97.8 -- -- -- 12.3 997

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 2.3 29.855 -- 1.34 14219 13541 678 98.44 -- 0.1898 0.1872 0.2408 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 2.3 2.4775 -- 147 2529 0.2083 0.2919 -- 100.0
X Ray Diffraction 2.4775 2.7267 -- 138 2563 0.2128 0.2801 -- 100.0
X Ray Diffraction 2.7267 3.1209 -- 150 2565 0.2081 0.2949 -- 99.0
X Ray Diffraction 3.1209 3.9306 -- 107 2545 0.1955 0.2669 -- 96.0
X Ray Diffraction 3.9306 29.8574 -- 136 2661 0.1635 0.187 -- 97.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -13.4092
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 11.297
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.1122
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.076
f_dihedral_angle_d 14.934
f_angle_d 1.086
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2405
Nucleic Acid Atoms 0
Heterogen Atoms 12
Solvent Atoms 103

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHENIX (phaser) Structure Solution
PHENIX (phenix.refine: 1.7.3_928) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.3_928) refinement
PHENIX version: (phaser) model building
HKL-2000 data collection