X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 289.0
Details 25 % PEG 2000MME, 100 mM Hepes pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 78.16 α = 90
b = 182.18 β = 91.38
c = 78.37 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r mirrors 2011-02-06
Diffraction Radiation
Monochromator Protocol
double crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.91948 APS 19-ID

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
3.25 50 98.7 -- 0.134 -- 4.4 33964 33964 0.0 0.0 79.4
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)
3.246 3.31 91.7 -- 0.779 1.7 3.9 1542

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 3.246 35.904 -- 0.0 33750 33750 1739 97.59 0.235 0.235 0.241 0.276 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 3.2461 3.3416 2511 130 2381 0.324 0.3658 -- 83.0
X Ray Diffraction 3.3416 3.4493 2741 139 2602 0.3171 0.3382 -- 90.0
X Ray Diffraction 3.4493 3.5725 2807 126 2681 0.3173 0.3527 -- 93.0
X Ray Diffraction 3.5725 3.7154 2873 161 2712 0.3122 0.3236 -- 94.0
X Ray Diffraction 3.7154 3.8843 2855 139 2716 0.3031 0.3023 -- 95.0
X Ray Diffraction 3.8843 4.0888 2864 143 2721 0.2901 0.3397 -- 95.0
X Ray Diffraction 4.0888 4.3446 2887 135 2752 0.2661 0.292 -- 95.0
X Ray Diffraction 4.3446 4.6794 2822 140 2682 0.2488 0.2716 -- 94.0
X Ray Diffraction 4.6794 5.1491 2852 149 2703 0.2388 0.2828 -- 94.0
X Ray Diffraction 5.1491 5.8913 2870 140 2730 0.2252 0.2609 -- 94.0
X Ray Diffraction 5.8913 7.4117 2839 149 2690 0.2299 0.2743 -- 93.0
X Ray Diffraction 7.4117 35.9066 2828 156 2672 0.14 0.2081 -- 91.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model mixed
Mean Isotropic B 138.3
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.05
f_dihedral_angle_d 20.555
f_angle_d 0.833
f_bond_d 0.004
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9656
Nucleic Acid Atoms 2364
Heterogen Atoms 5
Solvent Atoms 8

Software

Computing
Computing Package Purpose
SBCCOLLECT, HKL3000 Data Collection
HKL-3000 Data Reduction (intensity integration)
HKL-3000 Data Reduction (data scaling)
HKL3000, Molrep Structure Solution
PHENIX (phenix.refine: 1.8.1_1161), refmac5.5 Structure Refinement
Software
Software Name Purpose
refmac5.5 refinement
PHENIX version: (phenix.refine: 1.8.1_1161) refinement
Molrep model building
HKL3000 model building
HKL3000 data collection
SBCCOLLECT data collection