X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 295.15
Details pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 295.15K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 54.59 α = 90
b = 84.9 β = 106.92
c = 61.47 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 105
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RIGAKU SATURN 944+ -- 2012-07-15
Diffraction Radiation
Monochromator Protocol
Varimax HF 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
1.86 50 95.5 -- -- -- -- 45025 45025 0.0 1.68 --
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)
1.86 1.93 86.2 -- -- -- -- --

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 1.861 29.563 -- 1.35 46145 42808 3337 95.03 -- 0.167 0.164 0.2009 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 1.8605 1.8871 -- 114 1400 0.2706 0.3049 -- 81.0
X Ray Diffraction 1.8871 1.9153 -- 118 1529 0.2199 0.292 -- 88.0
X Ray Diffraction 1.9153 1.9452 -- 120 1538 0.2043 0.2601 -- 88.0
X Ray Diffraction 1.9452 1.9771 -- 135 1602 0.2142 0.2793 -- 92.0
X Ray Diffraction 1.9771 2.0112 -- 126 1546 0.2068 0.2494 -- 92.0
X Ray Diffraction 2.0112 2.0477 -- 138 1647 0.1686 0.23 -- 95.0
X Ray Diffraction 2.0477 2.0871 -- 136 1642 0.1646 0.2318 -- 95.0
X Ray Diffraction 2.0871 2.1297 -- 155 1642 0.1586 0.2293 -- 96.0
X Ray Diffraction 2.1297 2.176 -- 131 1652 0.1524 0.211 -- 95.0
X Ray Diffraction 2.176 2.2266 -- 140 1665 0.1559 0.2038 -- 97.0
X Ray Diffraction 2.2266 2.2822 -- 140 1670 0.1571 0.218 -- 96.0
X Ray Diffraction 2.2822 2.3439 -- 164 1622 0.1678 0.2097 -- 97.0
X Ray Diffraction 2.3439 2.4129 -- 142 1660 0.1637 0.2124 -- 97.0
X Ray Diffraction 2.4129 2.4907 -- 130 1683 0.1708 0.2192 -- 96.0
X Ray Diffraction 2.4907 2.5797 -- 151 1662 0.1721 0.2444 -- 97.0
X Ray Diffraction 2.5797 2.6829 -- 149 1683 0.1789 0.234 -- 98.0
X Ray Diffraction 2.6829 2.8049 -- 126 1691 0.1768 0.2036 -- 97.0
X Ray Diffraction 2.8049 2.9527 -- 110 1670 0.188 0.2225 -- 96.0
X Ray Diffraction 2.9527 3.1375 -- 173 1653 0.1948 0.2382 -- 96.0
X Ray Diffraction 3.1375 3.3794 -- 149 1687 0.1798 0.2277 -- 98.0
X Ray Diffraction 3.3794 3.7189 -- 146 1722 0.1559 0.18 -- 99.0
X Ray Diffraction 3.7189 4.2557 -- 147 1710 0.1417 0.1622 -- 98.0
X Ray Diffraction 4.2557 5.3565 -- 154 1710 0.1352 0.159 -- 99.0
X Ray Diffraction 5.3565 29.5671 -- 143 1785 0.1367 0.1378 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.071
f_dihedral_angle_d 14.651
f_angle_d 1.03
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3937
Nucleic Acid Atoms 93
Heterogen Atoms 1
Solvent Atoms 425

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.8.1_1168) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.8.1_1168) refinement
PHASER model building
HKL-2000 data collection