X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.2
Details pH 6.2

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 40.23 α = 90
b = 60.59 β = 90
c = 87.52 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC CCD -- 2009-05-14
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I04 -- Diamond I04

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
1.19 26.29 93.4 0.06 -- -- 4.6 -- 64405 -- 5.0 8.39
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)
1.19 1.26 90.4 0.24 -- 5.14 3.8 --

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 1.193 26.286 -- 2.0 -- 64403 3251 93.44 -- 0.1414 0.14 0.1671 --
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 1.1925 1.2103 -- 115 2162 0.1966 0.2337 -- 76.0
X Ray Diffraction 1.2103 1.2292 -- 165 2610 0.1663 0.1944 -- 95.0
X Ray Diffraction 1.2292 1.2494 -- 159 2705 0.1357 0.1646 -- 97.0
X Ray Diffraction 1.2494 1.2709 -- 135 2702 0.1233 0.1542 -- 97.0
X Ray Diffraction 1.2709 1.294 -- 148 2721 0.1245 0.1646 -- 96.0
X Ray Diffraction 1.294 1.3189 -- 141 2735 0.1227 0.1556 -- 97.0
X Ray Diffraction 1.3189 1.3458 -- 153 2727 0.1221 0.1578 -- 96.0
X Ray Diffraction 1.3458 1.3751 -- 139 2725 0.1168 0.162 -- 98.0
X Ray Diffraction 1.3751 1.4071 -- 146 2708 0.1133 0.1353 -- 96.0
X Ray Diffraction 1.4071 1.4423 -- 135 2747 0.1165 0.1657 -- 97.0
X Ray Diffraction 1.4423 1.4813 -- 157 2738 0.113 0.1513 -- 97.0
X Ray Diffraction 1.4813 1.5248 -- 148 2693 0.1056 0.1442 -- 96.0
X Ray Diffraction 1.5248 1.5741 -- 134 2733 0.1068 0.1343 -- 96.0
X Ray Diffraction 1.5741 1.6303 -- 131 2744 0.1069 0.1471 -- 96.0
X Ray Diffraction 1.6303 1.6956 -- 126 2753 0.1148 0.1476 -- 96.0
X Ray Diffraction 1.6956 1.7727 -- 138 2699 0.123 0.1677 -- 95.0
X Ray Diffraction 1.7727 1.8662 -- 128 2725 0.1324 0.1491 -- 95.0
X Ray Diffraction 1.8662 1.9831 -- 128 2680 0.1315 0.2103 -- 94.0
X Ray Diffraction 1.9831 2.1361 -- 166 2659 0.1385 0.1495 -- 93.0
X Ray Diffraction 2.1361 2.3509 -- 146 2636 0.1365 0.1544 -- 92.0
X Ray Diffraction 2.3509 2.6908 -- 137 2618 0.1558 0.1739 -- 90.0
X Ray Diffraction 2.6908 3.389 -- 161 2568 0.1596 0.1896 -- 88.0
X Ray Diffraction 3.389 26.2924 -- 115 2364 0.1843 0.1815 -- 77.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 1.2999
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.1044
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.4043
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.397
f_bond_d 0.01
f_chiral_restr 0.074
f_dihedral_angle_d 13.387
f_plane_restr 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1782
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 319

Software

Software
Software Name Purpose
PHENIX refinement version: (PHENIX.REFINE)
XDS data reduction
XDS data scaling
AMoRE phasing