X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.7
Temperature 291.0
Details 22% PEG10000, 0.1 M MES pH 6.7, 0.1 M magnesium acetate, VAPOR DIFFUSION, SITTING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 79.2 α = 89.16
b = 122.01 β = 85.58
c = 149.2 γ = 89.71
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2011-07-06
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-F 0.9786 APS 21-ID-F

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
2.84 50 99.1 0.102 -- -- 4.0 -- 128809 -- -- --
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)
2.844 2.96 98.6 0.487 -- -- 4.0 12750

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 2.844 46.836 -- 1.98 -- 128750 6481 98.47 -- 0.1866 0.1847 0.2229 --
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 2.844 2.8768 -- 180 3307 0.2942 0.3413 -- 81.0
X Ray Diffraction 2.8768 2.9106 -- 226 4120 0.2745 0.3448 -- 99.0
X Ray Diffraction 2.9106 2.9461 -- 189 4115 0.2587 0.3212 -- 99.0
X Ray Diffraction 2.9461 2.9834 -- 203 4069 0.2467 0.3217 -- 99.0
X Ray Diffraction 2.9834 3.0226 -- 205 4110 0.2489 0.2814 -- 99.0
X Ray Diffraction 3.0226 3.064 -- 224 4068 0.2355 0.2927 -- 99.0
X Ray Diffraction 3.064 3.1078 -- 206 4106 0.2258 0.295 -- 99.0
X Ray Diffraction 3.1078 3.1542 -- 192 4124 0.2145 0.249 -- 99.0
X Ray Diffraction 3.1542 3.2034 -- 202 4086 0.2204 0.2688 -- 99.0
X Ray Diffraction 3.2034 3.2559 -- 229 4071 0.2161 0.2452 -- 99.0
X Ray Diffraction 3.2559 3.3121 -- 214 4146 0.2051 0.2596 -- 99.0
X Ray Diffraction 3.3121 3.3723 -- 234 4014 0.2093 0.2333 -- 99.0
X Ray Diffraction 3.3723 3.4371 -- 211 4124 0.2085 0.3053 -- 99.0
X Ray Diffraction 3.4371 3.5073 -- 224 4047 0.1981 0.237 -- 99.0
X Ray Diffraction 3.5073 3.5835 -- 211 4134 0.1943 0.2275 -- 99.0
X Ray Diffraction 3.5835 3.6668 -- 225 4079 0.1896 0.2245 -- 99.0
X Ray Diffraction 3.6668 3.7585 -- 230 4124 0.1798 0.2257 -- 99.0
X Ray Diffraction 3.7585 3.8601 -- 204 4077 0.1713 0.2081 -- 99.0
X Ray Diffraction 3.8601 3.9736 -- 218 4142 0.1616 0.2121 -- 99.0
X Ray Diffraction 3.9736 4.1018 -- 231 4072 0.1637 0.2086 -- 99.0
X Ray Diffraction 4.1018 4.2483 -- 199 4146 0.1508 0.179 -- 99.0
X Ray Diffraction 4.2483 4.4183 -- 230 4125 0.1406 0.1887 -- 99.0
X Ray Diffraction 4.4183 4.6192 -- 208 4091 0.1375 0.1756 -- 99.0
X Ray Diffraction 4.6192 4.8625 -- 253 4112 0.1385 0.18 -- 99.0
X Ray Diffraction 4.8625 5.1668 -- 244 4068 0.1527 0.1826 -- 99.0
X Ray Diffraction 5.1668 5.5651 -- 207 4149 0.1804 0.2286 -- 100.0
X Ray Diffraction 5.5651 6.124 -- 227 4115 0.198 0.2443 -- 100.0
X Ray Diffraction 6.124 7.0077 -- 210 4113 0.1984 0.1953 -- 100.0
X Ray Diffraction 7.0077 8.8193 -- 220 4152 0.1575 0.1784 -- 100.0
X Ray Diffraction 8.8193 46.8421 -- 225 4063 0.1685 0.1682 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 42.3954
Anisotropic B[1][1] -1.6703
Anisotropic B[1][2] 0.023
Anisotropic B[1][3] 0.129
Anisotropic B[2][2] -0.0959
Anisotropic B[2][3] 0.3519
Anisotropic B[3][3] 1.7662
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 17.893
f_plane_restr 0.006
f_chiral_restr 0.079
f_angle_d 1.194
f_bond_d 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 32869
Nucleic Acid Atoms 0
Heterogen Atoms 329
Solvent Atoms 542

Software

Computing
Computing Package Purpose
MAR345dtb Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
molrep Structure Solution
PHENIX (phenix.refine: 1.7.2_869) Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.10 data extraction
phenix refinement
HKL data reduction