X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 283.0
Details Compound soaked into crystal grown in equal volume of 500mM MES buffer (pH 6.0) and 25% MPD, vapor diffusion, hanging drop, temperature 283K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 50.97 α = 90
b = 74.66 β = 90
c = 106.58 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 QUANTUM 315r -- 2011-10-25
Diffraction Radiation
Monochromator Protocol
KOHZU DUAL DOUBLE CRYSTAL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.3.1 1.11587 ALS 8.3.1

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
1.17 39.2 96.6 0.056 -- -- 5.5 131945 131945 1.34 2.1 9.7
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)
1.17 1.2 71.8 0.369 -- 2.1 2.0 7157

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 1.17 39.2 -- 1.34 131943 131943 6324 96.58 -- 0.122 0.1212 0.1363 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 1.17 1.1858 -- 137 2919 0.2266 0.2158 -- 68.0
X Ray Diffraction 1.1858 1.1997 -- 162 3133 0.214 0.2648 -- 74.0
X Ray Diffraction 1.1997 1.2143 -- 205 3532 0.1984 0.2172 -- 82.0
X Ray Diffraction 1.2143 1.2297 -- 209 3685 0.1861 0.2209 -- 87.0
X Ray Diffraction 1.2297 1.2459 -- 223 3934 0.1749 0.1954 -- 92.0
X Ray Diffraction 1.2459 1.263 -- 203 4119 0.161 0.1747 -- 96.0
X Ray Diffraction 1.263 1.281 -- 217 4238 0.1459 0.1555 -- 99.0
X Ray Diffraction 1.281 1.3001 -- 230 4274 0.1368 0.1502 -- 100.0
X Ray Diffraction 1.3001 1.3204 -- 241 4247 0.1287 0.1761 -- 100.0
X Ray Diffraction 1.3204 1.3421 -- 250 4304 0.1198 0.1588 -- 100.0
X Ray Diffraction 1.3421 1.3652 -- 208 4254 0.1085 0.1239 -- 100.0
X Ray Diffraction 1.3652 1.3901 -- 221 4339 0.1049 0.1215 -- 100.0
X Ray Diffraction 1.3901 1.4168 -- 220 4272 0.0991 0.1252 -- 100.0
X Ray Diffraction 1.4168 1.4457 -- 210 4306 0.0976 0.1153 -- 100.0
X Ray Diffraction 1.4457 1.4772 -- 220 4314 0.0937 0.1227 -- 100.0
X Ray Diffraction 1.4772 1.5115 -- 217 4299 0.0891 0.1083 -- 100.0
X Ray Diffraction 1.5115 1.5493 -- 260 4294 0.0892 0.1071 -- 100.0
X Ray Diffraction 1.5493 1.5912 -- 207 4341 0.0861 0.1063 -- 100.0
X Ray Diffraction 1.5912 1.638 -- 231 4283 0.0865 0.1122 -- 100.0
X Ray Diffraction 1.638 1.6909 -- 244 4304 0.0931 0.1104 -- 100.0
X Ray Diffraction 1.6909 1.7513 -- 213 4328 0.0986 0.1259 -- 100.0
X Ray Diffraction 1.7513 1.8215 -- 208 4375 0.1022 0.1219 -- 100.0
X Ray Diffraction 1.8215 1.9044 -- 230 4309 0.1099 0.114 -- 100.0
X Ray Diffraction 1.9044 2.0048 -- 248 4338 0.1119 0.135 -- 100.0
X Ray Diffraction 2.0048 2.1304 -- 238 4351 0.1147 0.1207 -- 100.0
X Ray Diffraction 2.1304 2.2948 -- 236 4348 0.1147 0.1235 -- 100.0
X Ray Diffraction 2.2948 2.5257 -- 226 4382 0.1255 0.1487 -- 100.0
X Ray Diffraction 2.5257 2.8911 -- 240 4408 0.1359 0.1351 -- 100.0
X Ray Diffraction 2.8911 3.6421 -- 235 4447 0.1291 0.1464 -- 100.0
X Ray Diffraction 3.6421 39.1742 -- 247 4630 0.1341 0.1411 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 15.5727
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.009
f_bond_d 0.013
f_angle_d 1.424
f_dihedral_angle_d 14.144
f_chiral_restr 0.098
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2328
Nucleic Acid Atoms 0
Heterogen Atoms 57
Solvent Atoms 602

Software

Software
Software Name Purpose
XSCALE data scaling
PHASER phasing
PHENIX refinement version: 1.8.2_1309
PDB_EXTRACT data extraction version: 3.11
ADSC data collection version: Quantum