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 and 25% MPD

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 51.46 α = 90
b = 76.95 β = 90
c = 107.71 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 273
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2011-09-27
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 0.95372 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
1.57 39.76 99.6 0.053 -- -- 4.3 -- 60219 -- -3.0 17.76
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)
1.57 1.61 99.8 0.555 -- 2.4 4.2 --

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 1.57 39.76 -- 1.35 -- 60160 3040 99.5 -- 0.11 0.108 0.14 Random selection
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 1.57 1.5945 -- 150 2540 0.1696 0.1975 -- 100.0
X Ray Diffraction 1.5945 1.6207 -- 140 2555 0.1638 0.2161 -- 100.0
X Ray Diffraction 1.6207 1.6486 -- 141 2552 0.1493 0.1928 -- 100.0
X Ray Diffraction 1.6486 1.6786 -- 154 2589 0.1548 0.1954 -- 100.0
X Ray Diffraction 1.6786 1.7109 -- 132 2602 0.1459 0.1772 -- 100.0
X Ray Diffraction 1.7109 1.7458 -- 134 2540 0.1306 0.1293 -- 100.0
X Ray Diffraction 1.7458 1.7838 -- 134 2582 0.1246 0.1614 -- 100.0
X Ray Diffraction 1.7838 1.8253 -- 122 2585 0.1123 0.1532 -- 100.0
X Ray Diffraction 1.8253 1.8709 -- 153 2564 0.1002 0.1581 -- 100.0
X Ray Diffraction 1.8709 1.9215 -- 142 2606 0.0969 0.1212 -- 100.0
X Ray Diffraction 1.9215 1.978 -- 152 2564 0.0938 0.1228 -- 100.0
X Ray Diffraction 1.978 2.0419 -- 143 2563 0.0936 0.1455 -- 100.0
X Ray Diffraction 2.0419 2.1149 -- 131 2584 0.0981 0.1319 -- 100.0
X Ray Diffraction 2.1149 2.1995 -- 136 2604 0.0932 0.1407 -- 100.0
X Ray Diffraction 2.1995 2.2996 -- 114 2623 0.097 0.1288 -- 100.0
X Ray Diffraction 2.2996 2.4209 -- 147 2580 0.102 0.1291 -- 100.0
X Ray Diffraction 2.4209 2.5725 -- 137 2636 0.1119 0.1322 -- 99.0
X Ray Diffraction 2.5725 2.7711 -- 142 2584 0.1139 0.1477 -- 99.0
X Ray Diffraction 2.7711 3.0499 -- 139 2620 0.1112 0.1415 -- 99.0
X Ray Diffraction 3.0499 3.4909 -- 120 2658 0.1078 0.1309 -- 99.0
X Ray Diffraction 3.4909 4.3973 -- 136 2639 0.0919 0.1148 -- 98.0
X Ray Diffraction 4.3973 39.7685 -- 141 2750 0.1112 0.1467 -- 97.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.52
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.01
f_chiral_restr 0.108
f_bond_d 0.017
f_angle_d 1.592
f_dihedral_angle_d 15.167
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2328
Nucleic Acid Atoms 0
Heterogen Atoms 52
Solvent Atoms 295

Software

Software
Software Name Purpose
PHENIX refinement
xia2 data reduction version: 0.3.3.3
PHASER phasing
PDB_EXTRACT data extraction version: 3.15