X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Hanging Drop
pH 6.5
Temperature 277.0
Details pH 6.5, hanging drop, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 402.09 α = 90
b = 402.09 β = 90
c = 173.25 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2010-02-06
Diffraction Radiation
Monochromator Protocol
Kohzu HLD8-24 monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 24-ID-C 0.979 APS 24-ID-C

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
3.69 30 98.2 0.132 -- -- 3.2 -- 148472 -- -- --
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)
3.69 3.76 97.3 0.589 -- 1.8 3.1 7228

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 3.69 29.842 -- 0.0 -- 140210 7073 92.66 -- 0.1757 0.1728 0.2314 --
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 3.69 3.7318 -- 201 3685 0.2685 0.3241 -- 79.0
X Ray Diffraction 3.7318 3.7756 -- 208 3910 0.2581 0.3436 -- 82.0
X Ray Diffraction 3.7756 3.8216 -- 202 3914 0.2442 0.3177 -- 83.0
X Ray Diffraction 3.8216 3.8699 -- 219 4009 0.2303 0.2919 -- 85.0
X Ray Diffraction 3.8699 3.9207 -- 208 4117 0.2171 0.2652 -- 87.0
X Ray Diffraction 3.9207 3.9743 -- 222 4150 0.2101 0.2599 -- 88.0
X Ray Diffraction 3.9743 4.0309 -- 263 4191 0.2169 0.2751 -- 89.0
X Ray Diffraction 4.0309 4.0909 -- 248 4201 0.2128 0.2639 -- 89.0
X Ray Diffraction 4.0909 4.1547 -- 250 4214 0.1991 0.2712 -- 90.0
X Ray Diffraction 4.1547 4.2226 -- 196 4402 0.1882 0.2466 -- 92.0
X Ray Diffraction 4.2226 4.2952 -- 205 4404 0.1663 0.2491 -- 92.0
X Ray Diffraction 4.2952 4.3731 -- 248 4416 0.1635 0.2239 -- 93.0
X Ray Diffraction 4.3731 4.4569 -- 232 4483 0.1644 0.2367 -- 94.0
X Ray Diffraction 4.4569 4.5476 -- 254 4514 0.1578 0.2139 -- 95.0
X Ray Diffraction 4.5476 4.6461 -- 246 4512 0.1574 0.206 -- 95.0
X Ray Diffraction 4.6461 4.7538 -- 221 4613 0.1523 0.2374 -- 96.0
X Ray Diffraction 4.7538 4.8722 -- 258 4601 0.1477 0.2041 -- 96.0
X Ray Diffraction 4.8722 5.0033 -- 227 4618 0.1393 0.2225 -- 97.0
X Ray Diffraction 5.0033 5.1498 -- 251 4632 0.1398 0.2009 -- 97.0
X Ray Diffraction 5.1498 5.3152 -- 236 4655 0.1378 0.2129 -- 98.0
X Ray Diffraction 5.3152 5.504 -- 247 4686 0.1305 0.1975 -- 98.0
X Ray Diffraction 5.504 5.7229 -- 264 4690 0.1377 0.2001 -- 98.0
X Ray Diffraction 5.7229 5.9814 -- 241 4739 0.1379 0.1991 -- 98.0
X Ray Diffraction 5.9814 6.2939 -- 271 4667 0.1428 0.2055 -- 98.0
X Ray Diffraction 6.2939 6.6841 -- 230 4744 0.1471 0.2166 -- 98.0
X Ray Diffraction 6.6841 7.1935 -- 244 4738 0.1431 0.213 -- 98.0
X Ray Diffraction 7.1935 7.9052 -- 234 4741 0.1422 0.1944 -- 97.0
X Ray Diffraction 7.9052 9.0213 -- 255 4644 0.1689 0.2126 -- 95.0
X Ray Diffraction 9.0213 11.2634 -- 244 4657 0.1789 0.2424 -- 94.0
X Ray Diffraction 11.2634 29.8431 -- 248 4590 0.227 0.2471 -- 90.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 127.001
Anisotropic B[1][1] -12.5355
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -12.5355
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 25.0709
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.073
f_dihedral_angle_d 17.604
f_angle_d 0.759
f_bond_d 0.005
f_plane_restr 0.004
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 19126
Nucleic Acid Atoms 32511
Heterogen Atoms 138
Solvent Atoms 0

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
PHENIX refinement version: 1.6.4_486
PDB_EXTRACT data extraction version: 3.10
HKL-2000 data collection