X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 6.9
Temperature 298.0
Details 16-20% PEG MME 2000, 100mM MES, pH 6.9, vapor diffusion, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 96.22 α = 90
b = 116.55 β = 90
c = 275.71 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 RAYONIX MX-300 -- --
Diffraction Radiation
Monochromator Protocol
graphite SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-D 0.9786 APS 21-ID-D

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
2.28 72.17 94.1 0.104 -- -- 6.4 -- 141183 -- -- --
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)
2.282 2.49 87.6 0.643 -- -- 6.6 --

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 2.282 72.166 -- 1.34 -- 141182 7077 99.8 -- 0.2265 0.2241 0.2702 --
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 2.282 2.3078 -- 217 4413 0.3172 0.3489 -- 100.0
X Ray Diffraction 2.3078 2.335 -- 257 4442 0.3227 0.369 -- 100.0
X Ray Diffraction 2.335 2.3634 -- 206 4431 0.3285 0.3743 -- 100.0
X Ray Diffraction 2.3634 2.3934 -- 222 4445 0.3287 0.3782 -- 100.0
X Ray Diffraction 2.3934 2.4248 -- 258 4377 0.3112 0.3782 -- 100.0
X Ray Diffraction 2.4248 2.4581 -- 255 4376 0.2999 0.3405 -- 100.0
X Ray Diffraction 2.4581 2.4932 -- 209 4470 0.3092 0.3341 -- 100.0
X Ray Diffraction 2.4932 2.5304 -- 243 4461 0.3039 0.4001 -- 100.0
X Ray Diffraction 2.5304 2.5699 -- 254 4368 0.299 0.3441 -- 100.0
X Ray Diffraction 2.5699 2.6121 -- 219 4479 0.2898 0.3363 -- 100.0
X Ray Diffraction 2.6121 2.6571 -- 244 4419 0.2907 0.3595 -- 100.0
X Ray Diffraction 2.6571 2.7054 -- 233 4448 0.2783 0.3251 -- 100.0
X Ray Diffraction 2.7054 2.7575 -- 239 4441 0.2807 0.3461 -- 100.0
X Ray Diffraction 2.7575 2.8138 -- 216 4438 0.2705 0.3516 -- 100.0
X Ray Diffraction 2.8138 2.875 -- 231 4431 0.2685 0.3084 -- 100.0
X Ray Diffraction 2.875 2.9418 -- 235 4460 0.2682 0.3282 -- 100.0
X Ray Diffraction 2.9418 3.0154 -- 240 4481 0.2591 0.295 -- 100.0
X Ray Diffraction 3.0154 3.0969 -- 226 4461 0.2541 0.3008 -- 100.0
X Ray Diffraction 3.0969 3.1881 -- 258 4420 0.246 0.2977 -- 100.0
X Ray Diffraction 3.1881 3.291 -- 250 4448 0.2478 0.3346 -- 100.0
X Ray Diffraction 3.291 3.4086 -- 207 4517 0.2389 0.3316 -- 100.0
X Ray Diffraction 3.4086 3.5451 -- 229 4482 0.2272 0.2762 -- 100.0
X Ray Diffraction 3.5451 3.7064 -- 257 4475 0.2101 0.262 -- 100.0
X Ray Diffraction 3.7064 3.9018 -- 261 4459 0.2049 0.2419 -- 100.0
X Ray Diffraction 3.9018 4.1462 -- 229 4520 0.1931 0.2214 -- 100.0
X Ray Diffraction 4.1462 4.4663 -- 238 4511 0.1718 0.2324 -- 100.0
X Ray Diffraction 4.4663 4.9157 -- 229 4551 0.1599 0.2097 -- 100.0
X Ray Diffraction 4.9157 5.6268 -- 248 4571 0.1737 0.1997 -- 100.0
X Ray Diffraction 5.6268 7.0882 -- 216 4626 0.1958 0.2131 -- 100.0
X Ray Diffraction 7.0882 72.2025 -- 251 4684 0.1792 0.197 -- 97.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 26.773
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.076
f_bond_d 0.005
f_plane_restr 0.005
f_angle_d 0.887
f_dihedral_angle_d 16.233
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 19310
Nucleic Acid Atoms 0
Heterogen Atoms 354
Solvent Atoms 129

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
PHENIX refinement version: 1.8_1069
PDB_EXTRACT data extraction version: 3.11
HKL-2000 data reduction
HKL-2000 data scaling
PHASER phasing