X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 293.0
Details 22% PEG 3350, 50 mM Tris-HCl, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 58.41 α = 90
b = 88.32 β = 90
c = 89.11 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 270 -- 2010-08-10
Diffraction Radiation
Monochromator Protocol
Si(111) channel cut monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X6A 0.97 NSLS X6A

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 15 90.1 -- 0.059 -- 4.2 -- 222826 -- -- --
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)
1.0 1.04 71.5 -- 0.573 -- 3.3 --

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
SAD 1.0 14.992 -- 0.0 -- 222826 3486 81.88 -- 0.1329 0.1328 0.1418 --
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 1.0004 1.0141 -- 76 8853 0.2787 0.2935 -- 46.0
X Ray Diffraction 1.0141 1.0286 -- 92 10556 0.2597 0.2349 -- 56.0
X Ray Diffraction 1.0286 1.0439 -- 106 11785 0.2604 0.2465 -- 62.0
X Ray Diffraction 1.0439 1.0602 -- 118 12486 0.2239 0.2225 -- 66.0
X Ray Diffraction 1.0602 1.0776 -- 127 13418 0.2033 0.2339 -- 70.0
X Ray Diffraction 1.0776 1.0962 -- 117 13990 0.19 0.2234 -- 73.0
X Ray Diffraction 1.0962 1.1161 -- 114 14291 0.1614 0.1625 -- 75.0
X Ray Diffraction 1.1161 1.1376 -- 123 14773 0.1487 0.1567 -- 77.0
X Ray Diffraction 1.1376 1.1608 -- 143 15059 0.142 0.1847 -- 79.0
X Ray Diffraction 1.1608 1.186 -- 144 15368 0.138 0.1444 -- 81.0
X Ray Diffraction 1.186 1.2136 -- 135 15644 0.1316 0.1466 -- 82.0
X Ray Diffraction 1.2136 1.2439 -- 151 15936 0.1326 0.1469 -- 84.0
X Ray Diffraction 1.2439 1.2775 -- 153 16195 0.1299 0.1712 -- 85.0
X Ray Diffraction 1.2775 1.3151 -- 138 16601 0.1252 0.131 -- 87.0
X Ray Diffraction 1.3151 1.3575 -- 143 16903 0.1339 0.1445 -- 88.0
X Ray Diffraction 1.3575 1.406 -- 150 17041 0.1218 0.1431 -- 90.0
X Ray Diffraction 1.406 1.4623 -- 165 17403 0.1133 0.1206 -- 91.0
X Ray Diffraction 1.4623 1.5288 -- 156 17677 0.1053 0.1167 -- 93.0
X Ray Diffraction 1.5288 1.6093 -- 155 17893 0.1012 0.105 -- 94.0
X Ray Diffraction 1.6093 1.71 -- 173 17650 0.1144 0.1212 -- 93.0
X Ray Diffraction 1.71 1.8418 -- 152 18174 0.1097 0.1167 -- 95.0
X Ray Diffraction 1.8418 2.0267 -- 172 18327 0.1127 0.1165 -- 96.0
X Ray Diffraction 2.0267 2.3191 -- 169 18654 0.1119 0.1112 -- 98.0
X Ray Diffraction 2.3191 2.9182 -- 165 18584 0.1229 0.136 -- 98.0
X Ray Diffraction 2.9182 14.9933 -- 149 16876 0.1509 0.1538 -- 89.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 0.4858
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.7572
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.243
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.163
f_bond_d 0.005
f_dihedral_angle_d 11.383
f_plane_restr 0.005
f_chiral_restr 0.072
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3466
Nucleic Acid Atoms 0
Heterogen Atoms 35
Solvent Atoms 1017

Software

Software
Software Name Purpose
ADSC data collection version: Quantum
SOLVE phasing
PHENIX refinement version: (phenix.refine: 1.7_650)
HKL-2000 data reduction
HKL-2000 data scaling