X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 293.0
Details 100 mM Tris, 25% (w/v) PEG 3350, 200 mM NaCl , pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 117.66 α = 90
b = 117.66 β = 90
c = 117.66 γ = 90
Symmetry
Space Group P 21 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 MIRRORS 2011-06-29
Diffraction Radiation
Monochromator Protocol
SI(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X29A 1.075 NSLS X29A

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
1.5 30 98.4 0.046 -- -- 6.7 -- 85345 -- -3.0 --
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)
1.5 1.55 91.5 0.219 -- 7.8 6.3 --

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
MOLECULAR REPLACEMENT 1.504 27.733 -- 0.0 -- 83052 4227 96.64 -- 0.1348 0.1334 0.1604 --
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 1.5043 1.5214 -- 128 2484 0.1401 0.1723 -- 92.0
X Ray Diffraction 1.5214 1.5393 -- 146 2518 0.1287 0.1739 -- 93.0
X Ray Diffraction 1.5393 1.558 -- 148 2528 0.1284 0.17 -- 94.0
X Ray Diffraction 1.558 1.5777 -- 126 2500 0.1269 0.1759 -- 94.0
X Ray Diffraction 1.5777 1.5985 -- 138 2579 0.1165 0.1491 -- 95.0
X Ray Diffraction 1.5985 1.6204 -- 140 2570 0.1163 0.1641 -- 95.0
X Ray Diffraction 1.6204 1.6435 -- 154 2549 0.114 0.1603 -- 95.0
X Ray Diffraction 1.6435 1.6681 -- 131 2597 0.1101 0.1659 -- 96.0
X Ray Diffraction 1.6681 1.6941 -- 130 2614 0.1097 0.1532 -- 96.0
X Ray Diffraction 1.6941 1.7219 -- 135 2601 0.106 0.1313 -- 97.0
X Ray Diffraction 1.7219 1.7516 -- 137 2659 0.111 0.1688 -- 97.0
X Ray Diffraction 1.7516 1.7834 -- 131 2627 0.1105 0.1335 -- 97.0
X Ray Diffraction 1.7834 1.8177 -- 148 2591 0.1059 0.1601 -- 97.0
X Ray Diffraction 1.8177 1.8548 -- 137 2647 0.1076 0.1397 -- 98.0
X Ray Diffraction 1.8548 1.8952 -- 157 2610 0.1131 0.1602 -- 97.0
X Ray Diffraction 1.8952 1.9392 -- 142 2677 0.118 0.1454 -- 99.0
X Ray Diffraction 1.9392 1.9877 -- 133 2682 0.1166 0.1525 -- 98.0
X Ray Diffraction 1.9877 2.0414 -- 138 2646 0.1199 0.1452 -- 98.0
X Ray Diffraction 2.0414 2.1015 -- 152 2661 0.1266 0.1482 -- 98.0
X Ray Diffraction 2.1015 2.1693 -- 149 2671 0.1226 0.144 -- 99.0
X Ray Diffraction 2.1693 2.2468 -- 132 2704 0.1239 0.1589 -- 99.0
X Ray Diffraction 2.2468 2.3367 -- 159 2670 0.128 0.1631 -- 99.0
X Ray Diffraction 2.3367 2.443 -- 129 2721 0.126 0.1806 -- 99.0
X Ray Diffraction 2.443 2.5717 -- 129 2692 0.1337 0.1843 -- 99.0
X Ray Diffraction 2.5717 2.7327 -- 135 2744 0.1336 0.1536 -- 99.0
X Ray Diffraction 2.7327 2.9435 -- 151 2713 0.14 0.1614 -- 99.0
X Ray Diffraction 2.9435 3.2393 -- 153 2720 0.1492 0.1639 -- 99.0
X Ray Diffraction 3.2393 3.7071 -- 147 2730 0.1422 0.1597 -- 99.0
X Ray Diffraction 3.7071 4.6669 -- 133 2636 0.1418 0.1408 -- 95.0
X Ray Diffraction 4.6669 27.7374 -- 159 2484 0.1925 0.1979 -- 87.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 0.0
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.0
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 13.251
f_bond_d 0.013
f_plane_restr 0.008
f_angle_d 1.577
f_chiral_restr 0.121
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3735
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 588

Software

Software
Software Name Purpose
CBASS data collection
COMO phasing
PHENIX refinement version: (phenix.refine: 1.7_650)
DENZO data reduction
SCALEPACK data scaling