X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.4
Temperature 298.0
Details PEG 5000, NaCl, Tris HCl, galactose, pH 8.4, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 101.36 α = 90
b = 114.72 β = 90
c = 45.59 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD CUSTOM-MADE -- 1999-12-12
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 1.0332 APS 19-ID

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 22 99.7 0.061 -- -- 6.9 36777 36777 -- -- 15.5
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)
2.0 2.07 99.3 0.16 -- -- 6.0 3632

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 2.0 20.0 -- -- 36607 34780 1827 -- -- -- 0.179 0.239 RANDOM
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 2.0 2.0943 -- 221 4404 0.153 0.22 -- --
X Ray Diffraction 2.094 2.1978 -- 224 4011 0.142 0.231 -- --
X Ray Diffraction 2.198 2.3122 -- 192 3671 0.145 0.215 -- --
X Ray Diffraction 2.312 2.4391 -- 170 3282 0.145 0.244 -- --
X Ray Diffraction 2.439 2.5807 -- 146 2987 0.15 0.208 -- --
X Ray Diffraction 2.581 2.7398 -- 146 2662 0.161 0.251 -- --
X Ray Diffraction 2.74 2.9198 -- 118 2338 0.161 0.234 -- --
X Ray Diffraction 2.92 3.1251 -- 111 2080 0.167 0.298 -- --
X Ray Diffraction 3.125 3.3614 -- 91 1804 0.179 0.255 -- --
X Ray Diffraction 3.361 3.6364 -- 79 1567 0.179 0.219 -- --
X Ray Diffraction 3.636 3.9605 -- 65 1346 0.182 0.178 -- --
X Ray Diffraction 3.96 4.3479 -- 62 1110 0.184 0.187 -- --
X Ray Diffraction 4.348 4.8194 -- 54 932 0.195 0.184 -- --
X Ray Diffraction 4.819 5.4055 -- 47 750 0.219 0.299 -- --
X Ray Diffraction 5.405 6.1539 -- 36 595 0.288 0.312 -- --
X Ray Diffraction 6.154 7.143 -- 24 456 0.34 0.457 -- --
X Ray Diffraction 7.143 8.5107 -- 24 337 0.35 0.438 -- --
X Ray Diffraction 8.511 10.5264 -- 9 223 0.418 0.29 -- --
X Ray Diffraction 10.526 13.7932 -- 7 144 0.399 0.501 -- --
X Ray Diffraction 13.793 20.0 -- 1 81 0.408 0.205 -- --
RMS Deviations
Key Refinement Restraint Deviation
p_scangle_it 5.288
p_scbond_it 3.833
p_mcangle_it 3.891
p_bond_d 0.011
p_angle_d 0.03
p_planar_d 0.032
p_plane_restr 0.003
p_chiral_restr 0.111
p_singtor_nbd 0.176
p_multtor_nbd 0.246
p_xyhbond_nbd 0.136
p_planar_tor 3.96
p_staggered_tor 14.898
p_orthonormal_tor 30.458
p_mcbond_it 2.962
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4045
Nucleic Acid Atoms 0
Heterogen Atoms 48
Solvent Atoms 446

Software

Computing
Computing Package Purpose
D*TREK Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
AMORE Structure Solution
REFMAC Structure Refinement
Software
Software Name Purpose
refmac version: refmac_4.0.0 01/12/1999 refinement