X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.2
Temperature 293.0
Details 20% PEG 3350 in 0.2 M ammonium sulfate and 25 mM HEPES pH 7.2. , VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 43.6 α = 90
b = 32.47 β = 94.1
c = 49.97 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
2 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2004-04-22
CCD ADSC QUANTUM 210 -- 2004-04-27
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
SI(111) CHANNEL CULT MONOCHROMAT SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 8-BM 0.979 APS 8-BM
SYNCHROTRON NSLS BEAMLINE X6A 1.0 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
1.3 30 95.87 0.1 0.08 -- 4.3 42420 34350 4.0 2.0 --
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)
1.35 1.42 -- -- -- -- -- --

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 1.301 9.983 -- 0.0 42420 33058 1921 95.87 -- 0.1433 0.1424 0.1582 --
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 1.301 1.3334 -- 125 2014 0.2117 0.2557 -- 88.0
X Ray Diffraction 1.3334 1.3694 -- 124 2104 0.1761 0.2206 -- 91.0
X Ray Diffraction 1.3694 1.4095 -- 149 2096 0.1538 0.1948 -- 92.0
X Ray Diffraction 1.4095 1.4549 -- 132 2170 0.1367 0.1586 -- 94.0
X Ray Diffraction 1.4549 1.5067 -- 134 2182 0.112 0.1571 -- 95.0
X Ray Diffraction 1.5067 1.5668 -- 138 2225 0.1094 0.1294 -- 96.0
X Ray Diffraction 1.5668 1.6379 -- 129 2242 0.1061 0.1274 -- 97.0
X Ray Diffraction 1.6379 1.7238 -- 145 2263 0.1046 0.1377 -- 98.0
X Ray Diffraction 1.7238 1.8312 -- 135 2249 0.111 0.1282 -- 97.0
X Ray Diffraction 1.8312 1.9716 -- 137 2234 0.1295 0.1428 -- 97.0
X Ray Diffraction 1.9716 2.1681 -- 148 2352 0.1373 0.153 -- 100.0
X Ray Diffraction 2.1681 2.4777 -- 144 2297 0.148 0.1728 -- 99.0
X Ray Diffraction 2.4777 3.1059 -- 138 2315 0.1635 0.1685 -- 99.0
X Ray Diffraction 3.1059 9.9837 -- 143 2394 0.1606 0.1549 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 1.6885
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.9309
Anisotropic B[2][2] -2.4434
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.7549
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.085
f_dihedral_angle_d 13.468
f_angle_d 1.217
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1024
Nucleic Acid Atoms 0
Heterogen Atoms 24
Solvent Atoms 222

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AutoMR Structure Solution
PHENIX (phenix.refine: 1.7_650) Structure Refinement
Software
Software Name Purpose
Phenix version: (phenix.refine: 1.7_650) refinement
AutoMR model building
ADSC version: Quantum data collection