X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 291.0
Details PEG 8000, Tris-HCl, NaCl; PEG 400 as cryo protectant, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 51.3 α = 90
b = 83.2 β = 90
c = 110.4 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 MARRESEARCH -- 2000-07-10
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID13 0.964 ESRF ID13

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
2.07 19.7 91.0 0.049 -- -- 6.0 26918 26918 0.0 0.0 24.9
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)
2.07 2.11 50.4 0.182 -- 6.5 4.2 --

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 2.1 20.0 0.0 0.0 26887 26887 1369 91.2 0.1945 0.1945 0.1917 0.25 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 2.1 2.15 1211 63 -- 0.22 0.28 -- 59.81
X Ray Diffraction 2.15 2.21 1649 78 -- 0.21 0.3 -- 84.08
X Ray Diffraction 2.21 2.28 1625 91 -- 0.2 0.26 -- 84.37
X Ray Diffraction 2.28 2.35 1598 92 -- 0.2 0.25 -- 86.09
X Ray Diffraction 2.35 2.43 1562 94 -- 0.2 0.26 -- 86.48
X Ray Diffraction 2.43 2.52 1546 85 -- 0.2 0.31 -- 89.22
X Ray Diffraction 2.52 2.61 1555 85 -- 0.2 0.29 -- 91.62
X Ray Diffraction 2.61 2.72 1538 70 -- 0.2 0.33 -- 94.53
X Ray Diffraction 2.72 2.84 1541 96 -- 0.2 0.26 -- 97.15
X Ray Diffraction 2.84 2.99 1484 72 -- 0.19 0.3 -- 98.48
X Ray Diffraction 2.99 3.15 1433 88 -- 0.19 0.23 -- 99.35
X Ray Diffraction 3.15 3.35 1337 70 -- 0.2 0.27 -- 98.81
X Ray Diffraction 3.35 3.58 1296 63 -- 0.19 0.23 -- 99.41
X Ray Diffraction 3.58 3.89 1193 65 -- 0.19 0.27 -- 99.6
X Ray Diffraction 3.89 4.3 1133 57 -- 0.18 0.2 -- 99.25
X Ray Diffraction 4.3 4.82 996 63 -- 0.16 0.19 -- 99.53
X Ray Diffraction 4.82 5.68 933 46 -- 0.16 0.19 -- 99.69
X Ray Diffraction 5.68 7.01 798 42 -- 0.19 0.29 -- 100.0
X Ray Diffraction 7.07 11.18 641 39 -- 0.2 0.23 -- 100.0
X Ray Diffraction 11.18 19.7 449 10 -- 0.22 0.2 -- 98.92
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 13.96
Anisotropic B[1][1] -0.21
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.5
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.71
RMS Deviations
Key Refinement Restraint Deviation
p_scbond_it 2.263
p_mcbond_it 0.766
p_mcangle_it 1.282
p_angle_d 1.426
p_scangle_it 3.507
p_bond_d 0.014
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3185
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 462

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing
REFMAC refinement