X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.5
Temperature 293.0
Details 2.0 M (NH4)2SO4, 0.1 M NH4I, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 154.15 α = 90
b = 34.56 β = 97.99
c = 93.14 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD mirrors 2012-05-18
Diffraction Radiation
Monochromator Protocol
KMC-1 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.1 -- BESSY 14.1

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
2.1 38.16 91.3 0.06 -- -- 3.7 29081 26553 0.0 -3.0 41.8
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)
2.1 2.1841 86.3 0.496 -- 2.58 2.7 3770

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 38.1 -- 1.35 29081 26475 1325 91.08 -- 0.2188 0.2161 0.2715 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 2.1841 -- 139 2617 0.3239 0.3961 -- 86.0
X Ray Diffraction 2.1841 2.2835 -- 69 1330 0.4253 0.4663 -- 44.0
X Ray Diffraction 2.2835 2.4039 -- 153 2892 0.2797 0.3934 -- 97.0
X Ray Diffraction 2.4039 2.5544 -- 159 3017 0.2774 0.3749 -- 99.0
X Ray Diffraction 2.5544 2.7516 -- 159 3025 0.2662 0.3637 -- 99.0
X Ray Diffraction 2.7516 3.0284 -- 159 3021 0.2386 0.2881 -- 99.0
X Ray Diffraction 3.0284 3.4664 -- 160 3040 0.2158 0.2708 -- 99.0
X Ray Diffraction 3.4664 4.3663 -- 160 3050 0.1715 0.2038 -- 98.0
X Ray Diffraction 4.3663 38.1701 -- 167 3158 0.1776 0.2227 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 34.8
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.01
f_chiral_restr 0.105
f_dihedral_angle_d 16.449
f_angle_d 1.81
f_bond_d 0.019
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3842
Nucleic Acid Atoms 0
Heterogen Atoms 1
Solvent Atoms 124

Software

Computing
Computing Package Purpose
XDS Data Collection
XDS Data Reduction (intensity integration)
XDS Data Reduction (data scaling)
MolRep Structure Solution
PHENIX (phenix.refine: 1.8.1_1168) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.8.1_1168) refinement
MolRep model building
XDS data collection