X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8
Details 1.8 M LI2SO4, 100MM TRIS, 1MM MNCL, 10 MM BETAINE, 10% 2-METHYL-2,4-PENTANDIOLE, pH 8.00

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 97.69 α = 90
b = 97.69 β = 90
c = 312.05 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH MIRRORS, TRIANGULAR MONOCHROMATOR 2002-11-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B -- EMBL/DESY, Hamburg BW7B

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 30 95.1 0.069 -- -- 3.2 -- 89316 -- 0.0 --
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)
2.1 2.18 95.6 0.267 -- 4.7 3.3 --

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 2.1 19.96 -- -- -- 80645 4255 95.3 -- 0.159 0.156 0.205 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 -- 312 5849 0.191 0.246 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 22.26
Anisotropic B[1][1] 0.03
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.03
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.07
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.01
r_symmetry_vdw_refined 0.181
r_scangle_it 4.709
r_angle_other_deg 0.922
r_nbd_refined 0.208
r_symmetry_hbond_refined 0.239
r_nbd_other 0.252
r_symmetry_vdw_other 0.291
r_chiral_restr 0.114
r_xyhbond_nbd_refined 0.201
r_mcangle_it 1.754
r_bond_refined_d 0.022
r_dihedral_angle_1_deg 6.581
r_angle_refined_deg 1.743
r_nbtor_other 0.089
r_mcbond_it 0.97
r_bond_other_d 0.002
r_gen_planes_other 0.012
r_scbond_it 2.933
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8194
Nucleic Acid Atoms 0
Heterogen Atoms 22
Solvent Atoms 916

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing
BEAST phasing
REFMAC refinement version: 5.1.19