X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 303.0
Details 1.7M (NH4)2SO4, 2.4% v/v PEG 400, 0.1M PIPES, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 303K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 48.55 α = 90
b = 48.55 β = 90
c = 131.64 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 295
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD BRUKER SMART 6000 mirrors 2004-07-01
Diffraction Radiation
Monochromator Protocol
mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE MACSCIENCE 1.5418 -- --

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
1.75 48.54 99.7 0.063 -- -- 19.9 16731 16731 0.0 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)
1.75 1.83 100.0 0.3 -- 1.9 -- 2100

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
FOURIER SYNTHESIS 1.75 20.0 0.0 -- -- 15805 842 99.98 -- 0.16388 0.16262 0.18773 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 1.75 1.795 -- 59 1135 0.205 0.256 -- 99.67
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 14.988
Anisotropic B[1][1] 0.06
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.06
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.12
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_2_deg 32.201
r_symmetry_hbond_refined 0.111
r_mcangle_it 1.253
r_scbond_it 2.071
r_bond_refined_d 0.009
r_symmetry_vdw_refined 0.147
r_mcbond_it 0.788
r_chiral_restr 0.09
r_nbtor_refined 0.307
r_scangle_it 3.056
r_dihedral_angle_3_deg 12.296
r_xyhbond_nbd_refined 0.132
r_dihedral_angle_1_deg 6.145
r_angle_refined_deg 1.304
r_gen_planes_refined 0.004
r_dihedral_angle_4_deg 8.704
r_nbd_refined 0.202
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1280
Nucleic Acid Atoms 0
Heterogen Atoms 27
Solvent Atoms 133

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0005
PROTEUM PLUS data collection version: PLUS
SAINT data reduction
LSCALE data scaling
AMoRE phasing