X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Details HANGING DROP, 1 UL OF 10 MG/ML PEPTIDE IN WATER TO 1 UL OF 2M NACL 10% PEG 6K.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 78.4 α = 90
b = 78.4 β = 90
c = 78.4 γ = 90
Symmetry
Space Group P 41 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 93
Diffraction Detector
Detector Diffraction Type Details Collection Date
-- -- CONFOCAL 2004-07-06
Diffraction Radiation
Monochromator Protocol
NI FILTER SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200 -- -- --

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
2.17 39.2 100.0 0.08 -- -- 7.39 -- 4747 -- 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)
2.17 2.25 98.7 0.45 -- 4.0 6.82 --

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 2.17 55.05 -- -- -- 4505 216 99.7 -- 0.269 0.268 0.292 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 2.17 2.23 -- 14 324 0.388 0.384 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 46.69
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.457
r_scbond_it 2.541
r_mcangle_it 2.043
r_mcbond_it 1.007
r_nbd_refined 0.199
r_gen_planes_other 0.005
r_gen_planes_refined 0.004
r_chiral_restr 0.071
r_angle_other_deg 0.747
r_angle_refined_deg 1.302
r_bond_other_d 0.002
r_bond_refined_d 0.014
r_nbd_other 0.224
r_nbtor_other 0.093
r_xyhbond_nbd_refined 0.314
r_symmetry_vdw_refined 0.218
r_symmetry_vdw_other 0.174
r_symmetry_hbond_refined 1.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 539
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 3

Software

Computing
Computing Package Purpose
CRYSTALCLEAR (MSC/RIGAKU) Data Reduction (intensity integration)
CRYSTALCLEAR (MSC/RIGAKU) Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement
MOLREP model building