X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

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

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 79.22 α = 90
b = 79.22 β = 90
c = 79.22 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 2004-07-05
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
2.3 35.43 99.8 0.07 -- -- 5.14 -- 3912 -- 2.0 --

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 2.3 55.9 -- -- -- 3912 189 99.4 -- 0.234 0.231 0.295 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 2.3 2.36 -- 16 273 0.234 0.348 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 39.41
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 8.637
r_scbond_it 5.358
r_mcangle_it 3.538
r_mcbond_it 2.022
r_nbd_refined 0.233
r_gen_planes_other 0.008
r_gen_planes_refined 0.015
r_chiral_restr 0.17
r_dihedral_angle_1_deg 7.282
r_angle_other_deg 1.245
r_angle_refined_deg 3.313
r_bond_other_d 0.003
r_bond_refined_d 0.048
r_nbd_other 0.254
r_nbtor_other 0.117
r_xyhbond_nbd_refined 0.059
r_symmetry_vdw_refined 0.269
r_symmetry_vdw_other 0.283
r_symmetry_hbond_refined 0.39
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)
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement