X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 10
Details HANGING DROP, 1UL OF 1MG/ML PEPTIDE IN WATER, 1UL 100MM CAPS, 30% PEG 400, PH 10.5.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 35.24 α = 90
b = 35.24 β = 90
c = 104.65 γ = 90
Symmetry
Space Group P 42 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 93
Diffraction Detector
Detector Diffraction Type Details Collection Date
-- -- CONFOCAL 2004-05-29
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
2.16 34.88 100.0 0.05 -- -- 5.37 -- 3960 -- 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)
2.16 2.24 97.6 0.22 -- 6.5 5.01 --

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 2.16 51.99 -- -- -- 3754 176 99.4 -- 0.305 0.304 0.337 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 2.16 2.22 -- 10 268 0.229 0.282 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 40.43
Anisotropic B[1][1] 1.16
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.16
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.32
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.093
r_scbond_it 2.437
r_mcangle_it 1.655
r_mcbond_it 0.891
r_nbd_refined 0.209
r_gen_planes_other 0.004
r_gen_planes_refined 0.006
r_chiral_restr 0.068
r_dihedral_angle_1_deg 4.729
r_angle_other_deg 0.876
r_angle_refined_deg 1.526
r_bond_other_d 0.002
r_bond_refined_d 0.018
r_nbd_other 0.218
r_nbtor_other 0.194
r_xyhbond_nbd_refined 0.285
r_symmetry_vdw_refined 0.205
r_symmetry_vdw_other 0.286
r_symmetry_hbond_refined 0.02
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 491
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 2

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