X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.6
Details HANGING DROP CRYSTALLIZATION CRYSTALS FORM IN A 3 UL (RESERVOIR) + 1 UL (PROTEIN AT 15 MG/ML) DROP WITH RESERVOIR 0.1 M NA CITRATE PH 5.6, 3% ETHANOL, 15 % PEG 4000). ADDITION OF 6 UL OF RESERVOIR AND 1 UL OF 50 MM TRIMETHYL LEAD ACETATE CAUSES CRYSTAL DISSOLUTION AND GROWTH OF CRYSTALS WITH DIFFERENT HABIT FROM WHICH THE STRUCTURE WAS SOLVED.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 64.62 α = 90
b = 106.24 β = 90
c = 175.43 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD -- -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 -- ESRF ID14-4

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
2.15 15 99.7 0.061 -- -- 3.7 -- 33084 -- -- --
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)
2.15 2.23 99.8 0.396 -- -- -- --

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
OTHER 2.15 15.0 -- -- -- 28344 3117 94.9 -- 0.198 0.194 0.235 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 2.15 2.21 -- 195 1939 0.214 0.262 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 15.39
Anisotropic B[1][1] 0.92
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.3
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.22
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 2.775
r_scbond_it 1.75
r_mcangle_it 0.9
r_mcbond_it 0.492
r_nbd_refined 0.239
r_gen_planes_other 0.003
r_gen_planes_refined 0.006
r_chiral_restr 0.086
r_dihedral_angle_3_deg 16.77
r_dihedral_angle_1_deg 4.685
r_angle_other_deg 0.764
r_angle_refined_deg 1.554
r_bond_other_d 0.001
r_bond_refined_d 0.016
r_nbd_other 0.217
r_xyhbond_nbd_refined 0.187
r_xyhbond_nbd_other 0.109
r_symmetry_vdw_refined 0.355
r_symmetry_vdw_other 0.418
r_symmetry_hbond_refined 0.168
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4212
Nucleic Acid Atoms 0
Heterogen Atoms 20
Solvent Atoms 304

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
REFMAC 5.0 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.0 refinement