X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.6
Temperature 293.0
Details 2M ammonium sulfate, 0.1M tri-sodium citrate dihydrate pH 5.6, 0.2M potassium sodium tartrate tetrahydrate, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K, pH 5.60

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 100.11 α = 90
b = 100.11 β = 90
c = 100.11 γ = 90
Symmetry
Space Group P 43 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD APS-1 WATER COOLED FOCUSING 2ND CRYSTAL, ROSENBAUM-ROCK VERTICAL FOCUSING MIRROR 2002-10-27
Diffraction Radiation
Monochromator Protocol
ROSENBAUM-ROCK DOUBLE-CRYSTAL MONOCHROMATOR SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-BM 0.97914, 0.97934 APS 19-BM

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
2.5 50 100.0 -- 0.109 -- 43.83 -- 6359 -- -- 51.99
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)
2.5 2.59 100.0 -- 0.588 10.64 0.57 --

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
SAD 2.5 44.77 -- -- -- 5544 787 100.0 -- 0.19 0.184 0.229 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 2.5 2.57 -- 76 371 0.171 0.247 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model ISOTROPIC
Mean Isotropic B 35.09
RMS Deviations
Key Refinement Restraint Deviation
r_angle_other_deg 0.873
r_chiral_restr 0.092
r_scbond_it 2.586
r_angle_refined_deg 1.784
r_dihedral_angle_2_deg 30.257
r_bond_refined_d 0.018
r_dihedral_angle_4_deg 25.487
r_dihedral_angle_1_deg 6.913
r_dihedral_angle_3_deg 17.152
r_symmetry_vdw_refined 0.178
r_nbtor_other 0.091
r_symmetry_hbond_refined 0.171
r_mcangle_it 1.685
r_nbd_refined 0.241
r_mcbond_it 0.858
r_xyhbond_nbd_refined 0.2
r_gen_planes_refined 0.006
r_nbd_other 0.19
r_scangle_it 4.231
r_bond_other_d 0.001
r_symmetry_vdw_other 0.222
r_gen_planes_other 0.001
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 703
Nucleic Acid Atoms 0
Heterogen Atoms 37
Solvent Atoms 39

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
RESOLVE model building
SOLVE phasing
REFMAC refinement version: 5.1.9999
RESOLVE/SOLVE phasing