X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop Nanodrop
pH 9
Temperature 277.0
Details 2.4M ammonium sulfate, 0.1M bicine pH 9.0, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 134.08 α = 90
b = 87.41 β = 115.29
c = 90.83 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 bent conical Si-mirror (Rh coating) 2003-04-24
Diffraction Radiation
Monochromator Protocol
bent cylindrical Ge(111) monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 14-BM-C -- APS 14-BM-C

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 50 100.0 -- 0.102 -- 3.72 41796 41796 -- -- 51.25
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)
2.3 2.38 99.71 -- 0.752 1.49 3.66 4138

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 30.93 -- -- -- 39885 2126 99.68 -- 0.17004 0.16658 0.23635 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 -- 161 2826 0.25 0.328 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model ISOTROPIC
Mean Isotropic B 45.165
Anisotropic B[1][1] -0.39
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.13
Anisotropic B[2][2] 0.53
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.25
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.006
r_nbd_refined 0.19
r_symmetry_vdw_refined 0.175
r_scangle_it 3.466
r_dihedral_angle_2_deg 33.392
r_bond_other_d 0.002
r_dihedral_angle_1_deg 6.566
r_gen_planes_other 0.003
r_symmetry_hbond_refined 0.196
r_dihedral_angle_4_deg 17.785
r_angle_other_deg 0.915
r_xyhbond_nbd_refined 0.184
r_bond_refined_d 0.018
r_scbond_it 2.216
r_chiral_restr 0.096
r_mcbond_it 0.966
r_angle_refined_deg 1.702
r_dihedral_angle_3_deg 17.403
r_nbd_other 0.188
r_nbtor_other 0.091
r_mcangle_it 1.39
r_symmetry_vdw_other 0.17
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6554
Nucleic Acid Atoms 0
Heterogen Atoms 129
Solvent Atoms 355

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
MOLREP phasing
REFMAC refinement version: 5.1.9999