X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 277.0
Details Tris, PEG 4000, MgCl2, IPTG, NaCl, pH 8., VAPOR DIFFUSION, HANGING DROP at 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 44.99 α = 90
b = 54.94 β = 90
c = 66.94 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X25 1.100 NSLS X25

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
1.55 34.7 99.9 0.042 0.042 -- 6.6 -- 22285 -- -3.0 --
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)
1.55 1.61 100.0 0.86 0.86 2.5 -- --

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 1.55 34.71 -- -- -- 22285 2396 100.0 -- 0.18102 0.17815 0.20731 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 1.55 1.634 -- 333 3182 0.236 0.272 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 12.877
Anisotropic B[1][1] 0.58
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.31
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.89
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_hbond_refined 0.095
r_nbd_other 0.238
r_xyhbond_nbd_refined 0.195
r_symmetry_vdw_other 0.28
r_nbd_refined 0.229
r_symmetry_vdw_refined 0.171
r_mcbond_it 0.903
r_bond_other_d 0.002
r_scbond_it 3.055
r_chiral_restr 0.122
r_gen_planes_refined 0.011
r_scangle_it 4.872
r_bond_refined_d 0.017
r_mcangle_it 1.7
r_gen_planes_other 0.001
r_angle_refined_deg 1.511
r_dihedral_angle_1_deg 4.712
r_angle_other_deg 0.881
r_nbtor_other 0.089
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1402
Nucleic Acid Atoms 0
Heterogen Atoms 30
Solvent Atoms 90

Software

Software
Software Name Purpose
HKL-2000 data collection
SCALEPACK data scaling
AMoRE phasing
REFMAC refinement version: 5.1.24
HKL-2000 data reduction