X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
Temperature 293.0
Details 0.0500M calcium chloride, 15.8000% polyethylene glycol 3350, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 53.51 α = 90
b = 53.51 β = 90
c = 223.75 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 325 mm CCD Flat mirror (vertical focusing) 2009-12-03
Diffraction Radiation
Monochromator Protocol
Single crystal Si(111) bent monochromator (horizontal focusing) MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL11-1 0.91837,0.97925,0.97883 SSRL BL11-1

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
1.88 28.89 96.3 0.063 -- -- 6.1 -- 27005 -- -3.0 27.317
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)
1.88 1.95 82.8 0.754 -- 1.3 4.5 --

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
MAD 1.88 28.893 -- 0.0 -- 26914 1350 97.98 -- 0.199 0.196 0.238 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 1.884 1.933 -- 88 1669 0.282 0.292 -- 88.56
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 38.951
Anisotropic B[1][1] 1.09
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.09
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.18
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.081
r_angle_other_deg 0.716
r_angle_refined_deg 1.07
r_gen_planes_refined 0.007
r_mcbond_other 0.461
r_bond_other_d 0.001
r_mcbond_it 1.662
r_mcangle_it 2.717
r_scbond_it 4.563
r_dihedral_angle_2_deg 28.805
r_dihedral_angle_3_deg 12.486
r_scangle_it 6.7
r_dihedral_angle_4_deg 15.896
r_dihedral_angle_1_deg 3.818
r_bond_refined_d 0.013
r_gen_planes_other 0.001
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2217
Nucleic Acid Atoms 0
Heterogen Atoms 27
Solvent Atoms 190

Software

Software
Software Name Purpose
REFMAC refinement version: 5.5.0110
PHENIX refinement
SHELX phasing
MolProbity model building version: 3beta29
XSCALE data scaling
PDB_EXTRACT data extraction version: 3.006
XDS data reduction
SHELXD phasing
autoSHARP phasing