X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 277.0
Details PEG3350 24%, MES 0.025M, NaCl 0.1M, pH 6.5, vapor diffusion, sitting drop, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 58.25 α = 90
b = 84.12 β = 90.05
c = 83.96 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD CUSTOM-MADE -- 2006-08-15
Diffraction Radiation
Monochromator Protocol
SI111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-BM 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
1.68 20 98.6 0.077 -- -- 3.7 92084 90795 1.0 1.0 17.0
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)
1.68 1.74 96.9 0.467 -- -- 3.6 8849

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 1.68 20.0 -- 0.0 92093 90758 4543 98.55 0.1718 0.1718 0.1697 0.2112 RANDOM, 5%
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 1.68 1.724 -- 312 6157 0.22 0.26 -- 96.14
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 24.606
Anisotropic B[1][1] -0.35
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.25
Anisotropic B[2][2] 0.77
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.42
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.015
r_chiral_restr 0.131
r_mcangle_it 2.158
r_scangle_it 2.885
r_gen_planes_refined 0.009
r_mcbond_it 1.317
r_dihedral_angle_4_deg 18.715
r_dihedral_angle_1_deg 6.197
r_dihedral_angle_2_deg 31.621
r_angle_refined_deg 1.641
r_dihedral_angle_3_deg 13.952
r_scbond_it 1.88
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6282
Nucleic Acid Atoms 0
Heterogen Atoms 38
Solvent Atoms 815

Software

Software
Software Name Purpose
SCALEPACK data scaling
MOLREP phasing
REFMAC refinement
PDB_EXTRACT data extraction version: 3.10
SBC-Collect data collection
HKL-2000 data reduction
HKL-2000 data scaling