X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.6
Temperature 277.0
Details 34% PEG 550 MME, 0.1 M Tris pH 7.6, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 106.46 α = 90
b = 75.82 β = 90
c = 34.11 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD BRUKER SMART 6000 -- 2002-07-06
Diffraction Radiation
Monochromator Protocol
Yale mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU 1.5418 -- --

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
1.7 62 96.75 -- 0.0437 -- 6.53 31286 30268 0.0 0.0 16.071
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)
1.7 1.78 96.75 -- 0.0694 6.67 -- --

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 1.71 62.0 -- 0.0 30216 28694 1522 98.87 0.192 0.192 0.19 0.237 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 1.713 1.758 -- 107 1968 0.152 0.242 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 17.37
Anisotropic B[1][1] -0.84
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.07
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.77
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_it 1.214
r_dihedral_angle_1_deg 5.276
r_gen_planes_refined 0.005
r_nbd_other 0.238
r_scangle_it 3.286
r_angle_other_deg 0.791
r_bond_refined_d 0.011
r_bond_other_d 0.002
r_scbond_it 2.037
r_metal_ion_refined 0.292
r_symmetry_vdw_refined 0.181
r_symmetry_vdw_other 0.298
r_mcbond_it 0.671
r_angle_refined_deg 1.2
r_chiral_restr 0.075
r_nbd_refined 0.2
r_gen_planes_other 0.002
r_nbtor_other 0.082
r_xyhbond_nbd_refined 0.135
r_symmetry_hbond_refined 0.19
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2275
Nucleic Acid Atoms 0
Heterogen Atoms 6
Solvent Atoms 365

Software

Software
Software Name Purpose
SAINT data scaling
MOLREP phasing
REFMAC refinement version: 5.1.19
PDB_EXTRACT data extraction version: 3.005
PROTEUM PLUS data collection version: PLUS
SAINT data reduction