X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5
Temperature 291.0
Details PEG4000, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 58.58 α = 90
b = 58.58 β = 90
c = 393.93 γ = 120
Symmetry
Space Group P 61 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2011-11-11
Diffraction Radiation
Monochromator Protocol
Si(111) channel cut SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X6A 0.979 NSLS X6A

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
2.65 65.66 95.7 0.105 -- -- 14.2 -- 12287 -- -- --
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)
2.65 2.7 99.8 0.473 -- -- 13.6 612

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
FOURIER SYNTHESIS 2.65 28.969 -- 0.0 -- 12120 587 95.1 -- 0.2351 0.2317 0.3082 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 2.65 2.792 -- 104 1651 0.294 0.377 -- 98.54
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 51.3117
Anisotropic B[1][1] 0.68
Anisotropic B[1][2] 0.34
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.68
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.01
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 1.622
r_scbond_it 0.962
r_mcangle_it 0.728
r_mcbond_it 0.383
r_gen_planes_refined 0.004
r_chiral_restr 0.077
r_dihedral_angle_4_deg 18.18
r_dihedral_angle_3_deg 15.737
r_dihedral_angle_2_deg 38.526
r_dihedral_angle_1_deg 4.665
r_angle_refined_deg 1.133
r_bond_refined_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2883
Nucleic Acid Atoms 0
Heterogen Atoms 35
Solvent Atoms 23

Software

Computing
Computing Package Purpose
CBASS Data Collection
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.5.0109 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.10 data extraction
REFMAC5 refinement
SCALEPACK data reduction