X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 298.0
Details 0.2 M lithium sulfate monohydrate, 0.1 M TRIS hydrochloride and 30 % (w/v) PEG 4000 , pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 56.27 α = 90
b = 76.25 β = 90
c = 81.82 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
DIFFRACTOMETER ADSC QUANTUM 315 -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X29A -- NSLS X29A

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
1.9 55.78 97.34 0.043 0.043 -- 6.8 27661 27661 -- -- --
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)
1.9 1.93 76.8 0.146 0.146 9.0 4.8 --

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
-- 1.9 55.78 -- 0.0 -- 27661 1396 97.34 -- 0.1599 0.1573 0.2096 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 1.9 1.949 -- 84 1534 0.167 0.259 -- 77.68
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 25.5891
Anisotropic B[1][1] 4.29
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -2.95
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.35
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 5.748
r_scbond_it 3.611
r_mcangle_it 2.319
r_mcbond_it 1.381
r_gen_planes_refined 0.012
r_chiral_restr 0.188
r_dihedral_angle_4_deg 21.768
r_dihedral_angle_3_deg 14.802
r_dihedral_angle_2_deg 32.275
r_dihedral_angle_1_deg 6.818
r_angle_refined_deg 2.066
r_bond_refined_d 0.027
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2468
Nucleic Acid Atoms 0
Heterogen Atoms 15
Solvent Atoms 320

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.5.0102 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
REFMAC5 version: 5.5.0102 refinement
SCALEPACK data reduction