X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5
Temperature 277.0
Details Crystals grown by seeding using a Seed Bead (HR2-320, Hampton Research) in 5% PEG 3350, 50 mM Na Acetate, 50 mM NH4 Acetate, pH 5.0. Crystals were grown at 4 deg C and at ambient pressure, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 51.38 α = 90
b = 62.62 β = 90
c = 69.99 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
CCD ADSC QUANTUM 210 -- 2005-05-26
Diffraction Radiation
Monochromator Protocol
Si(111) DOUBLE CRYSTAL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CHESS BEAMLINE F2 0.9795 CHESS F2

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
1.55 46.68 96.8 0.104 0.104 -- 4.6 -- 20888 -- -- --
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)
1.55 -- 98.1 0.266 0.266 2.2 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
MOLECULAR REPLACEMENT 1.59 20.0 -- -- -- 19819 1053 67.46 -- 0.22056 0.2173 0.28423 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 1.59 1.63 -- 0 13 0.707 -- -- 0.58
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 27.432
Anisotropic B[1][1] -0.07
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.04
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.11
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_3_deg 17.4
r_xyhbond_nbd_refined 0.164
r_scangle_it 4.668
r_symmetry_vdw_refined 0.174
r_scbond_it 3.38
r_bond_refined_d 0.025
r_nbtor_refined 0.3
r_angle_refined_deg 2.168
r_dihedral_angle_1_deg 7.265
r_symmetry_hbond_refined 0.161
r_nbd_refined 0.246
r_xyhbond_nbd_other 0.236
r_mcangle_it 1.915
r_chiral_restr 0.14
r_mcbond_it 1.772
r_dihedral_angle_2_deg 35.919
r_gen_planes_refined 0.01
r_dihedral_angle_4_deg 9.493
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1850
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 174

Software

Software
Software Name Purpose
SCALA data scaling version: 3.2.25
MOLREP phasing
REFMAC refinement
PDB_EXTRACT data extraction version: 3.006
ADSC data collection version: Quantum
MOSFLM data reduction