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 = 51.36 α = 90
b = 62.93 β = 90
c = 71.3 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 -- 2005-11-06
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
1.4 39.79 65.4 0.079 0.079 -- 4.7 -- 30231 -- -- --
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)
1.4 -- 99.3 0.325 0.325 2.3 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 1.4 20.0 -- -- -- 28699 1513 65.56 -- 0.21572 0.21307 0.26457 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 1.4 1.437 -- 3 18 0.358 0.268 -- 0.63
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.777
Anisotropic B[1][1] -0.12
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] 0.15
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.012
r_nbd_refined 0.3
r_symmetry_vdw_refined 0.194
r_mcbond_it 1.883
r_symmetry_hbond_refined 0.118
r_xyhbond_nbd_refined 0.186
r_chiral_restr 0.151
r_dihedral_angle_1_deg 7.181
r_scbond_it 4.202
r_nbtor_refined 0.308
r_angle_refined_deg 2.263
r_scangle_it 5.953
r_bond_refined_d 0.027
r_dihedral_angle_3_deg 17.416
r_dihedral_angle_4_deg 9.523
r_dihedral_angle_2_deg 34.117
r_mcangle_it 2.211
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1850
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 270

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