X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1HTOPDB ENTRY 1HTO

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5294EQUAL VOLUMES OF MOTHER LIQUOR (0.1 M SODIUM ACETATE, PH 5, 0.75 M 1,6-HEXANEDIOL) AND PROTEIN SOLUTION (10 G/L IN 0.020 M TRIS-HCL. PH 7.5, 0.15 M SODIUM CHLORIDE, 0.005 M MAGNESIUM CHLORIDE, 2%(V/V) DMSO, 0.0002 M INHIBITOR), VAPOR DIFFUSION, HANGING-DROP, TEMPERATURE 294K.
Crystal Properties
Matthews coefficientSolvent content
2.4349

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 134.95α = 90
b = 203.18β = 90
c = 230.2γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCD2007-05-12MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-2ESRFID14-2

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.5529.997.60.0912.34.220062845
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.552.6595.60.453.84.2

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1HTO2.5529.951946671031899.760.230980.23020.24586RANDOM41.987
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
-0.61.62-1.02
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.479
r_dihedral_angle_3_deg15.359
r_dihedral_angle_4_deg11.838
r_dihedral_angle_1_deg5.628
r_scangle_it2.054
r_mcangle_it1.229
r_scbond_it1.223
r_angle_refined_deg1.22
r_mcbond_it0.684
r_symmetry_hbond_refined0.515
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.479
r_dihedral_angle_3_deg15.359
r_dihedral_angle_4_deg11.838
r_dihedral_angle_1_deg5.628
r_scangle_it2.054
r_mcangle_it1.229
r_scbond_it1.223
r_angle_refined_deg1.22
r_mcbond_it0.684
r_symmetry_hbond_refined0.515
r_symmetry_vdw_refined0.319
r_nbtor_refined0.31
r_nbd_refined0.205
r_xyhbond_nbd_refined0.123
r_chiral_restr0.085
r_bond_refined_d0.01
r_gen_planes_refined0.004
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms43920
Nucleic Acid Atoms
Solvent Atoms1536
Heterogen Atoms348

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
MOLREPphasing