X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1OVAPDB ENTRY 1OVA CHAIN A

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8.3295Ammonium sulfate, Bis-Tris, pH 8.3, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties
Matthews coefficientSolvent content
2.142

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 53.54α = 90
b = 100.48β = 90
c = 136.61γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU RAXIS IVMirrors2004-07-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RUH3R1.5418

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
12.85096.90.08811.52.818753181741
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)
2.82.993.70.3223.22.41711

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)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 1OVA CHAIN A2.820187531723194596.910.224090.22070.28568RANDOM43.129
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]
0.651.2-1.85
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.784
r_dihedral_angle_4_deg22.227
r_dihedral_angle_3_deg18.733
r_dihedral_angle_1_deg6.163
r_scangle_it5.045
r_scbond_it3.188
r_mcangle_it1.889
r_angle_refined_deg1.28
r_mcbond_it1.071
r_symmetry_hbond_refined0.38
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.784
r_dihedral_angle_4_deg22.227
r_dihedral_angle_3_deg18.733
r_dihedral_angle_1_deg6.163
r_scangle_it5.045
r_scbond_it3.188
r_mcangle_it1.889
r_angle_refined_deg1.28
r_mcbond_it1.071
r_symmetry_hbond_refined0.38
r_nbtor_refined0.311
r_symmetry_vdw_refined0.265
r_nbd_refined0.226
r_xyhbond_nbd_refined0.196
r_chiral_restr0.087
r_bond_refined_d0.009
r_gen_planes_refined0.003
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5815
Nucleic Acid Atoms
Solvent Atoms123
Heterogen Atoms10

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing
CNSrefinement
REFMACrefinement