X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1XS1PDB ENTRY 1XS1

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
17.527.5 %PEG 400, 50 MM MGSO4, 0.1 M HEPES, PH 7.5
Crystal Properties
Matthews coefficientSolvent content
2.141

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 94.187α = 90
b = 71.301β = 90
c = 319.916γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCHMIRRORSMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONMAX II BEAMLINE I911-3MAX III911-3

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
12.22096.30.0115.54108216-3
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)
12.22.2884.30.033.2

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 1XS12.220101282534196.70.2050.2030.239RANDOM26.61
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]
-0.861.01-0.15
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.571
r_dihedral_angle_4_deg21.62
r_dihedral_angle_3_deg15.773
r_dihedral_angle_1_deg6.6
r_scangle_it4.652
r_scbond_it2.949
r_mcangle_it2.014
r_angle_refined_deg1.743
r_mcbond_it1.39
r_angle_other_deg1.007
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.571
r_dihedral_angle_4_deg21.62
r_dihedral_angle_3_deg15.773
r_dihedral_angle_1_deg6.6
r_scangle_it4.652
r_scbond_it2.949
r_mcangle_it2.014
r_angle_refined_deg1.743
r_mcbond_it1.39
r_angle_other_deg1.007
r_symmetry_vdw_refined0.55
r_symmetry_vdw_other0.526
r_symmetry_hbond_refined0.255
r_nbd_refined0.211
r_nbd_other0.205
r_xyhbond_nbd_refined0.198
r_nbtor_refined0.174
r_chiral_restr0.094
r_nbtor_other0.089
r_bond_refined_d0.018
r_gen_planes_refined0.007
r_gen_planes_other0.004
r_bond_other_d0.003
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_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 Atoms17531
Nucleic Acid Atoms
Solvent Atoms460
Heterogen Atoms368

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
MOLREPphasing