X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelOtherSAPOSIN D P212121

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP4.6298PEG 4K, ZINC SULFATE, SODIUM ACETATE BUFFER, PH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties
Matthews coefficientSolvent content
2.8456.75

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 40.66α = 89.9
b = 41.12β = 81.2
c = 65.45γ = 71.4
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDBRUKER SMART 60002007-03-24MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODEBRUKER AXS MICROSTAR1.5418

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
126592.60.05620.43.5224429
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)
22.0591.20.14066.731.4

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 REPLACEMENTTHROUGHOUTSAPOSIN D P212121264.55244291308960.197560.195140.24217RANDOM21.496
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]
0.830.25-0.01-0.04-0.54-0.94
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.345
r_dihedral_angle_4_deg14.874
r_dihedral_angle_3_deg13.362
r_dihedral_angle_1_deg5.733
r_scangle_it3.014
r_scbond_it1.885
r_angle_refined_deg1.399
r_mcangle_it1.375
r_mcbond_it0.845
r_nbtor_refined0.299
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.345
r_dihedral_angle_4_deg14.874
r_dihedral_angle_3_deg13.362
r_dihedral_angle_1_deg5.733
r_scangle_it3.014
r_scbond_it1.885
r_angle_refined_deg1.399
r_mcangle_it1.375
r_mcbond_it0.845
r_nbtor_refined0.299
r_nbd_refined0.216
r_symmetry_vdw_refined0.2
r_xyhbond_nbd_refined0.146
r_chiral_restr0.1
r_symmetry_hbond_refined0.091
r_bond_refined_d0.013
r_gen_planes_refined0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2477
Nucleic Acid Atoms
Solvent Atoms314
Heterogen Atoms

Software

Software
Software NamePurpose
PHASERphasing
REFMACrefinement
PROTEUM PLUSdata collection
PROTEUM PLUSdata reduction
PROTEUM PLUSdata scaling