2NN3

structure of pro-sf-caspase-1


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.529310% PEG 400, 80 mM MgCl2, 100 mM MES, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.6653.78

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 106.223α = 90
b = 106.223β = 90
c = 113.595γ = 120
Symmetry
Space GroupP 65

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 325 mm CCD16 POLE WIGGLER2005-03-28MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL9-20.979SSRLBL9-2

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
1348.3497.60.05818.83.4146661431191.63
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)
133.051000.4252.73.1

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 1M72348.341357772197.50.230150.227840.2746RANDOM103.353
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]
-2.22-1.11-2.223.33
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg41.467
r_dihedral_angle_3_deg21.514
r_dihedral_angle_4_deg21.398
r_dihedral_angle_1_deg7.758
r_scangle_it2.329
r_angle_refined_deg1.684
r_scbond_it1.477
r_mcangle_it1.325
r_mcbond_it0.712
r_symmetry_hbond_refined0.337
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg41.467
r_dihedral_angle_3_deg21.514
r_dihedral_angle_4_deg21.398
r_dihedral_angle_1_deg7.758
r_scangle_it2.329
r_angle_refined_deg1.684
r_scbond_it1.477
r_mcangle_it1.325
r_mcbond_it0.712
r_symmetry_hbond_refined0.337
r_nbtor_refined0.325
r_nbd_refined0.259
r_symmetry_vdw_refined0.256
r_xyhbond_nbd_refined0.178
r_chiral_restr0.107
r_bond_refined_d0.018
r_gen_planes_refined0.007
r_metal_ion_refined
r_metal_ion_other
r_sphericity_bonded
r_symmetry_vdw_other
r_nbd_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_angle_other_deg
r_mcbond_other
r_nbtor_other
r_gen_planes_other
r_bond_other_d
r_rigid_bond_restr
r_sphericity_free
r_xyhbond_nbd_other
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3866
Nucleic Acid Atoms
Solvent Atoms6
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data collection
HKL-2000data reduction
HKL-2000data scaling
AMoREphasing