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Crystal structure of the product synapse complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CRX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 291 MPD, SODIUM ACETATE, CALCIUM Chloride, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 3.16 61.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 108.254 α = 90 b = 122.453 β = 90 c = 178.991 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 315 Monochromator 2002-07-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 1.1 NSLS X25
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.5 50 99.8 0.073 14.2 1 41399 41399 3 1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.5 2.57 98.1 0.323 3363
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT 1CRX 2.6 40.1 35014 36885 1871 99.95 0.228 0.225 0.292 0.3042 RANDOM 49.941
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] 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.554 r_dihedral_angle_4_deg 15.77 r_dihedral_angle_3_deg 15.765 r_dihedral_angle_1_deg 6.05 r_scangle_it 1.931 r_angle_refined_deg 1.364 r_scbond_it 1.173 r_angle_other_deg 0.952 r_mcangle_it 0.807 r_mcbond_it 0.743
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.554 r_dihedral_angle_4_deg 15.77 r_dihedral_angle_3_deg 15.765 r_dihedral_angle_1_deg 6.05 r_scangle_it 1.931 r_angle_refined_deg 1.364 r_scbond_it 1.173 r_angle_other_deg 0.952 r_mcangle_it 0.807 r_mcbond_it 0.743 r_symmetry_vdw_other 0.261 r_nbd_refined 0.218 r_symmetry_hbond_refined 0.215 r_nbd_other 0.206 r_nbtor_refined 0.193 r_xyhbond_nbd_refined 0.183 r_symmetry_vdw_refined 0.173 r_nbtor_other 0.084 r_mcbond_other 0.07 r_chiral_restr 0.062 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4884 Nucleic Acid Atoms 1394 Solvent Atoms 324 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction ADSC data collection AMoRE phasing