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Structure of mouse beta-neurexin 1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9 293 0.1 M Tris-HCl, 18% PEG 8000, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.82 32.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.997 α = 90 b = 49.137 β = 90 c = 63.556 γ = 90
Symmetry Space Group P 21 21 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 MAR CCD 165 mm Si111 2007-06-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X4C 0.9793 NSLS X4C
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 1.7 30 94.6 0.058 27.3 6.5 16011 15154
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) 1.7 1.76 95.5 0.193 6.4 4.7 1491
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT 1.7 20 15154 796 99.54 0.178 0.176 0.1754 0.22 0.2153 RANDOM 16.345
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] 0.02 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.18 r_dihedral_angle_4_deg 16.62 r_dihedral_angle_3_deg 11.409 r_dihedral_angle_1_deg 6.486 r_scangle_it 3.497 r_scbond_it 2.35 r_angle_refined_deg 1.417 r_mcangle_it 1.404 r_mcbond_it 0.877 r_nbtor_refined 0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.18 r_dihedral_angle_4_deg 16.62 r_dihedral_angle_3_deg 11.409 r_dihedral_angle_1_deg 6.486 r_scangle_it 3.497 r_scbond_it 2.35 r_angle_refined_deg 1.417 r_mcangle_it 1.404 r_mcbond_it 0.877 r_nbtor_refined 0.31 r_symmetry_vdw_refined 0.235 r_nbd_refined 0.217 r_symmetry_hbond_refined 0.199 r_symmetry_metal_ion_refined 0.151 r_xyhbond_nbd_refined 0.138 r_metal_ion_refined 0.136 r_chiral_restr 0.102 r_bond_refined_d 0.012 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1393 Nucleic Acid Atoms Solvent Atoms 188 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction ADSC data collection DENZO data reduction SCALEPACK data scaling PHASER phasing