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Crystal structure of Down Syndrome Cell Adhesion Molecule (DSCAM) isoform 1.30.30, N-terminal eight Ig domains
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2V5M PDB entry 2V5M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 298 1.28M Ammonium sulfate, 0.2M MES pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 4.24 70.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 118.46 α = 90 b = 177.61 β = 90 c = 434.05 γ = 90
Symmetry Space Group I 2 2 2
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 2007-04-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 0.97970 ALS 8.2.2
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 4.19 90 99.9 0.066 9 8.7 34106 34106 -3 59.8
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 4.19 4.46 99.9 0.462 8.6 5605
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT PDB entry 2V5M 4.19 12 32525 1618 99.37 0.282 0.28 0.2836 0.327 0.3307 RANDOM 54.028
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] 0.1 -2.07 1.97
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.378 r_dihedral_angle_3_deg 14.899 r_dihedral_angle_4_deg 13.021 r_dihedral_angle_1_deg 5.55 r_mcangle_it 1.438 r_scangle_it 1.277 r_mcbond_it 1.042 r_angle_refined_deg 1.029 r_angle_other_deg 0.778 r_scbond_it 0.757
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.378 r_dihedral_angle_3_deg 14.899 r_dihedral_angle_4_deg 13.021 r_dihedral_angle_1_deg 5.55 r_mcangle_it 1.438 r_scangle_it 1.277 r_mcbond_it 1.042 r_angle_refined_deg 1.029 r_angle_other_deg 0.778 r_scbond_it 0.757 r_mcbond_other 0.128 r_chiral_restr 0.057 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 16431 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 309
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction