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X-RAY STRUCTURE AN EF-HAND PROTEIN FROM DANIO RERIO Dr.36843
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9 277 10 MG/ML PROTEIN, 26% PEG 2K, 0.100 M BTP, pH 9.0, vapor diffusion, hanging drop, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.3 46.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.884 α = 90 b = 52.748 β = 90 c = 114.364 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 MARMOSAIC 300 mm CCD HORIZONTAL SAGITALLY FOCUSING 2ND BENT MONOCHROMATOR CRYSTAL, VERTICAL BENT FOCUSING MIRROR 2005-10-10 M MAD 2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 0.97911, 0.96411 APS 22-ID
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 2.1 80 98.8 0.093 11.052 8.4 17378
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 2.1 2.15 98.3 98.3 0.51 2.779 6.9
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 (All) 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 MAD THROUGHOUT 2.1 57.166 17336 885 98.826 0.179 0.17937 0.1755 0.1947 0.2529 0.2666 RANDOM 41.92
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] 0.965 -0.854 -0.111
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.854 r_dihedral_angle_4_deg 22.609 r_dihedral_angle_3_deg 16.312 r_scangle_it 6.373 r_dihedral_angle_1_deg 5.731 r_scbond_it 4.811 r_mcangle_it 2.87 r_mcbond_it 1.687 r_angle_refined_deg 1.586 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.854 r_dihedral_angle_4_deg 22.609 r_dihedral_angle_3_deg 16.312 r_scangle_it 6.373 r_dihedral_angle_1_deg 5.731 r_scbond_it 4.811 r_mcangle_it 2.87 r_mcbond_it 1.687 r_angle_refined_deg 1.586 r_nbtor_refined 0.304 r_nbd_refined 0.212 r_xyhbond_nbd_refined 0.206 r_symmetry_vdw_refined 0.191 r_symmetry_hbond_refined 0.146 r_chiral_restr 0.109 r_bond_refined_d 0.019 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2203 Nucleic Acid Atoms Solvent Atoms 240 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SHARP phasing DM phasing REFMAC refinement PDB_EXTRACT data extraction PHENIX phasing SHELXD phasing SOLOMON phasing ARP/wARP model building