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Crystal structure of calG3 from Micromonospora echinospora determined in space group I222
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 277 Protein solution (10 mg/mL Se-Met protein, 0.050 M Sodium chloride, 0.010 M Tris-HCl pH 7.5) mixed in a 1:1 ratio with the Well solution (16% PEG 4000, 0.20 M Tri-ammonium citrate, 0.10 M MOPS pH 7.0). Cryoprotected in well solution containing up to 20% (v/v) Ethylene glycol, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.86 56.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 106.654 α = 90 b = 119.267 β = 90 c = 155.942 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 MARMOSAIC 300 mm CCD Adjustable focusing mirrors in K-B geometry 2006-03-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 0.97918 APS 23-ID-D
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 2.79 27 99.2 0.121 9.819 7.3 24883
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 2.79 2.9 94.9 0.426 4.046 6.3 2342
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 SAD THROUGHOUT 2.79 26.75 24883 1270 98.883 0.19 0.187 0.1926 0.243 0.236 RANDOM 11.99
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] 5.326 -2.249 -3.077
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.542 r_dihedral_angle_4_deg 19.492 r_dihedral_angle_3_deg 17.304 r_scangle_it 8.431 r_dihedral_angle_1_deg 5.578 r_scbond_it 5.453 r_mcangle_it 2.7 r_mcbond_it 1.44 r_angle_refined_deg 1.337 r_nbtor_refined 0.314
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.542 r_dihedral_angle_4_deg 19.492 r_dihedral_angle_3_deg 17.304 r_scangle_it 8.431 r_dihedral_angle_1_deg 5.578 r_scbond_it 5.453 r_mcangle_it 2.7 r_mcbond_it 1.44 r_angle_refined_deg 1.337 r_nbtor_refined 0.314 r_nbd_refined 0.219 r_xyhbond_nbd_refined 0.13 r_symmetry_vdw_refined 0.128 r_chiral_restr 0.091 r_symmetry_hbond_refined 0.073 r_bond_refined_d 0.011 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5716 Nucleic Acid Atoms Solvent Atoms 45 Heterogen Atoms 26
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SHARP phasing DM phasing REFMAC refinement PDB_EXTRACT data extraction MAR345 data collection