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CRYSTAL STRUCTURE OF A PUTATIVE NUCLEIC ACID BINDING PROTEIN (JCVI_PEP_1096688149193) FROM UNCULTURED MARINE ORGANISM AT 1.79 A RESOLUTION
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP, NANODROP 7 277 1.0M LiCl, 20.0% PEG-6000, 0.1M HEPES pH 7.0, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.02 59.33
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.406 α = 90 b = 64.406 β = 90 c = 133.246 γ = 120
Symmetry Space Group P 62 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 325 mm CCD Flat mirror (vertical focusing) 2006-11-19 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.91837, 0.97971 SSRL BL11-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.6 28.989 100 0.137 0.137 3.9 13.6 16175
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.79 1.84 100 0.017 1.674 0.4 14 1154
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 MAD THROUGHOUT 1.79 28.989 16127 809 99.93 0.19 0.189 0.2003 0.213 0.2146 RANDOM 31.725
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 -0.01 -0.02 0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.394 r_dihedral_angle_3_deg 12.595 r_scangle_it 6.743 r_dihedral_angle_1_deg 5.664 r_scbond_it 5.253 r_dihedral_angle_4_deg 4.303 r_mcangle_it 3.437 r_mcbond_it 2.378 r_angle_refined_deg 1.418 r_angle_other_deg 0.954
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.394 r_dihedral_angle_3_deg 12.595 r_scangle_it 6.743 r_dihedral_angle_1_deg 5.664 r_scbond_it 5.253 r_dihedral_angle_4_deg 4.303 r_mcangle_it 3.437 r_mcbond_it 2.378 r_angle_refined_deg 1.418 r_angle_other_deg 0.954 r_mcbond_other 0.529 r_symmetry_vdw_other 0.309 r_symmetry_vdw_refined 0.253 r_symmetry_hbond_refined 0.235 r_nbd_refined 0.227 r_nbd_other 0.198 r_nbtor_refined 0.181 r_xyhbond_nbd_refined 0.148 r_chiral_restr 0.093 r_nbtor_other 0.087 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 720 Nucleic Acid Atoms Solvent Atoms 77 Heterogen Atoms 45
Software Software Software Name Purpose MolProbity model building SOLVE phasing REFMAC refinement SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction CCP4 data scaling