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CRYSTAL STRUCTURE OF A PUTATIVE GAMMA-D-GLUTAMYL-L-DIAMINO ACID ENDOPEPTIDASE (NPUN_R0659) FROM NOSTOC PUNCTIFORME PCC 73102 AT 1.60 A RESOLUTION
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP, NANODROP 277 2.0M NaCl, 10.0% PEG-6000, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.19 61.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.47 α = 90 b = 90.47 β = 90 c = 93.81 γ = 90
Symmetry Space Group P 41 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 210 2005-09-28 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 1.0163, 0.9797 ALS 8.2.1
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 1.6 28.71 97 0.115 9.36 4.31 51615
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 1.6 1.66 90 90 0.821 2.15 3.33
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-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.6 28.71 48970 2624 99.41 0.16 0.159 0.176 0.2062 RANDOM 20.031
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] -0.12 -0.12 0.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.234 r_dihedral_angle_4_deg 15.317 r_dihedral_angle_3_deg 11.752 r_scangle_it 6.192 r_dihedral_angle_1_deg 5.766 r_scbond_it 4.409 r_mcangle_it 3.153 r_mcbond_it 1.817 r_angle_refined_deg 1.508 r_angle_other_deg 0.818
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.234 r_dihedral_angle_4_deg 15.317 r_dihedral_angle_3_deg 11.752 r_scangle_it 6.192 r_dihedral_angle_1_deg 5.766 r_scbond_it 4.409 r_mcangle_it 3.153 r_mcbond_it 1.817 r_angle_refined_deg 1.508 r_angle_other_deg 0.818 r_mcbond_other 0.498 r_symmetry_vdw_refined 0.267 r_symmetry_vdw_other 0.241 r_metal_ion_refined 0.231 r_nbd_refined 0.219 r_nbtor_refined 0.189 r_symmetry_hbond_refined 0.189 r_xyhbond_nbd_refined 0.182 r_nbd_other 0.18 r_chiral_restr 0.097 r_nbtor_other 0.09 r_bond_refined_d 0.016 r_gen_planes_refined 0.008 r_gen_planes_other 0.003 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1714 Nucleic Acid Atoms Solvent Atoms 290 Heterogen Atoms 22
Software Software Software Name Purpose REFMAC refinement XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction SHELXD phasing autoSHARP phasing