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Crystal structure of amidohydrolase nis_0429 (target efi-500396) from Nitratiruptor sp. sb155-2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 0.1M MES, PH 6.0, 1M POTASSIUM SODIUM TARTRATE, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 294K
Crystal Properties Matthews coefficient Solvent content 2.32 47.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.515 α = 90 b = 75.169 β = 120.72 c = 75.646 γ = 90
Symmetry Space Group C 1 2 1
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 MIRRORS 2011-11-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A NSLS X29A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.35 70 99.6 0.051 9 4 96466 -5 16.967
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 1.35 1.37 94.3 0.73 1.3 3.3
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 1.35 50 93105 2889 99.52 0.12914 0.12812 0.1329 0.1614 0.1653 RANDOM 24.772
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] 0.37 -0.87 -0.12 -1.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.914 r_dihedral_angle_4_deg 16.068 r_scangle_it 13.491 r_dihedral_angle_3_deg 12.597 r_scbond_it 9.124 r_mcangle_it 6.497 r_dihedral_angle_1_deg 5.959 r_mcbond_it 4.492 r_rigid_bond_restr 3.097 r_angle_refined_deg 1.389
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.914 r_dihedral_angle_4_deg 16.068 r_scangle_it 13.491 r_dihedral_angle_3_deg 12.597 r_scbond_it 9.124 r_mcangle_it 6.497 r_dihedral_angle_1_deg 5.959 r_mcbond_it 4.492 r_rigid_bond_restr 3.097 r_angle_refined_deg 1.389 r_chiral_restr 0.096 r_bond_refined_d 0.012 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3237 Nucleic Acid Atoms Solvent Atoms 226 Heterogen Atoms 53
Software Software Software Name Purpose SHELX model building REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling SHELX phasing