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Crystal structure of a putative hydrolase (ava_4197) from anabaena variabilis atcc 29413 at 1.35 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 10.5 277 NANODROP, 0.8M K2HPO4, 0.2M Li2SO4, 1.2M NaH2PO4, 0.1M CAPS pH 10.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K 2 VAPOR DIFFUSION, SITTING DROP 6 277 NANODROP, 1.6M (NH4)2SO4, 0.1M MES pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 115.831 α = 90 b = 135.562 β = 90 c = 51.519 γ = 90
Symmetry Space Group P 21 21 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 4 1m long Rh coated bent cylindrical mirror for horizontal and vertical focusing 2007-06-06 M SINGLE WAVELENGTH 2 2 x-ray 100 CCD MARMOSAIC 325 mm CCD Flat collimating mirror, toroid focusing mirror 2007-06-04 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL1-5 0.980910 SSRL BL1-5 2 SYNCHROTRON SSRL BEAMLINE BL9-2 0.97929, 0.89194, 0.97905 SSRL BL9-2
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 1,2 1.35 29.348 95.9 0.052 0.052 8.2 4.8 170743 13.57
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) 1,2 1.35 1.39 73.9 0.346 0.346 1.1 2.1 9561
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 1.35 29.348 170682 8613 95.79 0.117 0.116 0.1294 0.144 0.153 RANDOM 13.292
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] 0.28 -0.75 0.47
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.588 r_dihedral_angle_4_deg 11.679 r_dihedral_angle_3_deg 11.322 r_sphericity_free 10.036 r_dihedral_angle_1_deg 6.868 r_scangle_it 5.857 r_sphericity_bonded 4.969 r_scbond_it 4.604 r_mcangle_it 3.711 r_mcbond_it 2.836
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.588 r_dihedral_angle_4_deg 11.679 r_dihedral_angle_3_deg 11.322 r_sphericity_free 10.036 r_dihedral_angle_1_deg 6.868 r_scangle_it 5.857 r_sphericity_bonded 4.969 r_scbond_it 4.604 r_mcangle_it 3.711 r_mcbond_it 2.836 r_rigid_bond_restr 2.16 r_mcbond_other 1.923 r_angle_refined_deg 1.644 r_angle_other_deg 1.021 r_symmetry_vdw_refined 0.298 r_symmetry_vdw_other 0.246 r_xyhbond_nbd_refined 0.231 r_nbd_refined 0.229 r_nbd_other 0.205 r_nbtor_refined 0.179 r_symmetry_hbond_refined 0.17 r_chiral_restr 0.109 r_nbtor_other 0.088 r_bond_refined_d 0.016 r_gen_planes_refined 0.009 r_gen_planes_other 0.003 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5178 Nucleic Acid Atoms Solvent Atoms 833 Heterogen Atoms 124
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction MAR345 data collection MOSFLM data reduction SHELXD phasing SHARP phasing