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Crystal structure of ALR0039, a putative alpha/beta hydrolase from Nostoc sp PCC 7120.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Y37 PDB ENTRY 1Y37
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 298 VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.46 49.97
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.542 α = 90 b = 88.196 β = 93.09 c = 83.588 γ = 90
Symmetry Space Group P 1 21 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 IMAGE PLATE RIGAKU RAXIS IV++ 2010-05-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E+ SUPERBRIGHT 1.5418
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 1.778 20 97.4 0.037 42.8 3.8 61951 60343 2
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 1.778 1.81 94.5 0.258 6.3 3.6 5716
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1Y37 1.778 19.86 58321 2021 97.42 0.14958 0.14852 0.1566 0.17909 0.1853 RANDOM 16.416
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] 0.07 0.16 1.4 -1.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.586 r_dihedral_angle_4_deg 22.956 r_dihedral_angle_3_deg 13.452 r_dihedral_angle_1_deg 5.985 r_scangle_it 4.593 r_scbond_it 3.271 r_mcangle_it 1.932 r_angle_refined_deg 1.84 r_mcbond_it 1.137 r_angle_other_deg 1.103
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.586 r_dihedral_angle_4_deg 22.956 r_dihedral_angle_3_deg 13.452 r_dihedral_angle_1_deg 5.985 r_scangle_it 4.593 r_scbond_it 3.271 r_mcangle_it 1.932 r_angle_refined_deg 1.84 r_mcbond_it 1.137 r_angle_other_deg 1.103 r_mcbond_other 0.373 r_chiral_restr 0.139 r_bond_refined_d 0.025 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4694 Nucleic Acid Atoms Solvent Atoms 634 Heterogen Atoms
Software Software Software Name Purpose ADSC data collection MOLREP phasing REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling