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2.3 A structure of putative catechol degradative operon regulator from Rhodococcus sp. RHA1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 293 25% PEG3350, 0.2M Li Sulphate, 0.1M Bis-Tris, cryo condition is 8/8/8% (Sucr,Glycer,550MME)in mag. sol., pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.61 52.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 96.407 α = 90 b = 186.52 β = 90 c = 126.36 γ = 90
Symmetry Space Group C 2 2 21
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 SBC-3 SI 111 CHANNEL 2006-02-11 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.97918, 0.97934 APS 19-BM
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 2.3 93.25 100 0.084 33.4 9.1 50831 -3
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 2.3 2.38 100 0.476 3.88 8.5 5036
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 2.3 93.25 50955 48253 2578 99.9 0.18261 0.18261 0.18002 0.2378 0.23123 0.2816 RANDOM 43.109
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] 0.18 -1.75 1.56
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.987 r_dihedral_angle_4_deg 18.267 r_dihedral_angle_3_deg 16.012 r_scangle_it 8.227 r_dihedral_angle_1_deg 5.956 r_scbond_it 5.718 r_mcangle_it 2.773 r_mcbond_it 2.234 r_angle_refined_deg 1.347 r_nbtor_refined 0.292
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.987 r_dihedral_angle_4_deg 18.267 r_dihedral_angle_3_deg 16.012 r_scangle_it 8.227 r_dihedral_angle_1_deg 5.956 r_scbond_it 5.718 r_mcangle_it 2.773 r_mcbond_it 2.234 r_angle_refined_deg 1.347 r_nbtor_refined 0.292 r_symmetry_vdw_refined 0.227 r_nbd_refined 0.21 r_symmetry_hbond_refined 0.199 r_xyhbond_nbd_refined 0.164 r_chiral_restr 0.089 r_bond_refined_d 0.015 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7339 Nucleic Acid Atoms Solvent Atoms 539 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling HKL-3000 phasing SHELXD phasing SHELXE model building MLPHARE phasing DM phasing SOLVE phasing RESOLVE phasing ARP/wARP model building O model building Coot model building CCP4 phasing