☰ Navigation Tabs
The crystal structure of a thioredoxin-related protein from Desulfitobacterium hafniense DCB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 287 30% PEG400
0.1M MES,
0.1M MgCl2, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 287K
Crystal Properties Matthews coefficient Solvent content 1.84 33.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.167 α = 90 b = 66.341 β = 105.67 c = 70.163 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 CCD SBC-3 mirror 2008-10-08 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.97921, 0.97942 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 1.99 26 99.4 0.104 22.6 4.4 26104 26104
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 2.03 97.8 0.512 2.3 3.7
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 (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 1.99 25.92 24698 24697 1322 98.39 0.19949 0.19605 0.2026 0.26605 0.2704 RANDOM 23.48
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] 0.02 0.23 0.09 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.207 r_dihedral_angle_3_deg 19.226 r_dihedral_angle_4_deg 16.646 r_dihedral_angle_1_deg 6.991 r_scangle_it 4.284 r_scbond_it 2.95 r_angle_refined_deg 1.685 r_mcangle_it 1.588 r_mcbond_it 0.861 r_chiral_restr 0.126
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.207 r_dihedral_angle_3_deg 19.226 r_dihedral_angle_4_deg 16.646 r_dihedral_angle_1_deg 6.991 r_scangle_it 4.284 r_scbond_it 2.95 r_angle_refined_deg 1.685 r_mcangle_it 1.588 r_mcbond_it 0.861 r_chiral_restr 0.126 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3592 Nucleic Acid Atoms Solvent Atoms 90 Heterogen Atoms
Software Software Software Name Purpose SBC-Collect data collection SHELXD phasing MLPHARE phasing DM model building ARP model building WARP model building HKL-3000 phasing REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling DM phasing