☰ Navigation Tabs
Crystal structure of Sulfolobus acidocaldarius TrmJ
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4CND PDB ENTRY 4CND
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.5 0.2 M KBR, 0.1M NA-ACETATE PH 5.5, 20 % PEG2000MME
Crystal Properties Matthews coefficient Solvent content 2.22 44.51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.138 α = 90 b = 53.702 β = 90 c = 130.308 γ = 90
Symmetry Space Group P 21 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 PIXEL DECTRIS PILATUS 2013-03-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 Diamond I04
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 1.4 43 99.9 0.01 11.1 14.4 63289 1.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.4 1.5 99.3 1.2 14
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 4CND 1.4 42.69 60181 3069 99.72 0.1586 0.1568 0.1674 0.19276 0.2031 RANDOM 21.534
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] 0.2 -0.34 0.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.671 r_sphericity_free 17.393 r_dihedral_angle_3_deg 13.496 r_rigid_bond_restr 12.622 r_dihedral_angle_4_deg 12.57 r_sphericity_bonded 10.044 r_dihedral_angle_1_deg 6.202 r_scbond_it 5.305 r_angle_other_deg 3.751 r_mcangle_it 3.563
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.671 r_sphericity_free 17.393 r_dihedral_angle_3_deg 13.496 r_rigid_bond_restr 12.622 r_dihedral_angle_4_deg 12.57 r_sphericity_bonded 10.044 r_dihedral_angle_1_deg 6.202 r_scbond_it 5.305 r_angle_other_deg 3.751 r_mcangle_it 3.563 r_mcbond_it 3.407 r_mcbond_other 3.111 r_angle_refined_deg 1.611 r_chiral_restr 0.115 r_gen_planes_other 0.029 r_bond_refined_d 0.016 r_gen_planes_refined 0.012 r_bond_other_d 0.003 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2455 Nucleic Acid Atoms Solvent Atoms 132 Heterogen Atoms 39
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing