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2.0 A Structure of Protein of Unknown Function from Thermoplasma acidophilum
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other MAD, Model built in part by ARP/wARP and in part manually
Crystallization Crystal Properties Matthews coefficient Solvent content 2.41 49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.23 α = 90 b = 101.23 β = 90 c = 101.23 γ = 90
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 CUSTOM-MADE mirror 2002-02-11 M MAD 2 1 x-ray 100 CCD CUSTOM-MADE mirror 2002-03-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.9795, 0.9793, 0.9537 APS 19-BM 2 SYNCHROTRON APS BEAMLINE 19-ID 1.0332 APS 19-ID
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2 70.71 11270 10810 533 95.93 0.21346 0.21346 0.21132 0.25613 RANDOM 32.854
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.956 r_scangle_it 3.9 r_scbond_it 2.744 r_angle_refined_deg 1.881 r_mcangle_it 1.759 r_mcbond_it 1.112 r_angle_other_deg 0.986 r_symmetry_vdw_other 0.267 r_nbd_other 0.244 r_xyhbond_nbd_refined 0.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.956 r_scangle_it 3.9 r_scbond_it 2.744 r_angle_refined_deg 1.881 r_mcangle_it 1.759 r_mcbond_it 1.112 r_angle_other_deg 0.986 r_symmetry_vdw_other 0.267 r_nbd_other 0.244 r_xyhbond_nbd_refined 0.24 r_nbd_refined 0.23 r_symmetry_vdw_refined 0.227 r_symmetry_hbond_refined 0.179 r_chiral_restr 0.127 r_nbtor_other 0.091 r_bond_refined_d 0.024 r_gen_planes_refined 0.016 r_gen_planes_other 0.006 r_bond_other_d 0.002 r_dihedral_angle_2_deg r_xyhbond_nbd_other r_symmetry_hbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1172 Nucleic Acid Atoms Solvent Atoms 40 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement d*TREK data reduction HKL-2000 data scaling CNS phasing