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Crystal Structure of Moorella thermoacetica SelB(377-511)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1LVA RESIDUES 377-511 OF PDB ENTRY 1LVA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.4 293 100 MM HEPES-NAOH, PH 6.9 TO 7.9, 3.9 TO 4.5 M NACL, HANGING DROP VAPOR DIFFUSION AT 293K
Crystal Properties Matthews coefficient Solvent content 1.65 49.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.349 α = 90 b = 46.087 β = 120.45 c = 58.683 γ = 90
Symmetry Space Group C 1 2 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 MARRESEARCH 2007-04-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA SLS X10SA
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 1.1 20 100 0.09 10 7 61009
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 1.1 1.2 100 0.25 3.4 6.9
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 RESIDUES 377-511 OF PDB ENTRY 1LVA 1.1 20 57911 3094 100 0.121 0.12 0.1209 0.141 0.14 RANDOM 10.21
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] 0.19 0.08 -0.43 0.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.8 r_dihedral_angle_4_deg 16.387 r_dihedral_angle_1_deg 14.449 r_dihedral_angle_3_deg 11.025 r_scangle_it 4.148 r_scbond_it 2.955 r_mcangle_it 2.066 r_angle_refined_deg 1.548 r_mcbond_it 1.4 r_angle_other_deg 0.88
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.8 r_dihedral_angle_4_deg 16.387 r_dihedral_angle_1_deg 14.449 r_dihedral_angle_3_deg 11.025 r_scangle_it 4.148 r_scbond_it 2.955 r_mcangle_it 2.066 r_angle_refined_deg 1.548 r_mcbond_it 1.4 r_angle_other_deg 0.88 r_symmetry_vdw_other 0.329 r_symmetry_vdw_refined 0.306 r_symmetry_hbond_refined 0.26 r_nbd_refined 0.235 r_xyhbond_nbd_refined 0.233 r_nbd_other 0.195 r_nbtor_refined 0.188 r_chiral_restr 0.093 r_nbtor_other 0.088 r_bond_refined_d 0.014 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1097 Nucleic Acid Atoms Solvent Atoms 318 Heterogen Atoms 6
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling MOLREP phasing