☰ Navigation Tabs
Crystal structure of Methanothermobacter thermautotrophicus CbiL
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CBF B. megaterium CbiF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 298 100 mM MES buffer, pH 6.5, containing 2.5 M ammonium sulphate, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.68 54.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 135.911 α = 90 b = 135.911 β = 90 c = 50.369 γ = 120
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 ADSC QUANTUM 4 2004-12-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-3 0.931 ESRF ID14-3
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 2.1 50.38 100 0.074 7.5 7.5 34537 31826 35
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 2.1 2.21 100 0.363 4.8 7.2
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 MIR THROUGHOUT B. megaterium CbiF 2.1 50.38 29735 1586 99.96 0.20515 0.20172 0.2021 0.27043 0.2708 RANDOM 35.248
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] -0.28 -0.14 -0.28 0.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.433 r_dihedral_angle_3_deg 17.929 r_dihedral_angle_4_deg 17.814 r_dihedral_angle_1_deg 6.351 r_scangle_it 3.22 r_scbond_it 1.94 r_angle_refined_deg 1.418 r_mcangle_it 1.392 r_mcbond_it 0.816 r_nbtor_refined 0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.433 r_dihedral_angle_3_deg 17.929 r_dihedral_angle_4_deg 17.814 r_dihedral_angle_1_deg 6.351 r_scangle_it 3.22 r_scbond_it 1.94 r_angle_refined_deg 1.418 r_mcangle_it 1.392 r_mcbond_it 0.816 r_nbtor_refined 0.3 r_symmetry_vdw_refined 0.229 r_symmetry_hbond_refined 0.228 r_nbd_refined 0.223 r_xyhbond_nbd_refined 0.179 r_chiral_restr 0.111 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 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 3488 Nucleic Acid Atoms Solvent Atoms 438 Heterogen Atoms 52
Software Software Software Name Purpose REFMAC refinement ADSC data collection MOSFLM data reduction SCALA data scaling MLPHARE phasing