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Crystal structure of protein MJ0783 from Methanococcus jannaschii
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 290 30% PEG 550, 100 mM Tris-HCl, pH 6.50, VAPOR DIFFUSION, SITTING DROP, temperature 290K
Crystal Properties Matthews coefficient Solvent content 2.46 45.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.942 α = 90 b = 73.156 β = 122.87 c = 46.57 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 87 CCD ADSC QUANTAM Q315 MIRRORS 2005-09-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 0.989 NSLS X29A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.45 50 98 0.06 0.063 16.1 3.5 34059 34059
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.45 1.5 96.7 0.481 0.35 2.1 3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 SAD THROUGHOUT NONE 1.45 20 32334 32334 1052 98.12 0.18608 0.18505 0.1916 0.21823 0.1999 RANDOM 29.091
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] -1.02 -1.74 0.13 -1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.945 r_dihedral_angle_3_deg 12.931 r_dihedral_angle_4_deg 12.381 r_scangle_it 6.784 r_dihedral_angle_1_deg 5.651 r_scbond_it 5.172 r_mcangle_it 5.131 r_mcbond_it 4.791 r_angle_refined_deg 1.392 r_mcbond_other 1.095
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.945 r_dihedral_angle_3_deg 12.931 r_dihedral_angle_4_deg 12.381 r_scangle_it 6.784 r_dihedral_angle_1_deg 5.651 r_scbond_it 5.172 r_mcangle_it 5.131 r_mcbond_it 4.791 r_angle_refined_deg 1.392 r_mcbond_other 1.095 r_angle_other_deg 0.649 r_symmetry_vdw_other 0.233 r_xyhbond_nbd_refined 0.225 r_nbd_refined 0.219 r_nbd_other 0.193 r_nbtor_refined 0.184 r_symmetry_hbond_refined 0.173 r_symmetry_vdw_refined 0.131 r_nbtor_other 0.087 r_chiral_restr 0.08 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1487 Nucleic Acid Atoms Solvent Atoms 126 Heterogen Atoms
Software Software Software Name Purpose HKL-2000 data collection SCALEPACK data scaling SHELX model building REFMAC refinement HKL-2000 data reduction SHELX phasing