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Crystal Structure of a Protein of Unknown Function MM2497 from Methanosarcina mazei Go1, Probable Nucleotidyltransferase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 277 35% PEG3350, 0.1M Tris, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.46 49.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.797 α = 90 b = 100.482 β = 106.15 c = 54.877 γ = 90
Symmetry Space Group P 1 21 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 ADSC QUANTUM 315 mirror 2006-07-03 M SAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97929 APS 19-ID
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 38.81 97 0.079 19.72 4.7 25854 25854 35.963
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 2.15 77.3 0.383 2.52 3.5 1364
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 2.1 38.81 24513 24513 1304 96.96 0.19461 0.19461 0.19159 0.1911 0.24866 0.2478 RANDOM 41.427
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] 0.02 0.02 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.147 r_dihedral_angle_4_deg 23.787 r_dihedral_angle_3_deg 20.822 r_dihedral_angle_1_deg 7.77 r_scangle_it 5.548 r_scbond_it 4.03 r_angle_refined_deg 2.492 r_mcangle_it 2.377 r_mcbond_it 1.551 r_symmetry_vdw_refined 0.369
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.147 r_dihedral_angle_4_deg 23.787 r_dihedral_angle_3_deg 20.822 r_dihedral_angle_1_deg 7.77 r_scangle_it 5.548 r_scbond_it 4.03 r_angle_refined_deg 2.492 r_mcangle_it 2.377 r_mcbond_it 1.551 r_symmetry_vdw_refined 0.369 r_nbtor_refined 0.322 r_nbd_refined 0.249 r_chiral_restr 0.203 r_xyhbond_nbd_refined 0.175 r_symmetry_hbond_refined 0.096 r_bond_refined_d 0.029 r_gen_planes_refined 0.01 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 3262 Nucleic Acid Atoms Solvent Atoms 173 Heterogen Atoms 61
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-2000 data reduction HKL-2000 data scaling HKL-3000 phasing SHELXE model building SOLVE phasing RESOLVE phasing ARP/wARP model building