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CRYSTAL STRUCTURE OF a DUF2118 family protein (MMP0046) FROM METHANOCOCCUS MARIPALUDIS AT 2.20 A RESOLUTION
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 277 21.5% polyethylene glycol 3350, 0.214M ammonium citrate, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.79 55.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.877 α = 90 b = 109.858 β = 90 c = 135.8 γ = 90
Symmetry Space Group P 21 21 21
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 MARMOSAIC 325 mm CCD FLAT COLLIMATING MIRROR, TOROID FOCUSING MIRROR 2008-03-17 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91837,0.97929,0.97913 SSRL BL9-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.2 28.94 100 68137
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 2.2 2.26 100 0.612 1.1
Refinement Statistics Diffraction ID Structure Solution Method 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) Mean Isotropic B X-RAY DIFFRACTION MAD 2.2 28.94 68065 3446 100 0.195 0.193 0.1945 0.236 0.2366 30.66
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] 0.11 0.09 -0.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.231 r_dihedral_angle_4_deg 18.763 r_dihedral_angle_3_deg 12.17 r_dihedral_angle_1_deg 3.898 r_scangle_it 2.787 r_scbond_it 1.961 r_angle_refined_deg 1.781 r_mcangle_it 1.315 r_angle_other_deg 0.951 r_mcbond_it 0.841
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.231 r_dihedral_angle_4_deg 18.763 r_dihedral_angle_3_deg 12.17 r_dihedral_angle_1_deg 3.898 r_scangle_it 2.787 r_scbond_it 1.961 r_angle_refined_deg 1.781 r_mcangle_it 1.315 r_angle_other_deg 0.951 r_mcbond_it 0.841 r_symmetry_vdw_refined 0.23 r_nbd_refined 0.201 r_symmetry_vdw_other 0.197 r_nbd_other 0.193 r_nbtor_refined 0.185 r_xyhbond_nbd_refined 0.166 r_mcbond_other 0.162 r_symmetry_hbond_refined 0.155 r_chiral_restr 0.102 r_nbtor_other 0.087 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 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 7362 Nucleic Acid Atoms Solvent Atoms 532 Heterogen Atoms 47
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction SHELXD phasing autoSHARP phasing