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Crystal structure of FMN-bound protein MM1853 from Methanosarcina mazei, Pfam DUF447
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 294 100mM Hepes pH 7.5, 8% ethylene glycol, 20% PEG 10K, VAPOR DIFFUSION, temperature 294K
Crystal Properties Matthews coefficient Solvent content 3.24 62.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 139.334 α = 90 b = 139.334 β = 90 c = 55.391 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 77 CCD MAR CCD 165 mm 2006-10-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID APS 31-ID
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 1.85 120.666 99.9 0.092 0.092 33.5 19.5 52607 52554 27.4
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 1.85 1.95 100 0.914 0.914 3.2 17.5 7617
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 (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 1.85 20 52570 52534 2677 99.93 0.223 0.221 0.2218 0.256 0.2568 RANDOM 33.954
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] -0.32 -0.16 -0.32 0.47
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.31 r_dihedral_angle_4_deg 20.424 r_dihedral_angle_3_deg 15.816 r_dihedral_angle_1_deg 8.341 r_scangle_it 4.07 r_scbond_it 2.656 r_mcangle_it 2.13 r_angle_refined_deg 1.582 r_mcbond_it 1.303 r_nbtor_refined 0.316
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.31 r_dihedral_angle_4_deg 20.424 r_dihedral_angle_3_deg 15.816 r_dihedral_angle_1_deg 8.341 r_scangle_it 4.07 r_scbond_it 2.656 r_mcangle_it 2.13 r_angle_refined_deg 1.582 r_mcbond_it 1.303 r_nbtor_refined 0.316 r_nbd_refined 0.216 r_xyhbond_nbd_refined 0.203 r_symmetry_vdw_refined 0.192 r_symmetry_hbond_refined 0.159 r_chiral_restr 0.109 r_bond_refined_d 0.015 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2956 Nucleic Acid Atoms Solvent Atoms 227 Heterogen Atoms 62
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction MAR345 data collection MOSFLM data reduction CCP4 data scaling SHELXD phasing