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Crystal structure of L-tyrosine decarboxylase MfnA (EC 4.1.1.25) (NP_247014.1) from METHANOCOCCUS JANNASCHII at 2.11 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 277 40.0000% MPD, 0.1M HEPES pH 7.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.92 57.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.276 α = 90 b = 104.128 β = 90 c = 119.915 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 300 mm CCD Adjustable focusing mirrors in K-B geometry 2008-10-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B APS 23-ID-B
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 2.11 29.975 100 0.119 0.119 3.203 4.6 62121 32.594
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 2.11 2.16 100 0.772 0.772 1 4.6 4543
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation 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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 2.11 29.975 62056 3141 99.93 0.16 0.158 0.1615 0.192 0.1908 RANDOM 35.536
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] -0.55 0.32 0.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.837 r_dihedral_angle_4_deg 16.516 r_dihedral_angle_3_deg 11.985 r_scangle_it 6.466 r_scbond_it 5.08 r_dihedral_angle_1_deg 3.776 r_mcangle_it 2.585 r_mcbond_it 2.062 r_angle_refined_deg 1.579 r_angle_other_deg 0.989
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.837 r_dihedral_angle_4_deg 16.516 r_dihedral_angle_3_deg 11.985 r_scangle_it 6.466 r_scbond_it 5.08 r_dihedral_angle_1_deg 3.776 r_mcangle_it 2.585 r_mcbond_it 2.062 r_angle_refined_deg 1.579 r_angle_other_deg 0.989 r_mcbond_other 0.615 r_symmetry_vdw_other 0.29 r_nbd_refined 0.199 r_nbd_other 0.187 r_symmetry_vdw_refined 0.187 r_nbtor_refined 0.176 r_xyhbond_nbd_refined 0.156 r_symmetry_hbond_refined 0.137 r_chiral_restr 0.1 r_nbtor_other 0.085 r_bond_refined_d 0.016 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6252 Nucleic Acid Atoms Solvent Atoms 402 Heterogen Atoms 56
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SOLVE phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction