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Crystal Structure of Human Indolethylamine N-methyltransferase with SAH
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1N7J
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 5.6 300 2.0 M ammonium sulfate, 0.2 M K/Na tartrate, pH 5.6, VAPOR DIFFUSION, temperature 300K
Crystal Properties Matthews coefficient Solvent content 2.9 57.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.407 α = 90 b = 117.461 β = 90 c = 66.116 γ = 90
Symmetry Space Group C 2 2 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 IMAGE PLATE RIGAKU RAXIS IV VeriMAx 2005-06-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E
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 1.7 36.2 87.2 0.049 0.049 22.8 6.5 32589 32589 17.22
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) 1.7 1.73 39.8 0.119 0.119 12.6 5.2 730
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 (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 MOLECULAR REPLACEMENT THROUGHOUT 1N7J 1.7 36.2 32589 31928 661 87.14 0.16412 0.16412 0.16344 0.1615 0.19726 0.1944 RANDOM 14.595
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] 0.72 -0.63 -0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.391 r_dihedral_angle_4_deg 16.858 r_dihedral_angle_3_deg 10.939 r_dihedral_angle_1_deg 6.024 r_scangle_it 2.976 r_scbond_it 1.834 r_angle_refined_deg 1.221 r_mcangle_it 1.109 r_mcbond_it 0.668 r_nbtor_refined 0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.391 r_dihedral_angle_4_deg 16.858 r_dihedral_angle_3_deg 10.939 r_dihedral_angle_1_deg 6.024 r_scangle_it 2.976 r_scbond_it 1.834 r_angle_refined_deg 1.221 r_mcangle_it 1.109 r_mcbond_it 0.668 r_nbtor_refined 0.3 r_nbd_refined 0.191 r_symmetry_vdw_refined 0.172 r_symmetry_hbond_refined 0.119 r_xyhbond_nbd_refined 0.112 r_chiral_restr 0.077 r_bond_refined_d 0.01 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1980 Nucleic Acid Atoms Solvent Atoms 310 Heterogen Atoms 31
Software Software Software Name Purpose REFMAC refinement CrystalClear data reduction SCALEPACK data scaling MOLREP phasing O model building