☰ Navigation Tabs
Crystal structure of a Calmodulin-lysine N-methyltransferase fragment
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4LEC FFAS03/SCWRL-modified models of PDB entries 4lec, 3bzb, 4lg1, 4mtl experimental model PDB 3BZB FFAS03/SCWRL-modified models of PDB entries 4lec, 3bzb, 4lg1, 4mtl experimental model PDB 4LG1 FFAS03/SCWRL-modified models of PDB entries 4lec, 3bzb, 4lg1, 4mtl experimental model PDB 4MTL FFAS03/SCWRL-modified models of PDB entries 4lec, 3bzb, 4lg1, 4mtl
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.7 291 2.0 M malonate, pH 6.7, vapor diffusion, temperature 291K
Crystal Properties Matthews coefficient Solvent content 3.5 64.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.935 α = 90 b = 80.935 β = 90 c = 121.952 γ = 90
Symmetry Space Group P 41 21 2
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 2014-01-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E 1.5418
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 1.9 50 100 0.107 9 13.9 32722
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 1.9 1.93 100 0.939 13.7 1611
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT FFAS03/SCWRL-modified models of PDB entries 4lec, 3bzb, 4lg1, 4mtl 1.9 25 32627 1573 99.9 0.1614 0.1599 0.1718 0.1914 0.2066 RANDOM 22.9872
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] -0.05 -0.05 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.521 r_dihedral_angle_4_deg 19.027 r_dihedral_angle_3_deg 13.412 r_dihedral_angle_1_deg 6.066 r_mcangle_it 3.645 r_mcbond_other 2.556 r_mcbond_it 2.555 r_angle_refined_deg 1.518 r_angle_other_deg 0.822 r_chiral_restr 0.093
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.521 r_dihedral_angle_4_deg 19.027 r_dihedral_angle_3_deg 13.412 r_dihedral_angle_1_deg 6.066 r_mcangle_it 3.645 r_mcbond_other 2.556 r_mcbond_it 2.555 r_angle_refined_deg 1.518 r_angle_other_deg 0.822 r_chiral_restr 0.093 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1979 Nucleic Acid Atoms Solvent Atoms 106 Heterogen Atoms 64
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction