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Crystal structure of Myxococcus xanthus Glutaminyl Cyclase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3NOM PDB ENTRY 3NOM
Crystallization Crystal Properties Matthews coefficient Solvent content 1.92 35.97
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.79 α = 90 b = 46.06 β = 112.97 c = 81 γ = 90
Symmetry Space Group P 1 21 1
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 225 mm CCD 2007-09-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 0.9184 BESSY 14.2
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 1.65 20 97.9 0.059 15.56 52886 -3 23.626
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.65 1.75 94.3 0.546 0.652 2.3
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 PDB ENTRY 3NOM 1.65 19.87 52874 2646 98.04 0.1969 0.1948 0.1941 0.2361 0.237 RANDOM 19.2743
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] 0.02 0.54 -0.14 0.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.629 r_dihedral_angle_4_deg 18.295 r_dihedral_angle_3_deg 13.708 r_dihedral_angle_1_deg 7.047 r_scangle_it 4.673 r_scbond_it 3.065 r_angle_refined_deg 2.072 r_mcangle_it 2.007 r_mcbond_it 1.256 r_chiral_restr 0.227
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.629 r_dihedral_angle_4_deg 18.295 r_dihedral_angle_3_deg 13.708 r_dihedral_angle_1_deg 7.047 r_scangle_it 4.673 r_scbond_it 3.065 r_angle_refined_deg 2.072 r_mcangle_it 2.007 r_mcbond_it 1.256 r_chiral_restr 0.227 r_bond_refined_d 0.024 r_gen_planes_refined 0.011
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3636 Nucleic Acid Atoms Solvent Atoms 285 Heterogen Atoms 60
Software Software Software Name Purpose XSCALE data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction MAR345dtb data collection XDS data reduction