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Human gamma-glutamylamine cyclotransferase, E82Q mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1VKB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 298 12.5%(w/v) PEG3350, 0.3M ammonium nitrate, pH 7, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 1.88 34.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.307 α = 90 b = 42.443 β = 90 c = 84.764 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 ADSC QUANTUM 315r beamline optics 2009-08-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.826966 Australian Synchrotron MX2
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 0.98 37.95 97.7 0.104 0.104 10.4 6.7 74200 74200 -2 -2 5
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) 0.98 1.03 100 0.688 0.688 2.5 6.8 10958
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 (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 1VKB 0.98 27.57 70357 70357 3736 97.54 0.15478 0.15349 0.1633 0.17969 0.1886 RANDOM 8.444
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] -0.08 0.1 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.515 r_dihedral_angle_4_deg 18.318 r_dihedral_angle_3_deg 12.716 r_dihedral_angle_1_deg 6.976 r_scangle_it 6.032 r_scbond_it 4.396 r_mcangle_it 3.549 r_mcbond_it 2.603 r_angle_refined_deg 2.313 r_rigid_bond_restr 1.997
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.515 r_dihedral_angle_4_deg 18.318 r_dihedral_angle_3_deg 12.716 r_dihedral_angle_1_deg 6.976 r_scangle_it 6.032 r_scbond_it 4.396 r_mcangle_it 3.549 r_mcbond_it 2.603 r_angle_refined_deg 2.313 r_rigid_bond_restr 1.997 r_angle_other_deg 1.149 r_mcbond_other 0.924 r_chiral_restr 0.153 r_bond_refined_d 0.029 r_gen_planes_refined 0.013 r_gen_planes_other 0.002 r_bond_other_d 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1206 Nucleic Acid Atoms Solvent Atoms 232 Heterogen Atoms 12
Software Software Software Name Purpose Blu-Ice data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling