☰ Navigation Tabs
Crystal Structure of human GGT1 in complex with Glutamate (with all atoms of glutamate)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4GDX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 298 PEG3350, NH4Cl
Crystal Properties Matthews coefficient Solvent content 2.93 57.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 105.242 α = 90 b = 125.23 β = 90 c = 104.061 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 PIXEL DECTRIS PILATUS 6M mirrors 2013-08-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 1.1 NSLS X25
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.1 50 93 0.095 0.1 0.029 9.6 10.4 37862 -3 23.09
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.14 52.4 0.452 0.542 0.291 0.799 2.6 1046
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 FOURIER SYNTHESIS THROUGHOUT 4GDX 2.22 40.02 32064 1704 98.43 0.1483 0.1463 0.1569 0.1852 0.1941 RANDOM 35.053
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] 0.03 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.172 r_dihedral_angle_3_deg 14.231 r_dihedral_angle_4_deg 13.656 r_dihedral_angle_1_deg 5.948 r_mcangle_it 3.362 r_mcbond_it 2.113 r_mcbond_other 2.112 r_angle_refined_deg 1.411 r_angle_other_deg 0.778 r_chiral_restr 0.078
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.172 r_dihedral_angle_3_deg 14.231 r_dihedral_angle_4_deg 13.656 r_dihedral_angle_1_deg 5.948 r_mcangle_it 3.362 r_mcbond_it 2.113 r_mcbond_other 2.112 r_angle_refined_deg 1.411 r_angle_other_deg 0.778 r_chiral_restr 0.078 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4046 Nucleic Acid Atoms Solvent Atoms 428 Heterogen Atoms 97
Software Software Software Name Purpose HKL-2000 data collection HKL-2000 data scaling REFMAC refinement PDB_EXTRACT data extraction REFMAC phasing HKL-2000 data reduction