☰ Navigation Tabs
Three-dimensional structure of the human transglutaminase 3 enzyme: binding of calcium ions change structure for activation
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GGT PDB ENTRY 1GGT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 288 4%(W/V) Peg 20K, 100 mM Tris_HCl(pH 8.5), VAPOR DIFFUSION, HANGING DROP, temperature 288K
Crystal Properties Matthews coefficient Solvent content 2.89 57.51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.709 α = 97.24 b = 67.515 β = 90.15 c = 116.208 γ = 98.67
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 IIC mirrors 1999-08-15 M SINGLE WAVELENGTH 2 1 CCD ADSC QUANTUM 4 mirrors 2000-07-26
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.5418 2 SYNCHROTRON NSLS BEAMLINE X9B 0.92 NSLS X9B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.1 20 93 11.3 75013 -3 15.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.1 20 93
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1GGT 2.1 20 72799 72799 7350 0.248 0.296 0.182 0.225 RANDOM 26.3
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] -3.03 -2.78 -0.56 6.12 1.32 -3.09
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 25.54 c_scangle_it 1.79 c_mcangle_it 1.48 c_angle_deg 1.24 c_scbond_it 1.19 c_mcbond_it 0.86 c_improper_angle_d 0.74 c_bond_d 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10580 Nucleic Acid Atoms Solvent Atoms 901 Heterogen Atoms 6
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing CNS refinement