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Crystal structure of trypsin complexed with cycloheptanamine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3A7T
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 277 0.1M TRIS-HCL, 30% PEG 3350, 0.2M LITHIUM SULFATE, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.26 45.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.501 α = 90 b = 58.117 β = 90 c = 66.646 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 IMAGE PLATE RIGAKU RAXIS IV M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 1.54
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 1.74 50 95.5 0.031 0.031 43.8 6.5 21283 21283 -3 15.5
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) 1 1.74 1.8 91.1 0.11 0.11 12.5 6.3 2012
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3A7T 1.74 19.88 20173 20173 1072 99.82 0.16355 0.16355 0.16245 0.1677 0.18413 0.1551 RANDOM 10.487
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] 0.2 -0.42 0.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.544 r_dihedral_angle_4_deg 18.003 r_dihedral_angle_3_deg 10.772 r_dihedral_angle_1_deg 6.187 r_scangle_it 1.75 r_scbond_it 1.154 r_angle_refined_deg 1.089 r_symmetry_vdw_refined 0.88 r_angle_other_deg 0.795 r_mcangle_it 0.725
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.544 r_dihedral_angle_4_deg 18.003 r_dihedral_angle_3_deg 10.772 r_dihedral_angle_1_deg 6.187 r_scangle_it 1.75 r_scbond_it 1.154 r_angle_refined_deg 1.089 r_symmetry_vdw_refined 0.88 r_angle_other_deg 0.795 r_mcangle_it 0.725 r_mcbond_it 0.459 r_nbd_refined 0.233 r_symmetry_vdw_other 0.233 r_symmetry_hbond_refined 0.211 r_nbd_other 0.187 r_nbtor_refined 0.168 r_xyhbond_nbd_refined 0.094 r_nbtor_other 0.082 r_mcbond_other 0.078 r_chiral_restr 0.072 r_bond_refined_d 0.006 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1629 Nucleic Acid Atoms Solvent Atoms 301 Heterogen Atoms 17
Software Software Software Name Purpose CrystalClear data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling