☰ Navigation Tabs
Crystal structure of the SHV-1 D104E beta-lactamase/beta-lactamase inhibitor protein (BLIP) complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2G2U PDB ENTRY 2G2U
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 291 40% ammonium sulfate, 100mM Tris, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 3.71 66.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 127.85 α = 90 b = 127.85 β = 90 c = 73.183 γ = 120
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 315 2006-04-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 1.1159 APS 19-ID
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 1.56 36.9 99.6 0.082 15.5 5.8 96515 96164 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.56 1.62 96.8 0.447 3.3 9313
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 PDB ENTRY 2G2U 1.56 36.9 91252 96142 4890 99.6 0.171 0.171 0.17 0.1709 0.179 0.1786 Free reflections were selected using the same reflections as in the solution of the molecular replacement model, 2G2U. 20.907
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] 0.34 0.17 0.34 -0.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.872 r_dihedral_angle_4_deg 15.499 r_dihedral_angle_3_deg 12.637 r_scangle_it 8.988 r_scbond_it 6.029 r_dihedral_angle_1_deg 5.705 r_mcangle_it 3.896 r_mcbond_it 2.981 r_angle_refined_deg 1.305 r_nbtor_refined 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.872 r_dihedral_angle_4_deg 15.499 r_dihedral_angle_3_deg 12.637 r_scangle_it 8.988 r_scbond_it 6.029 r_dihedral_angle_1_deg 5.705 r_mcangle_it 3.896 r_mcbond_it 2.981 r_angle_refined_deg 1.305 r_nbtor_refined 0.301 r_symmetry_hbond_refined 0.204 r_nbd_refined 0.197 r_symmetry_vdw_refined 0.172 r_xyhbond_nbd_refined 0.106 r_chiral_restr 0.091 r_bond_refined_d 0.01 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3260 Nucleic Acid Atoms Solvent Atoms 362 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing REFMAC refinement PDB_EXTRACT data extraction JBluIce-EPICS data collection HKL-2000 data reduction HKL-2000 data scaling