☰ Navigation Tabs
Structure of the gentamicin-APH(2")-IIa complex
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 unbuffered 16% PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.67 53.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.7 α = 90 b = 58.8 β = 98.4 c = 81.4 γ = 90
Symmetry Space Group P 1 21 1
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 2004-06-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.979 SSRL BL9-2
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 2.5 80.6 98.9 0.042 21.4 25799 2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 2.5 35 24499 1299 98.93 0.21319 0.21002 0.2017 0.27103 0.2596 RANDOM 38.614
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] 2.55 0.29 -3.12 0.65
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.529 r_dihedral_angle_3_deg 19.266 r_dihedral_angle_4_deg 17.919 r_dihedral_angle_1_deg 5.694 r_scangle_it 2.517 r_scbond_it 1.656 r_angle_refined_deg 1.301 r_mcangle_it 1.024 r_mcbond_it 0.602 r_nbtor_refined 0.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.529 r_dihedral_angle_3_deg 19.266 r_dihedral_angle_4_deg 17.919 r_dihedral_angle_1_deg 5.694 r_scangle_it 2.517 r_scbond_it 1.656 r_angle_refined_deg 1.301 r_mcangle_it 1.024 r_mcbond_it 0.602 r_nbtor_refined 0.32 r_nbd_refined 0.235 r_symmetry_hbond_refined 0.211 r_xyhbond_nbd_refined 0.191 r_symmetry_vdw_refined 0.191 r_chiral_restr 0.104 r_bond_refined_d 0.013 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4978 Nucleic Acid Atoms Solvent Atoms 238 Heterogen Atoms 86
Software Software Software Name Purpose Blu-Ice data collection SOLVE phasing REFMAC refinement XDS data reduction XSCALE data scaling