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crystal structure of aminoglycoside acetyltransferase AAC(6')-Ib in complex whith coenzyme A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2PR8 pdb entry 2PR8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 291 1.5 M K2HPO4
0.06M NaH2PO4
0.1M guanidine-HCl, pH 7, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.78 55.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.62 α = 90 b = 57.62 β = 90 c = 146.672 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 77 CCD ADSC QUANTUM 4r 2007-03-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-3 0.9310 ESRF ID14-3
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 1.8 53.63 100 0.059 0.059 8.3 13.5 23842 23836 1
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) 1.8 1.9 100 0.183 0.183 4.1 10.5 3394
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 2PR8 1.8 40.76 23765 23761 1219 99.98 0.209 0.21 0.209 0.2079 0.226 0.2267 RANDOM 15.468
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.842 r_dihedral_angle_4_deg 12.229 r_dihedral_angle_3_deg 10.485 r_dihedral_angle_1_deg 4.859 r_scangle_it 1.804 r_scbond_it 1.044 r_angle_refined_deg 1.003 r_mcangle_it 0.753 r_mcbond_it 0.411 r_nbtor_refined 0.295
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.842 r_dihedral_angle_4_deg 12.229 r_dihedral_angle_3_deg 10.485 r_dihedral_angle_1_deg 4.859 r_scangle_it 1.804 r_scbond_it 1.044 r_angle_refined_deg 1.003 r_mcangle_it 0.753 r_mcbond_it 0.411 r_nbtor_refined 0.295 r_nbd_refined 0.176 r_symmetry_vdw_refined 0.128 r_xyhbond_nbd_refined 0.087 r_symmetry_hbond_refined 0.085 r_chiral_restr 0.063 r_bond_refined_d 0.006 r_gen_planes_refined 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1360 Nucleic Acid Atoms Solvent Atoms 172 Heterogen Atoms 48
Software Software Software Name Purpose SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection MOSFLM data reduction