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Crystal Structure of BlaC-E166A covalently bound with Methicillin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3DWZ PDB entry 3DWZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 298 0.1 M HEPES, 2 M NH4H2PO4, pH 7.5, Vapor diffusion, Sitting drop, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.24 45.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.355 α = 90 b = 67.908 β = 90 c = 75.569 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 CCD ADSC QUANTUM 210 2009-09-26 SINGLE WAVELENGTH 2 1 x-ray 100 CCD ADSC QUANTUM 210 2009-09-26 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X12C 1.000 NSLS X12C 2 SYNCHROTRON NSLS BEAMLINE X29A 1.000 NSLS X29A
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 1.9 39.94 95.99 0.103 5.2 7.2 19843 15.323
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) 1,2 1.9 1.949 95.36 0.315 2.3 6.4 2796
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT PDB entry 3DWZ 1.9 39.94 19808 1018 95.99 0.155 0.153 0.1573 0.191 0.1957 RANDOM 17.13
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] -0.01 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.615 r_dihedral_angle_4_deg 20.621 r_dihedral_angle_3_deg 11.706 r_dihedral_angle_1_deg 6.153 r_scangle_it 3.364 r_scbond_it 2.179 r_angle_refined_deg 1.392 r_mcangle_it 1.294 r_mcbond_it 0.792 r_nbtor_refined 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.615 r_dihedral_angle_4_deg 20.621 r_dihedral_angle_3_deg 11.706 r_dihedral_angle_1_deg 6.153 r_scangle_it 3.364 r_scbond_it 2.179 r_angle_refined_deg 1.392 r_mcangle_it 1.294 r_mcbond_it 0.792 r_nbtor_refined 0.301 r_nbd_refined 0.213 r_symmetry_vdw_refined 0.207 r_xyhbond_nbd_refined 0.142 r_symmetry_hbond_refined 0.116 r_chiral_restr 0.096 r_bond_refined_d 0.013 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1984 Nucleic Acid Atoms Solvent Atoms 215 Heterogen Atoms 36
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection MOSFLM data reduction SCALEPACK data scaling