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Crystal structure of NDM-1 bound to hydrolyzed methicillin
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.5 298 0.2M MgCl2, 25% PEG3350, 0.1M bis-tris , pH 5.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 1.82 32.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.12 α = 90 b = 79.36 β = 90 c = 133.83 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 RAYONIX MX300HE 2011-11-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08B1-1 CLSI 08B1-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.17 25.43 96.8 137386 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.17 1.23 93.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 1.17 25.43 135855 130434 6897 96 0.131 0.13 0.1298 0.159 0.1583 RANDOM 13.3
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] 0.28 -0.21 -0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.727 r_dihedral_angle_4_deg 19.306 r_dihedral_angle_3_deg 11.993 r_scangle_it 8.726 r_dihedral_angle_1_deg 6.419 r_scbond_it 6.077 r_mcangle_it 4.407 r_mcbond_it 2.966 r_rigid_bond_restr 2.908 r_angle_refined_deg 2.107
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.727 r_dihedral_angle_4_deg 19.306 r_dihedral_angle_3_deg 11.993 r_scangle_it 8.726 r_dihedral_angle_1_deg 6.419 r_scbond_it 6.077 r_mcangle_it 4.407 r_mcbond_it 2.966 r_rigid_bond_restr 2.908 r_angle_refined_deg 2.107 r_chiral_restr 0.135 r_bond_refined_d 0.017 r_gen_planes_refined 0.014 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3594 Nucleic Acid Atoms Solvent Atoms 443 Heterogen Atoms 59
Software Software Software Name Purpose MxDC data collection PHASER phasing REFMAC refinement MOSFLM data reduction SCALA data scaling