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Crystal structure of NDM-1 in complex with hydrolyzed cefuroxime - new refinement
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 295 30% (w/v) PEG3350, 0.1M Bis-Tris pH 6.0 and 0.2 M lithium sulfate, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.01 38.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.18 α = 90 b = 78.89 β = 90 c = 133.06 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 315r 2012-04-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17B1 0.9791 SSRF BL17B1
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 1.3 29.36 98.8 93575
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.3 29.36 88894 4618 91.38 0.10251 0.10096 0.13265 0.1604 copied from 4rl0 14.575
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] -0.08 0.05 0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.98 r_sphericity_free 29.013 r_dihedral_angle_4_deg 19.274 r_dihedral_angle_3_deg 11.643 r_sphericity_bonded 9.444 r_dihedral_angle_1_deg 6.299 r_long_range_B_refined 4.265 r_long_range_B_other 4.264 r_scangle_other 3.376 r_scbond_other 3.059
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.98 r_sphericity_free 29.013 r_dihedral_angle_4_deg 19.274 r_dihedral_angle_3_deg 11.643 r_sphericity_bonded 9.444 r_dihedral_angle_1_deg 6.299 r_long_range_B_refined 4.265 r_long_range_B_other 4.264 r_scangle_other 3.376 r_scbond_other 3.059 r_scbond_it 3.058 r_mcangle_it 2.193 r_mcangle_other 2.193 r_mcbond_other 1.875 r_mcbond_it 1.874 r_rigid_bond_restr 1.658 r_angle_refined_deg 1.625 r_angle_other_deg 0.99 r_chiral_restr 0.104 r_bond_refined_d 0.013 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 0.002 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_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3549 Nucleic Acid Atoms Solvent Atoms 676 Heterogen Atoms 63
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing