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Crystal Structure of IMP-1 metallo-beta-lactamase complexed with a 3-aminophtalic acid inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other Unpublished data
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.8 293 24% PEG MME 2000, 0.2M ammonium sulfate, 2mM Dithiothreitol, 0.1M sodium acetate, pH 4.8, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.67 53.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.994 α = 90 b = 52.795 β = 90 c = 198.384 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 315 2004-10-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1.0000 SPring-8 BL41XU
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 19.94 99.9 0.079 11.9 6.55 31542 33.8
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 2.17 100 0.394 3.5 6.01 3101
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(Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT Unpublished data 2.1 19.94 29866 1511 99.42 0.23454 0.23262 0.232 0.27181 0.2652 RANDOM 37.019
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] 2.08 0.03 -2.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.79 r_dihedral_angle_4_deg 15.677 r_dihedral_angle_3_deg 14.318 r_dihedral_angle_1_deg 5.773 r_scangle_it 2.158 r_scbond_it 1.24 r_angle_refined_deg 1.138 r_mcangle_it 0.926 r_mcbond_it 0.484 r_chiral_restr 0.072
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.79 r_dihedral_angle_4_deg 15.677 r_dihedral_angle_3_deg 14.318 r_dihedral_angle_1_deg 5.773 r_scangle_it 2.158 r_scbond_it 1.24 r_angle_refined_deg 1.138 r_mcangle_it 0.926 r_mcbond_it 0.484 r_chiral_restr 0.072 r_bond_refined_d 0.008 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3388 Nucleic Acid Atoms Solvent Atoms 51 Heterogen Atoms 42
Software Software Software Name Purpose BSS data collection MOLREP phasing REFMAC refinement CrystalClear data reduction CrystalClear data scaling