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Structure of a TEM-1 beta-lactamase insertant allosterically regulated by kanamycin and anions.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1BTL PDB ENTRY 1BTL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.2 RESERVOIR: BIS-TRIS 0.1M PH6.2, PEG6000 25%(W/V), NACL 0.3M, NAN3 0.02%(W/V). HANGING DROP: 1UL PROTEIN AND 1 UL RESERVOIR
Crystal Properties Matthews coefficient Solvent content 2 38.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.113 α = 90 b = 70.609 β = 90 c = 78.313 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 MARRESEARCH TWO MIRRORS ARE USED FOR VERTICAL FOCUSSING. 2005-11-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM30A ESRF BM30A
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 1.6 40 96.7 0.04 23.9 3.5 34091
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 1.6 1.65 93.2 0.22 8.2 3.1
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1BTL 1.6 52.41 32339 1710 96.8 0.171 0.169 0.178 0.206 RANDOM 15.04
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 34.593 r_dihedral_angle_4_deg 15.851 r_dihedral_angle_3_deg 12.323 r_dihedral_angle_1_deg 5.394 r_scangle_it 3.973 r_scbond_it 2.749 r_angle_refined_deg 1.672 r_mcangle_it 1.599 r_mcbond_it 1.437 r_angle_other_deg 1.065
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.593 r_dihedral_angle_4_deg 15.851 r_dihedral_angle_3_deg 12.323 r_dihedral_angle_1_deg 5.394 r_scangle_it 3.973 r_scbond_it 2.749 r_angle_refined_deg 1.672 r_mcangle_it 1.599 r_mcbond_it 1.437 r_angle_other_deg 1.065 r_symmetry_vdw_refined 0.225 r_nbd_refined 0.22 r_symmetry_vdw_other 0.209 r_nbd_other 0.203 r_nbtor_refined 0.174 r_symmetry_hbond_refined 0.145 r_xyhbond_nbd_refined 0.142 r_chiral_restr 0.106 r_nbtor_other 0.088 r_bond_refined_d 0.018 r_gen_planes_refined 0.007 r_bond_other_d 0.003 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2095 Nucleic Acid Atoms Solvent Atoms 352 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing