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The crystal structure of the putative N-acetylmuramoyl-L-alanine amidase from Neisseria meningitidis
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.2 289 0.1 M Na/K phosphate pH 6.2, 10% PEG 3000, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.11 41.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.955 α = 90 b = 65.039 β = 109.53 c = 79.319 γ = 90
Symmetry Space Group P 1 21 1
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 Mirrors 2006-02-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.9794 APS 19-ID
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 74.74 96.2 0.086 16.08 4.4 81655 78552 2 12.8
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) 1.6 1.642 87 0.305 2.55 3.4 6302
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 (All) 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 SAD THROUGHOUT 1.6 74.74 78552 78552 4146 96.2 0.18201 0.18201 0.18011 0.1871 0.21779 0.2228 RANDOM 12.763
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] 1.27 1.01 -0.8 0.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.949 r_dihedral_angle_4_deg 18.724 r_dihedral_angle_3_deg 13.574 r_dihedral_angle_1_deg 5.656 r_scangle_it 3.599 r_scbond_it 2.647 r_mcangle_it 1.487 r_angle_refined_deg 1.444 r_mcbond_it 1.322 r_angle_other_deg 0.933
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.949 r_dihedral_angle_4_deg 18.724 r_dihedral_angle_3_deg 13.574 r_dihedral_angle_1_deg 5.656 r_scangle_it 3.599 r_scbond_it 2.647 r_mcangle_it 1.487 r_angle_refined_deg 1.444 r_mcbond_it 1.322 r_angle_other_deg 0.933 r_mcbond_other 0.275 r_symmetry_vdw_other 0.227 r_nbd_refined 0.22 r_nbd_other 0.201 r_nbtor_refined 0.174 r_symmetry_hbond_refined 0.171 r_xyhbond_nbd_refined 0.162 r_symmetry_vdw_refined 0.123 r_chiral_restr 0.09 r_nbtor_other 0.084 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5429 Nucleic Acid Atoms Solvent Atoms 797 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-2000 data reduction HKL-2000 data scaling