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Crystal structure of carboxynorspermidine decarboxylase complexed with Norspermidine from Campylobacter jejuni
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 2.75 M AmSO4, 0.1 M BICINE pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.2 44.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 144.498 α = 90 b = 144.498 β = 90 c = 79.901 γ = 90
Symmetry Space Group P 43 21 2
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 2009-02-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97948 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 1.9 102.06 99.8 0.136 66838 66670 2 2
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 1.9 1.95 98.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.9 102.06 2 66838 66670 3376 99.75 0.179 0.18145 0.179 0.21858 0.266 RANDOM 14.582
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] -0.47 -0.47 0.94
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.998 r_dihedral_angle_3_deg 14.395 r_dihedral_angle_4_deg 12.702 r_dihedral_angle_1_deg 6.781 r_scangle_it 4.498 r_scbond_it 3.091 r_mcangle_it 1.886 r_angle_refined_deg 1.824 r_mcbond_it 1.132 r_angle_other_deg 0.988
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.998 r_dihedral_angle_3_deg 14.395 r_dihedral_angle_4_deg 12.702 r_dihedral_angle_1_deg 6.781 r_scangle_it 4.498 r_scbond_it 3.091 r_mcangle_it 1.886 r_angle_refined_deg 1.824 r_mcbond_it 1.132 r_angle_other_deg 0.988 r_mcbond_other 0.418 r_chiral_restr 0.122 r_bond_refined_d 0.024 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5873 Nucleic Acid Atoms Solvent Atoms 384 Heterogen Atoms 51
Software Software Software Name Purpose HKL-3000 data collection SHELXD phasing REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling