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Crystal structure of Putative NTF2-like transpeptidase (NP_281412.1) from CAMPYLOBACTER JEJUNI at 2.00 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 277 50.0000% PEG-200, 0.1M Citrate pH 5.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.3 46.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 94.442 α = 90 b = 89.807 β = 110.5 c = 59.665 γ = 90
Symmetry Space Group C 1 2 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 MARMOSAIC 325 mm CCD Flat mirror (vertical focusing) 2009-06-11 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.91837,0.97908,0.97855 SSRL BL11-1
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 28.571 97.3 0.055 9.72 31219 -3 32.375
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 2.07 92 0.717 1.2
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2 28.571 31216 1576 99.3 0.216 0.214 0.2303 0.256 0.2762 RANDOM 18.655
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] -1.42 0.98 0.08 2.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.55 r_dihedral_angle_4_deg 21.204 r_dihedral_angle_3_deg 17.179 r_dihedral_angle_1_deg 6.97 r_scangle_it 4.502 r_scbond_it 3.039 r_mcangle_it 2.308 r_angle_refined_deg 1.728 r_mcbond_it 1.3 r_angle_other_deg 1.216
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.55 r_dihedral_angle_4_deg 21.204 r_dihedral_angle_3_deg 17.179 r_dihedral_angle_1_deg 6.97 r_scangle_it 4.502 r_scbond_it 3.039 r_mcangle_it 2.308 r_angle_refined_deg 1.728 r_mcbond_it 1.3 r_angle_other_deg 1.216 r_mcbond_other 0.24 r_chiral_restr 0.099 r_bond_refined_d 0.017 r_gen_planes_refined 0.006 r_bond_other_d 0.003 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3330 Nucleic Acid Atoms Solvent Atoms 134 Heterogen Atoms 141
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction SHELXD phasing autoSHARP phasing