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Crystal structure of Rv0371c from Mycobacterium tuberculosis H37Rv
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2WE9 PDB ENTRY 2WE9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 0.1 M MES PH 6.0 AND 18% PEG 4000 BY MICRO-SEEDING
Crystal Properties Matthews coefficient Solvent content 2.2 44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.219 α = 90 b = 61.019 β = 90 c = 143.386 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 294 CCD ADSC CCD MIRRORS 2008-11-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 6C1 PAL/PLS 6C1
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 1.65 50 89.4 0.05 37.6 7.1 40721 1.65
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 1.65 1.71 98.3 0.49 3.36 6.9
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 PDB ENTRY 2WE9 1.65 31.25 38549 2053 89.3 0.214 0.211 0.2112 0.265 0.2652 RANDOM 21.68
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] -0.16 0.12 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.139 r_dihedral_angle_4_deg 19.798 r_dihedral_angle_3_deg 12.99 r_dihedral_angle_1_deg 11.302 r_scangle_it 5.588 r_scbond_it 3.889 r_mcangle_it 2.457 r_mcbond_it 1.565 r_angle_refined_deg 1.156 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.139 r_dihedral_angle_4_deg 19.798 r_dihedral_angle_3_deg 12.99 r_dihedral_angle_1_deg 11.302 r_scangle_it 5.588 r_scbond_it 3.889 r_mcangle_it 2.457 r_mcbond_it 1.565 r_angle_refined_deg 1.156 r_nbtor_refined 0.306 r_nbd_refined 0.205 r_symmetry_vdw_refined 0.195 r_xyhbond_nbd_refined 0.145 r_symmetry_hbond_refined 0.139 r_chiral_restr 0.079 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_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 2872 Nucleic Acid Atoms Solvent Atoms 338 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement DENZO data reduction HKL-2000 data scaling AMoRE phasing