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Crystal structure of Rv1498A protein from mycobacterium tuberculosis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2CC7 PDB ENTRY 2CC7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.8 295 2M NH4H2PO4SODIUM, 100 MILLIMOLAR TRIS (PH 8.5), temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.1 40.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 143.946 α = 90 b = 143.946 β = 90 c = 143.946 γ = 90
Symmetry Space Group P 21 3
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 Bruker Platinum 135 HELIOS MIRRORS 2009-04-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR-H
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.88 50 100 0.15 8.8 43.9 22825
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.88 2.95 100 0.69 41.5
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 2CC7 2.88 20 21544 1163 99.87 0.25382 0.25225 0.2473 0.28285 0.2756 RANDOM 38.895
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 40.19 r_dihedral_angle_3_deg 17.929 r_dihedral_angle_4_deg 14.611 r_dihedral_angle_1_deg 4.034 r_mcangle_it 2.73 r_scangle_it 1.974 r_mcbond_it 1.528 r_scbond_it 1.101 r_angle_refined_deg 0.899 r_nbtor_refined 0.312
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.19 r_dihedral_angle_3_deg 17.929 r_dihedral_angle_4_deg 14.611 r_dihedral_angle_1_deg 4.034 r_mcangle_it 2.73 r_scangle_it 1.974 r_mcbond_it 1.528 r_scbond_it 1.101 r_angle_refined_deg 0.899 r_nbtor_refined 0.312 r_symmetry_vdw_refined 0.279 r_nbd_refined 0.251 r_symmetry_hbond_refined 0.168 r_xyhbond_nbd_refined 0.161 r_metal_ion_refined 0.158 r_chiral_restr 0.087 r_symmetry_metal_ion_refined 0.053 r_bond_refined_d 0.005 r_gen_planes_refined 0.003 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_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8576 Nucleic Acid Atoms Solvent Atoms 267 Heterogen Atoms 13
Software Software Software Name Purpose MOLREP phasing PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling