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Crystal Structure of IlvE a Branched Chain Amino Acid Transaminase from Mycobacterium tuberculosis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2HHF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.8 298 0.05 M HEPES HCL pH 7.0, 1% Trytpone, 12% PEG 3350, under oil, sitting drop, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.1 41.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.454 α = 90 b = 85.351 β = 90 c = 59.715 γ = 90
Symmetry Space Group P 21 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 4 DOUBLY FOCUSING TOROIDAL MIRROR 2008-11-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X12B NSLS X12B
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 39.2 99.6 0.072 7.7 4.9 26897 22.9
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) 1.9 2 100 0.386 1.9 4.9
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 2HHF 1.9 39.19 26897 1351 99.3 0.185 0.184 0.1864 0.198 0.2044 RANDOM 23.48
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 34.995 r_dihedral_angle_3_deg 13.657 r_dihedral_angle_4_deg 13.623 r_dihedral_angle_1_deg 5.775 r_scangle_it 2.442 r_scbond_it 1.467 r_angle_refined_deg 1.367 r_mcangle_it 0.979 r_mcbond_it 0.517 r_nbtor_refined 0.305
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.995 r_dihedral_angle_3_deg 13.657 r_dihedral_angle_4_deg 13.623 r_dihedral_angle_1_deg 5.775 r_scangle_it 2.442 r_scbond_it 1.467 r_angle_refined_deg 1.367 r_mcangle_it 0.979 r_mcbond_it 0.517 r_nbtor_refined 0.305 r_nbd_refined 0.193 r_symmetry_vdw_refined 0.151 r_symmetry_hbond_refined 0.147 r_chiral_restr 0.129 r_xyhbond_nbd_refined 0.12 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2567 Nucleic Acid Atoms Solvent Atoms 281 Heterogen Atoms 16
Software Software Software Name Purpose MOSFLM data reduction DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction PHENIX phasing