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Crystal structure of histidinol-phosphate aminotransferase (YP_297314.1) from RALSTONIA EUTROPHA JMP134 at 2.05 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4 277 0.8M (NH4)2SO4, 0.1M Citrate pH 4.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.46 50.03
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.579 α = 90 b = 93.433 β = 90 c = 111.341 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 100 CCD MARMOSAIC 325 mm CCD Flat collimating mirror, toroid focusing mirror 2008-08-11 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91837,0.97934 SSRL BL9-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.05 29.988 100 0.102 0.102 8.8 3.6 50845 30.759
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.05 2.1 100 0.758 0.758 1.6 3.6 3708
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 2.05 29.988 50789 2572 99.94 0.196 0.194 0.1995 0.237 0.243 RANDOM 51.396
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] 4.16 -1.81 -2.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.014 r_dihedral_angle_4_deg 16.371 r_dihedral_angle_3_deg 10.951 r_scangle_it 4.643 r_scbond_it 3.733 r_dihedral_angle_1_deg 3.594 r_mcangle_it 1.88 r_angle_refined_deg 1.671 r_angle_other_deg 1.388 r_mcbond_it 1.257
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.014 r_dihedral_angle_4_deg 16.371 r_dihedral_angle_3_deg 10.951 r_scangle_it 4.643 r_scbond_it 3.733 r_dihedral_angle_1_deg 3.594 r_mcangle_it 1.88 r_angle_refined_deg 1.671 r_angle_other_deg 1.388 r_mcbond_it 1.257 r_mcbond_other 0.284 r_symmetry_vdw_refined 0.208 r_symmetry_vdw_other 0.178 r_nbd_refined 0.174 r_nbtor_refined 0.148 r_nbd_other 0.142 r_symmetry_hbond_refined 0.109 r_xyhbond_nbd_refined 0.1 r_chiral_restr 0.092 r_nbtor_other 0.072 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d 0.004 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5358 Nucleic Acid Atoms Solvent Atoms 378 Heterogen Atoms 119
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction SHARP phasing