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CRYSTAL STRUCTURE OF A PUTATIVE PHOSPHOFRUCTOKINASE FROM STAPHYLOCOCCUS AUREUS
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2ABQ PDB ENTRY 2ABQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.6 0.2 M AMMONIUM ACETATE, 0.1M SODIUM CITRATE TRIBASIC DIHYDRATE PH 5.6, 30% W/V PEG 4000
Crystal Properties Matthews coefficient Solvent content 2.04 40
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.01 α = 90 b = 160.26 β = 90 c = 40.74 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 MARRESEARCH MIRRORS 2006-03-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 ESRF BM14
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 30 98.1 0.11 11.65 4.8 25486 1
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 2.28 2.42 98.1 0.11 11.65 4.8
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2ABQ 2.3 19.75 24100 1290 99.5 0.215 0.212 0.276 0.2571 RANDOM 32.32
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] -0.09 -0.05 0.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.892 r_dihedral_angle_4_deg 19.671 r_dihedral_angle_3_deg 14.99 r_dihedral_angle_1_deg 5.862 r_scangle_it 1.58 r_angle_refined_deg 1.195 r_scbond_it 0.994 r_mcangle_it 0.644 r_mcbond_it 0.381 r_nbtor_refined 0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.892 r_dihedral_angle_4_deg 19.671 r_dihedral_angle_3_deg 14.99 r_dihedral_angle_1_deg 5.862 r_scangle_it 1.58 r_angle_refined_deg 1.195 r_scbond_it 0.994 r_mcangle_it 0.644 r_mcbond_it 0.381 r_nbtor_refined 0.3 r_symmetry_vdw_refined 0.227 r_nbd_refined 0.205 r_symmetry_hbond_refined 0.163 r_xyhbond_nbd_refined 0.134 r_chiral_restr 0.076 r_bond_refined_d 0.011 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_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 4572 Nucleic Acid Atoms Solvent Atoms 130 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing