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Structure and function of phenazine-biosynthesis protein PhzF from Pseudomonas fluorescens 2-79
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1U1V PDB entry 1u1v
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.8 293 0.1M Na-Citrate, 0.2M NH4-Acetate, 28% (w/v) PEG 4000, crystals induced with 10mM 3-hydroxyanthranilic acid (inhibitor), then cross-soaked in mother liquor containing 10mM HHA for 10 days, pH 4.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.04 39.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.6 α = 90 b = 99.86 β = 90 c = 57 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 IMAGE PLATE MARRESEARCH Mirror 2004-05-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE ENRAF-NONIUS FR571 1.542
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 1.88 20 97.8 0.075 14 4.9 43151 43151 3 24
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 1.88 1.98 95.7 0.284 5.4 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 PDB entry 1u1v 1.88 29.49 40681 2163 97.95 0.1525 0.15011 0.1637 0.19711 0.2106 RANDOM 17.396
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.609 r_scangle_it 5.044 r_angle_other_deg 3.815 r_scbond_it 3.212 r_mcangle_it 1.977 r_angle_refined_deg 1.885 r_mcbond_it 1.18 r_symmetry_vdw_other 0.327 r_nbd_other 0.309 r_nbd_refined 0.237
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.609 r_scangle_it 5.044 r_angle_other_deg 3.815 r_scbond_it 3.212 r_mcangle_it 1.977 r_angle_refined_deg 1.885 r_mcbond_it 1.18 r_symmetry_vdw_other 0.327 r_nbd_other 0.309 r_nbd_refined 0.237 r_symmetry_vdw_refined 0.199 r_xyhbond_nbd_refined 0.168 r_symmetry_hbond_refined 0.168 r_chiral_restr 0.129 r_nbtor_other 0.114 r_bond_refined_d 0.025 r_gen_planes_other 0.014 r_gen_planes_refined 0.01 r_bond_other_d
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4248 Nucleic Acid Atoms Solvent Atoms 373 Heterogen Atoms 22
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction XDS data scaling MOLREP phasing