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Structure and function of the phenazine biosynthetic protein PhzF from Pseudomonas fluorescens
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1U1W
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 292 28% (w/v) PEG 4000, 0.1M Na-Citrate, 0.2M (NH4) Acetate, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 2.1 40.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.95 α = 90 b = 100.43 β = 90 c = 57.49 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 2004-05-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.934 ESRF ID14-2
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 1.9 20 99.6 0.104 12.8 5.5 43122 43013 -3 23
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 1.9 2 98.7 0.463 3.8 5.4
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 rigid body refinement of 1U1W THROUGHOUT 1U1W 1.9 19.8 40843 2169 99.75 0.14446 0.14221 0.1486 0.18657 0.1921 RANDOM 17.342
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 6.572 r_scangle_it 5.075 r_angle_other_deg 3.832 r_scbond_it 3.191 r_mcangle_it 1.884 r_angle_refined_deg 1.747 r_mcbond_it 1.091 r_symmetry_vdw_other 0.337 r_nbd_other 0.304 r_symmetry_hbond_refined 0.242
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.572 r_scangle_it 5.075 r_angle_other_deg 3.832 r_scbond_it 3.191 r_mcangle_it 1.884 r_angle_refined_deg 1.747 r_mcbond_it 1.091 r_symmetry_vdw_other 0.337 r_nbd_other 0.304 r_symmetry_hbond_refined 0.242 r_nbd_refined 0.241 r_symmetry_vdw_refined 0.178 r_xyhbond_nbd_refined 0.162 r_chiral_restr 0.122 r_nbtor_other 0.109 r_bond_refined_d 0.023 r_gen_planes_other 0.013 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 432 Heterogen Atoms 22
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling