1U1X

Structure and function of phenazine-biosynthesis protein PhzF from Pseudomonas fluorescens 2-79


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1U1VPDB entry 1u1v

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP4.82930.1M 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 coefficientSolvent content
2.0439.78

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 92.6α = 90
b = 99.86β = 90
c = 57γ = 90
Symmetry
Space GroupP 21 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATEMARRESEARCHMirror2004-05-24MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODEENRAF-NONIUS FR5711.542

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.882097.80.075144.94315143151324
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.881.9895.70.2845.44.9

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB entry 1u1v1.8829.4940681216397.950.15250.150110.19711RANDOM17.396
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
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg6.609
r_scangle_it5.044
r_angle_other_deg3.815
r_scbond_it3.212
r_mcangle_it1.977
r_angle_refined_deg1.885
r_mcbond_it1.18
r_symmetry_vdw_other0.327
r_nbd_other0.309
r_nbd_refined0.237
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg6.609
r_scangle_it5.044
r_angle_other_deg3.815
r_scbond_it3.212
r_mcangle_it1.977
r_angle_refined_deg1.885
r_mcbond_it1.18
r_symmetry_vdw_other0.327
r_nbd_other0.309
r_nbd_refined0.237
r_symmetry_vdw_refined0.199
r_xyhbond_nbd_refined0.168
r_symmetry_hbond_refined0.168
r_chiral_restr0.129
r_nbtor_other0.114
r_bond_refined_d0.025
r_gen_planes_other0.014
r_gen_planes_refined0.01
r_bond_other_d
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4248
Nucleic Acid Atoms
Solvent Atoms373
Heterogen Atoms22

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
XDSdata scaling
MOLREPphasing