2IAH

Crystal structure of the ferripyoverdine receptor of the outer membrane of Pseudomonas aeruginosa bound to ferripyoverdine.


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1XKH 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP4.6298Na Acetate 0.1 M, pH 4.6; 12 mM MgSO4, 12 % PEG 3350. Protein concentration in 0.5 % C8E4: 15 mg/ml, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.7955.86

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 82.123α = 90
b = 82.123β = 90
c = 286.225γ = 90
Symmetry
Space GroupP 41 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 2102005-09-05MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID290.97857ESRFID29

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
12.7346.9694.40.0457.32.924636-3
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)
12.732.8878.30.2741.32.22982

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 REPLACEMENTTHROUGHOUT1XKH2.7346.962344211931000.246110.244120.28522RANDOM51.148
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]
1.611.61-3.21
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.541
r_dihedral_angle_3_deg16.675
r_dihedral_angle_4_deg12.359
r_dihedral_angle_1_deg5.192
r_angle_refined_deg1.096
r_scangle_it0.677
r_scbond_it0.49
r_nbtor_refined0.297
r_mcangle_it0.296
r_mcbond_it0.208
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.541
r_dihedral_angle_3_deg16.675
r_dihedral_angle_4_deg12.359
r_dihedral_angle_1_deg5.192
r_angle_refined_deg1.096
r_scangle_it0.677
r_scbond_it0.49
r_nbtor_refined0.297
r_mcangle_it0.296
r_mcbond_it0.208
r_nbd_refined0.186
r_symmetry_vdw_refined0.152
r_xyhbond_nbd_refined0.114
r_chiral_restr0.066
r_bond_refined_d0.008
r_gen_planes_refined0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5973
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms32

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
SCALAdata scaling
MOLREPphasing