3PUU

Crystal Structure of Glu121Gln mutant of E. coli Aminopeptidase N


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2HPO 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.82981.0M ammonium sulfate, 50mM Hepes, pH 5.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
3.5565.31

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 120.764α = 90
b = 120.764β = 90
c = 170.844γ = 120
Symmetry
Space GroupP 31 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315mirror2007-05-05MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 8.2.11.0000ALS8.2.1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge 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
12.15501000.08225.56.315171415171411
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.152.23100

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 DIFFRACTIONTHROUGHOUT2HPO2.1549.3374863396299.980.153720.151940.18717RANDOM19.388
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_2_deg36.348
r_dihedral_angle_4_deg17.572
r_dihedral_angle_3_deg13.642
r_dihedral_angle_1_deg5.888
r_scangle_it4.154
r_scbond_it2.659
r_mcangle_it1.468
r_angle_refined_deg1.427
r_mcbond_it0.972
r_nbtor_refined0.299
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.348
r_dihedral_angle_4_deg17.572
r_dihedral_angle_3_deg13.642
r_dihedral_angle_1_deg5.888
r_scangle_it4.154
r_scbond_it2.659
r_mcangle_it1.468
r_angle_refined_deg1.427
r_mcbond_it0.972
r_nbtor_refined0.299
r_symmetry_vdw_refined0.209
r_nbd_refined0.198
r_xyhbond_nbd_refined0.164
r_symmetry_hbond_refined0.162
r_chiral_restr0.102
r_bond_refined_d0.016
r_gen_planes_refined0.006
r_metal_ion_refined0.003
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms6940
Nucleic Acid Atoms
Solvent Atoms752
Heterogen Atoms65

Software

Software
Software NamePurpose
ADSCdata collection
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
REFMACphasing