1K2Y

Crystal Structure of Phosphomannomutase/Phosphoglucomutase S108A mutant from P. aeruginosa


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1K35Native protein, pdb entry 1k35

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7298Na,K tartrate, MOPS, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.2544.8

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 71.064α = 90
b = 71.306β = 90
c = 96.586γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU RAXIS IVOsmic confocalMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RU200

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
11.754097.40.05328.54.9491054910533.22
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
1.751.8198.80.3632.3

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONrefinement of wild-type structureTHROUGHOUTNative protein, pdb entry 1k351.75404646746467249197.50.16970.16970.168460.19455RANDOM28.905
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]
-0.64-0.561.2
RMS Deviations
KeyRefinement Restraint Deviation
p_multtor_nbd18.087
p_scangle_it4.56
p_singtor_nbd4.493
p_scbond_it2.796
p_mcangle_it1.629
p_angle_deg1.59
p_mcbond_it0.925
P_xyhbond_nbd0.181
p_hb_or_metal_coord0.145
p_chiral_restr0.104
RMS Deviations
KeyRefinement Restraint Deviation
p_multtor_nbd18.087
p_scangle_it4.56
p_singtor_nbd4.493
p_scbond_it2.796
p_mcangle_it1.629
p_angle_deg1.59
p_mcbond_it0.925
P_xyhbond_nbd0.181
p_hb_or_metal_coord0.145
p_chiral_restr0.104
p_bond_d0.017
p_plane_restr0.007
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3458
Nucleic Acid Atoms
Solvent Atoms404
Heterogen Atoms11

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling