2QFL

Structure of SuhB: Inositol monophosphatase and extragenic suppressor from E. coli


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelOtherModel constructed from the consensus sequences of human, MJ0109 and AF2372 enzymes

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.129820% PEG 3350, 0.2M ammonium acetate, 0.05M TRIS, pH 7.1, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties
Matthews coefficientSolvent content
2.0539.92

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 89.767α = 90
b = 45.447β = 125.43
c = 71.758γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray110IMAGE PLATERIGAKU RAXIS HTCOsmic blue confocal2006-11-11MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU FR-E+ DW1.5418

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
11.8247950.0519.93.3159551511525
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)
1.91.97360.274.12.6740

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 (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTHybrid of human and MJ IMPase1.947151131511383094.970.213310.209220.28555RANDOM40.195
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]
0.97-1.580.35-3.16
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.111
r_dihedral_angle_4_deg17.369
r_dihedral_angle_3_deg16.895
r_dihedral_angle_1_deg7.449
r_scangle_it4.234
r_scbond_it2.784
r_mcangle_it2.087
r_angle_refined_deg1.851
r_mcbond_it1.288
r_nbtor_refined0.314
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.111
r_dihedral_angle_4_deg17.369
r_dihedral_angle_3_deg16.895
r_dihedral_angle_1_deg7.449
r_scangle_it4.234
r_scbond_it2.784
r_mcangle_it2.087
r_angle_refined_deg1.851
r_mcbond_it1.288
r_nbtor_refined0.314
r_nbd_refined0.237
r_symmetry_vdw_refined0.237
r_symmetry_hbond_refined0.231
r_xyhbond_nbd_refined0.192
r_chiral_restr0.138
r_bond_refined_d0.021
r_gen_planes_refined0.008
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2007
Nucleic Acid Atoms
Solvent Atoms96
Heterogen Atoms4

Software

Software
Software NamePurpose
REFMACrefinement
CrystalCleardata collection
HKL-2000data reduction
SCALEPACKdata scaling
MOLREPphasing