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SOLUTION NMR
Materials and Methods page
2LY9
  •   NMR Eperiment Details Hide
    Representative Model Choice Rationale
    lowest energy  
     
    Spectrometer Info
    Field Strength 750.0
    Manufacturer Varian
    Model INOVA
    Field Strength 600.0
    Manufacturer Varian
    Model INOVA
     
    Sample Conditions
    IDs solution ID:1 condition ID:1
    Sample Contents 0.4 mM [U-100% 13C; U-100% 15N] HR7907F, 0.02 % sodium azide, 10 mM DTT, 5 mM calcium chloride, 100 mM sodium chloride, 1 x Proteinase Inhibitors, 20 mM MES, 50 uM DSS, 90% H2O/10% D2O
    Solvent System 90% H2O/10% D2O
    pH 6.5
    Pressure 1
    Pressure Units atm
    Temperature 298
    IDs solution ID:2 condition ID:1
    Sample Contents 0.3 mM [5% 13C; U-100% 15N] HR7907F, 0.02 % sodium azide, 10 mM DTT, 5 mM calcium chloride, 100 mM sodium chloride, 1 x Proteinase Inhibitors, 20 mM MES, 50 uM DSS, 90% H2O/10% D2O
    Solvent System 90% H2O/10% D2O
    pH 6.5
    Pressure 1
    Pressure Units atm
    Temperature 298
     
     
  •   NMR Refinement Information Hide
    Refinement
    Method simulated annealing
    Details STRUCTURE DETERMINATION WAS PERFORMED BY RUNNING CYANA AND ASDP IN PARALLEL USING NOE-BASED CONSTRAINTS AND PHI AND PSI DIHEDRAL ANGLE CONSTRAINTS FROM TALOS+. CONSENSUS PEAK ASSIGNMENTS WERE SELECTED AND USED IN ITERATIVE REFINEMENT WITH CYANA. THE 20 CONFORMERS OUT OF 100 WITH THE LOWEST TARGET FUNCTION WERE FURTHER REFINED BY SIMULATED ANNEALING IN EXPLICIT WATER BATH USING THE PROGRAM CNS WITH PARAM19 FORCE FIELD NMR ENSEMBLE INFORMATION
     
  •   NMR Ensemble Information Hide
    Ensemble
    Conformer Selection Criteria target function
    Conformers Calculated Total Number 100
    Conformers Submitted Total Number 20
     
  •   NMR Experimental Information Hide
    Experiment
    IDs experiment ID:1 solution ID:1 conditons ID:1
    Type 2D 1H-15N HSQC
    IDs experiment ID:10 solution ID:1 conditons ID:1
    Type (4,3)D GFT HABCAB(CO)NH
    IDs experiment ID:11 solution ID:1 conditons ID:1
    Type 3D (H)CCH-COSY aromatic
    IDs experiment ID:2 solution ID:1 conditons ID:1
    Type 2D 1H-13C HSQC
    IDs experiment ID:3 solution ID:1 conditons ID:1
    Type 3D HNCO
    IDs experiment ID:4 solution ID:1 conditons ID:1
    Type (4,3)D GFT CABCA(CO)NHN
    IDs experiment ID:5 solution ID:1 conditons ID:1
    Type (4,3)D GFT HNNCABCA
    IDs experiment ID:6 solution ID:2 conditons ID:1
    Type 2D 1H-13C HSQC
    IDs experiment ID:7 solution ID:1 conditons ID:1
    Type (4,3)D GFT HCCH-COSY alipahtic
    IDs experiment ID:8 solution ID:1 conditons ID:1
    Type 3D (H)CCH-TOCSY aliphatic
    IDs experiment ID:9 solution ID:1 conditons ID:1
    Type 3D 13C/15N-edited NOESY
     
  •   Software and Computing Hide
    NMR Software
    Authors Bhattacharya, Montelione
    Classification structure validation
    Software Name PSVS
    Authors Keller and Wuthrich
    Classification peak picking
    Software Name Cara 1.8.4
    Authors Keller and Wuthrich
    Classification chemical shift assignment
    Software Name Cara 1.8.4
    Authors Guntert, Mumenthaler and Wuthrich
    Classification refinement
    Software Name CYANA 3.0
    Authors Guntert, Mumenthaler and Wuthrich
    Classification geometry optimization
    Software Name CYANA 3.0
    Authors Guntert, Mumenthaler and Wuthrich
    Classification structure solution
    Software Name CYANA 3.0
    Authors Huang, Tejero, Powers and Montelione
    Classification data analysis
    Software Name AS-DP 1.0
    Authors Huang, Tejero, Powers and Montelione
    Classification refinement
    Software Name AS-DP 1.0
    Authors Zimmerman, Moseley, Kulikowski and Montelione
    Classification data analysis
    Software Name AutoAssign 2.3.0
    Authors Zimmerman, Moseley, Kulikowski and Montelione
    Classification chemical shift assignment
    Software Name AutoAssign 2.3.0
    Authors Bartels et al.
    Classification data analysis
    Software Name XEASY
    Authors Varian
    Classification collection
    Software Name VNMRJ
    Authors Shen, Cornilescu, Delaglio and Bax
    Classification geometry optimization
    Software Name TALOS+