C13H16N2O6PS | MD Topology | NMR | X-Ray

Visualize with JSmol

Show Structure

Molecule Information
Molecule Typenucleic acid
Residue Name (RNME)GI1W
FormulaC13H16N2O6PS
IUPAC InChI Key
BEKWDIOLXUFJSZ-DZVZLAIZSA-N
IUPAC InChI
InChI=1S/C13H19N2O6PS/c1-6-5-15(11(17)14-9(6)16)8-4-12(18)2-7-3-13(7,10(12)20-8)21-22(19)23/h6-8,10,18,22H,2-5H2,1H3,(H,19,23)(H,14,16,17)/t6-,7-,8-,10+,12+,13-/m1/s1
IUPAC Name
Common Name
Canonical SMILES (Daylight)
S[P@H](=O)O[C@]12C[C@H]1C[C@]1(O)C[C@@H](O[C@H]21)N1C[C@H](C(=O)NC1=O)C
Number of atoms39
Net Charge-1
Forcefieldmultiple
Molecule ID358355
Visibility Public
Molecule Tags

Format

Molecular Dynamics (MD) Files

Generating ...

X-Ray - Docking Files

Generating ...

NMR Parameters

1H NMR Spectrum

Generating ...

Fragment-Based Charges

No charge assignments available. Use the button above to use OFraMP fragment-based charge assignment.

Topology History

Processing Information

QM Processing Stage

Click table to toggle details.

Processing Stage Template Semi-Empirical QM (QM0) DFT QM (QM1) DFT Hessian QM (QM2)
Calculation None Energy Minization Energy Minization Hessian
Level of Theory None Semi-Empirical / SCF DFT (B3LYP/6-31G*) DFT (B3LYP/6-31G*)
Default Size Limit (Atoms) 2000 500 50 40
Content of MD Topology
Charges Derived From None MOPAC Merz-Singh-Kollman Merz-Singh-Kollman
Geometry  User Provided Optimized Optimized Optimized
Non-Bonded Interactions Bonds Rule Based:

Parameters are asigned from existing parameters with a set of rules based on atom types and geometry.

 Hessian Based:

Force constant are calculated from the QM potential. New parameters are created when no suitable parameters exists.
Angles
Dihedrals

Data

Current Processing StateCompleted
Total Processing Time2 days, 1:50:09 (hh:mm:ss)

Conditions of Use

ATB Pipeline Setting

Access to this feature is currently restricted

The maximum QM level is computed using the ATB Pipeline atom limits but can be manually increased on a case by case basis.

Calculated Solvation Free Energy

Access to this feature is currently restricted

Submit New Solvation Free Energy Computation