MD Topology | NMR | X-Ray

Visualize with JSmol

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) 1000 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 TimeNA (hh:mm:ss)

Molecule Information

Molecule Typeheteromolecule
Residue Name (RNME)HST
FormulaNone
IUPAC InChI Key
None
IUPAC InChI
None
IUPAC Name
Common Name
Canonical SMILES (Daylight)
NULL
Number of atoms62
Net Charge1
Forcefieldmultiple
Molecule ID7281
Visibility Public
Molecule Tags

Molecular Dynamics (MD) Files

GROMOS96 Files

Topology Files Structure Files
GROMOS96 United-Atom MTB
GROMOS96 United-Atom Topology
United-Atom PDB (optimised geometry)

Additional Structure Files

Files
United-Atom G96 (optimised geometry)

Consistency Check of Topology

Files
Check Top Result for GROMOS96 United-Atom Topology

Topology Information

Force Field Version53A6 (IFP53A6.dat / 53A6.ifp)
Upload Date2013-02-19 11:59:23
Literature Reference

Topology History

Other conformers for this molecule (1-100 of 632)

Compare All Topologies (633)RMSD Matrix (633)

Molid  Formula  Iupac  Atoms  Charge  Curation  Details  Δ Qm Optimized Energy
(kJ.mol-1
Compare 
17214 None - 29 0 Manual N/A Compare with
17511 None - 27 0 Manual N/A Compare with
2172 None - 26 -1 Manual* N/A Compare with
17305 None - 23 0 Manual N/A Compare with
17543 None - 29 0 Manual N/A Compare with
3947 None - 127 -1 Manual N/A Compare with
17396 None - 24 -1 Manual N/A Compare with
210 None - 17 0 Manual* N/A Compare with
17190 None - 44 0 Manual N/A Compare with
17428 None - 34 1 Manual N/A Compare with
1506 None - 134 0 Manual* N/A Compare with
17281 None - 23 0 Manual N/A Compare with
17519 None - 28 0 Manual N/A Compare with
2747 None - 20 0 Manual* N/A Compare with
17313 None - 32 0 Manual N/A Compare with
17551 None - 15 -1 Manual N/A Compare with
17166 None - 27 0 Manual N/A Compare with
17404 None - 16 -1 Manual N/A Compare with
564 None - 6 0 Manual* N/A Compare with
17198 None - 26 1 Manual N/A Compare with
17436 None - 21 -1 Manual N/A Compare with
1664 None - 8 0 Manual* N/A Compare with
17289 None - 28 0 Manual N/A Compare with
17527 None - 18 0 Manual N/A Compare with
3410 None - 15 0 Manual* N/A Compare with
17321 None - 18 0 Manual N/A Compare with
169 None - 13 0 Manual* N/A Compare with
18675 None - 140 -3 Manual N/A Compare with
17174 None - 25 0 Manual N/A Compare with
17412 None - 18 0 Manual N/A Compare with
572 None - 17 0 Manual* N/A Compare with
17206 None - 18 0 Manual N/A Compare with
17444 None - 28 1 Manual N/A Compare with
1733 None - 81 0 Manual* N/A Compare with
17297 None - 18 0 Manual N/A Compare with
17535 None - 24 0 Manual N/A Compare with
3500 None - 18 0 Manual* N/A Compare with
17329 None - 17 -2 Manual N/A Compare with
177 None - 20 0 Manual* N/A Compare with
17182 None - 23 0 Manual N/A Compare with
17420 None - 21 0 Manual N/A Compare with
581 None - 16 0 Manual* N/A Compare with
17155 None - 17 0 Manual N/A Compare with
17452 None - 23 0 Manual N/A Compare with
17393 None - 24 -1 Manual N/A Compare with
1562 None - 125 0 Manual* N/A Compare with
17246 None - 27 -2 Manual N/A Compare with
17484 None - 15 0 Manual N/A Compare with
1604 None - 16 0 Manual* N/A Compare with
17337 None - 18 0 Manual N/A Compare with
6458 None - 13 0 Manual N/A Compare with
17369 None - 18 -1 Manual N/A Compare with
17222 None - 22 0 Manual N/A Compare with
17460 None - 28 0 Manual N/A Compare with
1572 None - 153 0 Manual* N/A Compare with
17254 None - 27 0 Manual N/A Compare with
17492 None - 22 0 Manual N/A Compare with
4582 None - 161 -8 Manual* N/A Compare with
17345 None - 20 -2 Manual N/A Compare with
7284 None - 71 1 Manual* N/A Compare with
17377 None - 28 -1 Manual N/A Compare with
1538 None - 161 0 Manual* N/A Compare with
17230 None - 27 0 Manual N/A Compare with
17468 None - 31 0 Manual N/A Compare with
1583 None - 125 0 Manual* N/A Compare with
17262 None - 17 0 Manual N/A Compare with
17500 None - 25 0 Manual N/A Compare with
5031 None - 78 0 Manual* N/A Compare with
17353 None - 23 0 Manual N/A Compare with
17147 None - 33 1 Manual N/A Compare with
17385 None - 20 -2 Manual N/A Compare with
1553 None - 155 0 Manual* N/A Compare with
17238 None - 16 -1 Manual N/A Compare with
17476 None - 23 0 Manual N/A Compare with
1593 None - 3 0 Manual* N/A Compare with
17270 None - 18 0 Manual N/A Compare with
17508 None - 29 0 Manual N/A Compare with
5796 None - 19 0 Manual* N/A Compare with
17361 None - 12 0 Manual N/A Compare with
3587 None - 9 0 Manual* N/A Compare with
17334 None - 30 1 Manual N/A Compare with
206 None - 25 1 Manual* N/A Compare with
17187 None - 15 0 Manual N/A Compare with
17425 None - 34 1 Manual N/A Compare with
1502 None - 106 0 Manual* N/A Compare with
17278 None - 24 1 Manual N/A Compare with
17219 None - 31 1 Manual N/A Compare with
17516 None - 26 0 Manual N/A Compare with
2672 None - 39 0 Manual N/A Compare with
17310 None - 25 -1 Manual N/A Compare with
17548 None - 26 1 Manual N/A Compare with
17163 None - 23 0 Manual N/A Compare with
17401 None - 16 -1 Manual N/A Compare with
215 None - 19 0 Manual* N/A Compare with
17195 None - 28 0 Manual N/A Compare with
17433 None - 21 -1 Manual N/A Compare with
1651 None - 10 0 Manual* N/A Compare with
17286 None - 17 0 Manual N/A Compare with
17524 None - 21 -1 Manual N/A Compare with
2921 None - 75 -2 Manual N/A Compare with
Previous Page Next Page

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.

Experimental Solvation Free Energies (0-0 of 0)