FMODB: The database of quantum mechanical data based on the FMO method
Last updated: 2024-07-23
All entries: 37478
Number of unique PDB entries: 7783
FMODB ID: 1J9NZ
Calculation Name: 1L2Y-A-MD57-70300ps
Preferred Name:
Target Type:
Ligand Name:
ligand 3-letter code:
PDB ID: 2OTU
Chain ID: A
UniProt ID: A2NN81
Base Structure: MD
Registration Date: 2019-08-13
Reference:
Modeling method
| Optimization | BaseStructure_original |
|---|---|
| Restraint | BaseStructure_original |
| Protonation | BaseStructure_original |
| Complement | No |
| Water | No |
| Procedure | Manual calculation |
FMO calculation
| FMO method | FMO2-MP2/6-31G(d) |
|---|---|
| Fragmentation | Auto |
| Number of fragment | 10 |
| LigandResidueName | |
| LigandFragmentNumber | 0 |
| LigandCharge | |
| Software | MIZUHO/ABINIT-MP 3.0 |
Total energy (hartree)
| FMO2-HF: Electronic energy | -24832.088245 |
|---|---|
| FMO2-HF: Nuclear repulsion | 20229.8252 |
| FMO2-HF: Total energy | -4602.263045 |
| FMO2-MP2: Total energy | -4615.726425 |
3D Structure
Ligand structure
Ligand Interaction
Ligand binding energy
"| IFIE [kcal/mol] | PIEDA [kcal/mol] | Charge transfer value [e] | |||
|---|---|---|---|---|---|
| IFIE SUMIFIE SUM at MP2 level. | ESElectro static interaction energy. | EXExchange-repulsion energy. | CT+mixCharge transfer and mixing terms energy. | DI(MP2)Dispersion energy. | q(I=>J)Charge transfer value from I to J fragments. |
| N/A | N/A | N/A | N/A | N/A | N/A |
Interactive mode: IFIE and PIEDA for fragment #1(:1:GLN )
Summations of interaction energy for
fragment #1(:1:GLN )
| IFIE [kcal/mol] | PIEDA [kcal/mol] | Charge transfer value [e] | |||
|---|---|---|---|---|---|
| IFIE SUMIFIE SUM at MP2 level. | ESElectro static interaction energy. | EXExchange-repulsion energy. | CT+mixCharge transfer and mixing terms energy. | DI(MP2)Dispersion energy. | q(I=>J)Charge transfer value from I to J fragments. |
| -86.44 | -77.573 | 15.344 | -9.93 | -14.28 | -0.08 |
Interaction energy analysis for fragmet #1(:1:GLN )
| frag_NumFragment number. | ChainChain species. | Res #Residue number. | RES3-letter code of amino acid residue, ligand and solvent molecule. | FCHARGEFormal charge [e]. | q_MullikenFragment charge evaluated by Mulliken charge [e]. | q_NPAFragment charge evaluated by natural population analysis(NPA) charge [e]. | DISTDistance from Ligand [Å]. | TotalIFIE at MP2 level [kcal/mol]. | ESElectro static interaction energy by PIEDA [kcal/mol]. | EXExchange-repulsion energy by PIEDA [kcal/mol]. | CT+mixCharge transfer and mixing terms energy by PIEDA [kcal/mol]. | DI(MP2)Dispersion energy by PIEDA [kcal/mol]. | q(I=>J)Charge transfer value from I to J fragmens [e]. |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 3 | 3 | GLN | 0 | 0.015 | -0.017 | 2.878 | -1.450 | 1.215 | 0.247 | -1.329 | -1.583 | -0.009 | |
| 4 | 4 | GLN | 0 | 0.024 | 0.036 | 5.468 | 0.682 | 0.682 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 5 | 5 | GLN | 0 | 0.004 | -0.022 | 6.285 | -3.245 | -3.245 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 6 | 6 | GLN | 0 | -0.014 | 0.015 | 3.426 | -4.536 | -4.079 | 0.009 | -0.072 | -0.393 | 0.000 | |
| 7 | 7 | GLN | 0 | -0.003 | 0.006 | 3.012 | -11.618 | -9.203 | 0.251 | -1.173 | -1.492 | -0.010 | |
| 8 | 8 | GLN | 0 | 0.028 | -0.005 | 2.195 | -41.802 | -38.325 | 14.827 | -7.590 | -10.715 | -0.060 | |
| 9 | 9 | GLN | 0 | -0.081 | -0.050 | 3.272 | 2.657 | 2.510 | 0.010 | 0.234 | -0.097 | -0.001 | |
| 10 | 10 | GLN | -1 | -0.872 | -0.904 | 6.491 | -27.128 | -27.128 | 0.000 | 0.000 | 0.000 | 0.000 |