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: Q8LRY
Calculation Name: 1L2Y-A-MD57-92900ps
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 | -23775.447681 |
|---|---|
| FMO2-HF: Nuclear repulsion | 19173.242285 |
| FMO2-HF: Total energy | -4602.205396 |
| FMO2-MP2: Total energy | -4615.676903 |
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. |
| -93.808 | -85.072 | 15.318 | -10.766 | -13.286 | -0.1 |
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 | 0.056 | 0.027 | 3.100 | -0.581 | 1.571 | 0.093 | -0.798 | -1.447 | -0.003 | |
| 4 | 4 | GLN | 0 | 0.026 | 0.007 | 4.978 | 2.022 | 2.188 | -0.001 | -0.004 | -0.160 | 0.000 | |
| 5 | 5 | GLN | 0 | -0.047 | -0.027 | 6.403 | -2.403 | -2.403 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 6 | 6 | GLN | 0 | 0.029 | 0.029 | 2.680 | -3.891 | -2.327 | 0.615 | -0.661 | -1.518 | 0.002 | |
| 7 | 7 | GLN | 0 | 0.021 | 0.032 | 1.791 | -23.087 | -25.287 | 11.988 | -5.433 | -4.355 | -0.061 | |
| 8 | 8 | GLN | 0 | 0.012 | -0.007 | 2.743 | -37.367 | -30.623 | 2.614 | -3.821 | -5.537 | -0.038 | |
| 9 | 9 | GLN | 0 | -0.054 | -0.026 | 3.788 | -1.252 | -0.942 | 0.009 | -0.049 | -0.269 | 0.000 | |
| 10 | 10 | GLN | -1 | -0.893 | -0.932 | 6.599 | -27.249 | -27.249 | 0.000 | 0.000 | 0.000 | 0.000 |