FMODB: The database of quantum mechanical data based on the FMO method
Last updated: 2025-10-17
All entries: 77277
Number of unique PDB entries: 32023
FMODB ID: Z2Z4N
Calculation Name: 1L2Y-A-MD57-91100ps
Preferred Name:
Target Type:
Ligand Name:
Ligand 3-letter code:
Ligand of Interest (LOI):
Structure Source: PDB
PDB ID: 2OTU
Chain ID: A
UniProt ID: A2NN81
Base Structure: MD
Registration Date: 2019-08-13
Reference:
Apendix: None
Modeling method
| Optimization | BaseStructure_original |
|---|---|
| Restraint | BaseStructure_original |
| Protonation | BaseStructure_original |
| Complement | No |
| Water | No |
| Procedure | Manual calculation |
| Remarks |
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 | -23887.502311 |
|---|---|
| FMO2-HF: Nuclear repulsion | 19285.25857 |
| FMO2-HF: Total energy | -4602.243741 |
| FMO2-MP2: Total energy | -4615.69117 |
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. |
| -100.081 | -95.704 | 24.968 | -13.396 | -15.949 | -0.034 |
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 | 0.027 | 0.009 | 3.104 | -0.233 | 2.779 | 0.066 | -1.378 | -1.701 | -0.006 | |
| 4 | 4 | GLN | 0 | 0.043 | 0.027 | 5.585 | 2.647 | 2.647 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 5 | 5 | GLN | 0 | -0.053 | -0.037 | 5.578 | -4.200 | -4.200 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 6 | 6 | GLN | 0 | -0.016 | -0.018 | 1.769 | -4.877 | -11.128 | 18.767 | -6.329 | -6.187 | 0.049 | |
| 7 | 7 | GLN | 0 | 0.019 | 0.020 | 2.893 | -7.858 | -6.896 | 0.899 | -0.187 | -1.674 | -0.012 | |
| 8 | 8 | GLN | 0 | -0.037 | -0.023 | 2.608 | -28.932 | -25.411 | 1.501 | -2.292 | -2.730 | -0.028 | |
| 9 | 9 | GLN | 0 | -0.031 | -0.027 | 2.415 | -21.605 | -18.507 | 3.736 | -3.206 | -3.627 | -0.037 | |
| 10 | 10 | GLN | -1 | -0.887 | -0.936 | 4.957 | -35.023 | -34.988 | -0.001 | -0.004 | -0.030 | 0.000 |