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: Z2Z2N
Calculation Name: 1L2Y-A-MD57-63100ps
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 | -24588.546702 |
|---|---|
| FMO2-HF: Nuclear repulsion | 19986.272087 |
| FMO2-HF: Total energy | -4602.274615 |
| FMO2-MP2: Total energy | -4615.759596 |
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. |
| -122.788 | -106.886 | 8.312 | -10.741 | -13.471 | -0.111 |
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 | 0.061 | 0.036 | 3.157 | -4.001 | -2.204 | 0.113 | -0.743 | -1.166 | -0.003 | |
| 4 | 4 | GLN | 0 | -0.027 | -0.002 | 5.227 | 6.858 | 7.028 | -0.001 | -0.004 | -0.164 | 0.000 | |
| 5 | 5 | GLN | 0 | -0.004 | -0.034 | 6.751 | -1.522 | -1.522 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 6 | 6 | GLN | 0 | 0.003 | 0.003 | 3.588 | -2.622 | -2.025 | 0.012 | -0.215 | -0.394 | 0.000 | |
| 7 | 7 | GLN | 0 | 0.013 | 0.033 | 2.178 | -11.171 | -9.949 | 3.382 | -2.097 | -2.507 | -0.031 | |
| 8 | 8 | GLN | 0 | 0.007 | -0.013 | 2.643 | -19.724 | -15.720 | 2.760 | -2.412 | -4.352 | -0.018 | |
| 9 | 9 | GLN | 0 | -0.045 | -0.022 | 2.912 | 9.271 | 10.061 | 0.073 | -0.164 | -0.699 | -0.001 | |
| 10 | 10 | GLN | -1 | -0.844 | -0.910 | 2.628 | -99.877 | -92.555 | 1.973 | -5.106 | -4.189 | -0.058 |