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: Z2Z5N
Calculation Name: 1L2Y-A-MD57-87100ps
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 | -23861.619816 |
|---|---|
| FMO2-HF: Nuclear repulsion | 19259.392224 |
| FMO2-HF: Total energy | -4602.227592 |
| FMO2-MP2: Total energy | -4615.656155 |
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. |
| -105.977 | -99.426 | 23.792 | -11.566 | -18.778 | -0.14 |
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 | 0.079 | 0.035 | 3.111 | -0.516 | 2.484 | 1.031 | -1.411 | -2.620 | -0.002 | |
| 4 | 4 | GLN | 0 | 0.018 | -0.001 | 4.389 | 0.969 | 1.194 | 0.000 | -0.024 | -0.201 | 0.000 | |
| 5 | 5 | GLN | 0 | -0.002 | -0.012 | 6.327 | -2.993 | -2.993 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 6 | 6 | GLN | 0 | 0.031 | 0.014 | 2.141 | -7.672 | -8.684 | 6.818 | -2.133 | -3.672 | -0.015 | |
| 7 | 7 | GLN | 0 | -0.012 | 0.018 | 2.632 | -9.979 | -9.810 | 1.558 | 0.797 | -2.525 | -0.018 | |
| 8 | 8 | GLN | 0 | 0.056 | -0.005 | 1.995 | -59.127 | -55.134 | 14.381 | -8.735 | -9.639 | -0.105 | |
| 9 | 9 | GLN | 0 | -0.051 | -0.019 | 3.785 | 11.745 | 11.921 | 0.004 | -0.060 | -0.121 | 0.000 | |
| 10 | 10 | GLN | -1 | -0.896 | -0.923 | 5.446 | -38.404 | -38.404 | 0.000 | 0.000 | 0.000 | 0.000 |