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: YQ152
Calculation Name: 1L2Y-A-MD57-52500ps
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:
Apendix: None
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 | -23964.396146 |
|---|---|
| FMO2-HF: Nuclear repulsion | 19362.086844 |
| FMO2-HF: Total energy | -4602.309303 |
| FMO2-MP2: Total energy | -4615.75337 |
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. |
| -162.603 | -150.844 | 17.692 | -14.081 | -15.368 | -0.15 |
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 | 0.010 | 0.001 | 2.918 | 1.430 | 3.740 | 0.199 | -1.088 | -1.421 | -0.008 | |
| 4 | 4 | GLN | 0 | 0.013 | 0.007 | 5.533 | 4.366 | 4.366 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 5 | 5 | GLN | 0 | 0.043 | 0.003 | 6.467 | -2.982 | -2.982 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 6 | 6 | GLN | 0 | -0.013 | 0.010 | 2.289 | -1.983 | -1.054 | 1.231 | -0.660 | -1.501 | 0.005 | |
| 7 | 7 | GLN | 0 | 0.011 | 0.005 | 2.239 | -14.749 | -11.906 | 2.259 | -2.211 | -2.890 | -0.033 | |
| 8 | 8 | GLN | 0 | 0.038 | 0.019 | 2.554 | -20.646 | -17.956 | 2.208 | -2.149 | -2.748 | -0.024 | |
| 9 | 9 | GLN | 0 | 0.018 | 0.019 | 3.646 | -3.061 | -2.401 | 0.013 | -0.151 | -0.522 | -0.001 | |
| 10 | 10 | GLN | -1 | -0.895 | -0.917 | 2.076 | -124.978 | -122.651 | 11.782 | -7.822 | -6.286 | -0.089 |