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: P259R
Calculation Name: 1L2Y-A-MD50-65300ps
Preferred Name:
Target Type:
Ligand Name:
ligand 3-letter code:
PDB ID: 2OTU
Chain ID: A
UniProt ID: A2NN81
Base Structure: MD
Registration Date: 2019-08-09
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 | -23732.247319 |
|---|---|
| FMO2-HF: Nuclear repulsion | 19130.017425 |
| FMO2-HF: Total energy | -4602.229894 |
| FMO2-MP2: Total energy | -4615.67818 |
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. |
| -100.18 | -93.452 | 25.465 | -13.79 | -18.403 | -0.044 |
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 | -0.002 | 1.874 | -1.660 | 2.089 | 4.724 | -3.050 | -5.423 | -0.018 | |
| 4 | 4 | GLN | 0 | -0.010 | -0.004 | 3.574 | -4.879 | -4.625 | 0.008 | -0.060 | -0.203 | -0.001 | |
| 5 | 5 | GLN | 0 | -0.014 | 0.001 | 5.686 | 0.914 | 0.968 | -0.001 | -0.008 | -0.045 | 0.000 | |
| 6 | 6 | GLN | 0 | 0.002 | -0.002 | 2.765 | -4.169 | -2.166 | 0.572 | -1.012 | -1.562 | 0.008 | |
| 7 | 7 | GLN | 0 | -0.062 | -0.039 | 1.677 | -5.937 | -7.359 | 9.727 | -3.978 | -4.327 | 0.043 | |
| 8 | 8 | GLN | 0 | 0.003 | -0.014 | 2.495 | -6.105 | -5.575 | 1.661 | -0.559 | -1.632 | -0.011 | |
| 9 | 9 | GLN | 0 | -0.044 | -0.028 | 4.899 | 2.949 | 2.949 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 10 | 10 | GLN | -1 | -0.801 | -0.853 | 1.914 | -81.293 | -79.733 | 8.774 | -5.123 | -5.211 | -0.065 |