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: P9212
Calculation Name: 1L2Y-A-MD50-71600ps
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 | -23206.313943 |
|---|---|
| FMO2-HF: Nuclear repulsion | 18604.148276 |
| FMO2-HF: Total energy | -4602.165667 |
| FMO2-MP2: Total energy | -4615.577273 |
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. |
| -63.659 | -53.847 | 16.622 | -11.366 | -15.068 | -0.079 |
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 | -0.002 | 0.000 | 2.276 | -13.035 | -6.232 | 5.653 | -5.290 | -7.167 | -0.012 | |
| 4 | 4 | GLN | 0 | 0.076 | 0.041 | 3.845 | -1.479 | -1.152 | 0.009 | -0.108 | -0.228 | 0.000 | |
| 5 | 5 | GLN | 0 | -0.024 | -0.011 | 3.266 | 3.079 | 4.242 | 0.015 | -0.694 | -0.484 | -0.003 | |
| 6 | 6 | GLN | 0 | 0.083 | 0.047 | 1.854 | -18.323 | -18.877 | 8.528 | -4.466 | -3.508 | -0.063 | |
| 7 | 7 | GLN | 0 | -0.049 | -0.029 | 2.070 | -7.370 | -5.619 | 2.346 | -0.986 | -3.111 | -0.001 | |
| 8 | 8 | GLN | 0 | 0.007 | -0.006 | 3.350 | 1.843 | 2.165 | 0.071 | 0.178 | -0.570 | 0.000 | |
| 9 | 9 | GLN | 0 | -0.021 | -0.006 | 6.046 | -1.153 | -1.153 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 10 | 10 | GLN | -1 | -0.922 | -0.939 | 7.020 | -27.221 | -27.221 | 0.000 | 0.000 | 0.000 | 0.000 |