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: LLJM9
Calculation Name: 1L2Y-A-MD55-21700ps
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 | -22774.105892 |
|---|---|
| FMO2-HF: Nuclear repulsion | 18171.891565 |
| FMO2-HF: Total energy | -4602.214327 |
| FMO2-MP2: Total energy | -4615.642895 |
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. |
| -102.472 | -93.238 | 22.297 | -14.302 | -17.23 | -0.068 |
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 | 0.014 | 0.000 | 2.992 | -3.238 | -0.800 | 0.601 | -1.283 | -1.755 | -0.003 | |
| 4 | 4 | GLN | 0 | 0.054 | 0.027 | 5.143 | 2.939 | 3.082 | -0.001 | -0.005 | -0.137 | 0.000 | |
| 5 | 5 | GLN | 0 | -0.009 | -0.011 | 5.847 | -1.817 | -1.817 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 6 | 6 | GLN | 0 | 0.011 | 0.011 | 2.268 | -21.935 | -20.022 | 5.487 | -3.812 | -3.589 | -0.028 | |
| 7 | 7 | GLN | 0 | 0.028 | 0.023 | 2.063 | -14.031 | -12.403 | 5.576 | -3.520 | -3.685 | -0.025 | |
| 8 | 8 | GLN | 0 | -0.020 | -0.024 | 2.010 | -37.474 | -34.727 | 10.626 | -5.572 | -7.801 | -0.013 | |
| 9 | 9 | GLN | 0 | -0.025 | -0.003 | 3.930 | -5.636 | -5.271 | 0.008 | -0.110 | -0.263 | 0.001 | |
| 10 | 10 | GLN | -1 | -0.909 | -0.942 | 6.951 | -21.280 | -21.280 | 0.000 | 0.000 | 0.000 | 0.000 |