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: 634LZ
Calculation Name: 1L2Y-A-MD57-61200ps
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 | -24342.346324 |
|---|---|
| FMO2-HF: Nuclear repulsion | 19740.188797 |
| FMO2-HF: Total energy | -4602.157527 |
| FMO2-MP2: Total energy | -4615.617524 |
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. |
| -124.985 | -110.664 | 14.943 | -12.534 | -16.727 | -0.125 |
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 | 0.016 | 0.006 | 2.835 | -3.047 | -0.701 | 0.327 | -1.260 | -1.413 | -0.009 | |
| 4 | 4 | GLN | 0 | 0.024 | 0.001 | 5.252 | 3.944 | 4.070 | -0.001 | -0.003 | -0.122 | 0.000 | |
| 5 | 5 | GLN | 0 | -0.009 | -0.001 | 6.313 | -3.113 | -3.113 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 6 | 6 | GLN | 0 | 0.041 | 0.030 | 2.823 | -8.134 | -6.296 | 0.549 | -0.718 | -1.669 | -0.002 | |
| 7 | 7 | GLN | 0 | -0.035 | -0.013 | 2.522 | -5.600 | -3.311 | 1.561 | -1.448 | -2.401 | -0.018 | |
| 8 | 8 | GLN | 0 | 0.097 | 0.030 | 2.134 | -44.612 | -38.294 | 5.919 | -5.409 | -6.828 | -0.047 | |
| 9 | 9 | GLN | 0 | -0.070 | -0.037 | 3.182 | -1.967 | -2.105 | 0.051 | 0.442 | -0.354 | 0.000 | |
| 10 | 10 | GLN | -1 | -0.874 | -0.919 | 2.212 | -62.456 | -60.914 | 6.537 | -4.138 | -3.940 | -0.049 |