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: P25VR
Calculation Name: 1L2Y-A-MD50-71300ps
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:
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 | -23289.91765 |
|---|---|
| FMO2-HF: Nuclear repulsion | 18687.763152 |
| FMO2-HF: Total energy | -4602.154498 |
| FMO2-MP2: Total energy | -4615.60395 |
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. |
| -62.669 | -57.26 | 21.089 | -9.806 | -16.691 | -0.085 |
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 | 0.056 | 0.044 | 2.169 | -11.746 | -6.139 | 4.652 | -3.363 | -6.897 | -0.029 | |
| 4 | 4 | GLN | 0 | 0.019 | 0.002 | 2.814 | -4.402 | -3.598 | 0.851 | -0.490 | -1.164 | -0.006 | |
| 5 | 5 | GLN | 0 | 0.022 | -0.001 | 2.902 | 5.752 | 6.694 | 0.050 | -0.464 | -0.528 | 0.000 | |
| 6 | 6 | GLN | 0 | -0.007 | 0.037 | 1.840 | -23.758 | -26.907 | 12.530 | -4.738 | -4.642 | -0.038 | |
| 7 | 7 | GLN | 0 | 0.042 | 0.009 | 2.064 | -2.653 | -2.209 | 2.949 | -0.514 | -2.878 | -0.010 | |
| 8 | 8 | GLN | 0 | -0.008 | -0.004 | 3.503 | 3.002 | 3.263 | 0.027 | -0.043 | -0.246 | -0.001 | |
| 9 | 9 | GLN | 0 | -0.078 | -0.044 | 7.358 | 0.185 | 0.185 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 10 | 10 | GLN | -1 | -0.915 | -0.948 | 3.565 | -29.049 | -28.549 | 0.030 | -0.194 | -0.336 | -0.001 |