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: N3L3Q
Calculation Name: 1L2Y-A-MD57-64000ps
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:
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 | -25251.30696 |
|---|---|
| FMO2-HF: Nuclear repulsion | 20648.946085 |
| FMO2-HF: Total energy | -4602.360876 |
| FMO2-MP2: Total energy | -4615.82634 |
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. |
| -137.448 | -125.745 | 20.565 | -13.753 | -18.513 | -0.128 |
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 | 0.106 | 0.039 | 2.782 | 2.507 | 5.041 | 0.403 | -1.087 | -1.849 | -0.008 | |
| 4 | 4 | GLN | 0 | 0.023 | 0.031 | 5.066 | 5.010 | 5.194 | -0.001 | -0.004 | -0.179 | 0.000 | |
| 5 | 5 | GLN | 0 | -0.039 | -0.040 | 5.749 | -2.941 | -2.941 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 6 | 6 | GLN | 0 | 0.005 | 0.006 | 2.326 | -5.527 | -4.587 | 2.178 | -1.015 | -2.103 | -0.001 | |
| 7 | 7 | GLN | 0 | 0.033 | 0.034 | 1.910 | -15.962 | -15.982 | 7.580 | -3.900 | -3.660 | -0.056 | |
| 8 | 8 | GLN | 0 | -0.022 | -0.023 | 2.043 | -26.719 | -22.552 | 6.676 | -4.353 | -6.490 | -0.014 | |
| 9 | 9 | GLN | 0 | -0.036 | -0.021 | 3.074 | 8.613 | 8.445 | 0.060 | 0.676 | -0.568 | -0.003 | |
| 10 | 10 | GLN | -1 | -0.853 | -0.927 | 2.334 | -102.429 | -98.363 | 3.669 | -4.070 | -3.664 | -0.046 |