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: 8JQJY
Calculation Name: 1L2Y-A-MD57-64100ps
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 | -25094.980495 |
|---|---|
| FMO2-HF: Nuclear repulsion | 20492.728554 |
| FMO2-HF: Total energy | -4602.251942 |
| FMO2-MP2: Total energy | -4615.723443 |
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. |
| -115.94 | -105.842 | 16.576 | -11.744 | -14.933 | -0.098 |
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 | 0.082 | 0.044 | 3.132 | -2.640 | 0.071 | 0.152 | -1.206 | -1.657 | -0.003 | |
| 4 | 4 | GLN | 0 | 0.034 | 0.039 | 5.370 | 2.626 | 2.738 | -0.001 | -0.002 | -0.109 | 0.000 | |
| 5 | 5 | GLN | 0 | 0.016 | -0.025 | 6.406 | -3.283 | -3.283 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 6 | 6 | GLN | 0 | -0.053 | -0.031 | 3.594 | 0.950 | 1.544 | 0.005 | -0.171 | -0.429 | 0.000 | |
| 7 | 7 | GLN | 0 | 0.032 | 0.042 | 1.968 | -18.186 | -17.116 | 5.437 | -3.194 | -3.314 | -0.046 | |
| 8 | 8 | GLN | 0 | -0.033 | -0.038 | 2.207 | -14.630 | -11.828 | 5.962 | -3.769 | -4.995 | -0.001 | |
| 9 | 9 | GLN | 0 | -0.026 | -0.009 | 3.135 | 4.159 | 3.808 | 0.170 | 1.070 | -0.889 | -0.002 | |
| 10 | 10 | GLN | -1 | -0.865 | -0.921 | 2.225 | -84.936 | -81.776 | 4.851 | -4.472 | -3.540 | -0.046 |