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: Q8M3Y
Calculation Name: 1L2Y-A-MD57-56900ps
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 | -24869.718269 |
|---|---|
| FMO2-HF: Nuclear repulsion | 20267.445915 |
| FMO2-HF: Total energy | -4602.272354 |
| FMO2-MP2: Total energy | -4615.7107 |
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. |
| -161.68 | -155.967 | 29.502 | -16.034 | -19.182 | -0.148 |
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 | 0.110 | 0.045 | 2.817 | -3.729 | -0.791 | 0.270 | -1.487 | -1.721 | -0.007 | |
| 4 | 4 | GLN | 0 | -0.064 | -0.033 | 5.557 | 5.741 | 5.741 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 5 | 5 | GLN | 0 | 0.009 | -0.001 | 6.269 | -2.616 | -2.616 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 6 | 6 | GLN | 0 | 0.034 | 0.029 | 3.061 | -3.115 | -2.163 | 0.033 | -0.351 | -0.634 | 0.000 | |
| 7 | 7 | GLN | 0 | -0.011 | 0.017 | 1.755 | -17.226 | -21.797 | 13.054 | -4.708 | -3.775 | -0.048 | |
| 8 | 8 | GLN | 0 | 0.027 | -0.019 | 2.132 | -29.970 | -25.441 | 8.379 | -5.215 | -7.693 | -0.039 | |
| 9 | 9 | GLN | 0 | -0.026 | 0.003 | 3.033 | -2.047 | -2.096 | 0.071 | 0.766 | -0.789 | -0.003 | |
| 10 | 10 | GLN | -1 | -0.910 | -0.946 | 2.192 | -108.718 | -106.804 | 7.695 | -5.039 | -4.570 | -0.051 |