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: R1L78
Calculation Name: 1L2Y-A-MD57-91000ps
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 | -24053.119038 |
|---|---|
| FMO2-HF: Nuclear repulsion | 19450.88209 |
| FMO2-HF: Total energy | -4602.236947 |
| FMO2-MP2: Total energy | -4615.683078 |
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. |
| -118.877 | -108.709 | 17.396 | -12.115 | -15.451 | -0.136 |
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 | 0.036 | -0.009 | 2.871 | -3.193 | -0.772 | 1.158 | -1.283 | -2.297 | -0.009 | |
| 4 | 4 | GLN | 0 | 0.015 | -0.007 | 4.146 | 1.708 | 1.902 | -0.001 | 0.004 | -0.197 | 0.000 | |
| 5 | 5 | GLN | 0 | 0.008 | 0.011 | 6.081 | -1.726 | -1.726 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 6 | 6 | GLN | 0 | -0.052 | -0.033 | 2.470 | 1.153 | 2.599 | 1.631 | -0.887 | -2.190 | 0.003 | |
| 7 | 7 | GLN | 0 | 0.042 | 0.050 | 2.886 | -2.424 | -0.806 | 0.507 | -0.588 | -1.538 | -0.009 | |
| 8 | 8 | GLN | 0 | -0.020 | -0.043 | 2.100 | -59.564 | -57.763 | 12.318 | -7.591 | -6.528 | -0.081 | |
| 9 | 9 | GLN | 0 | 0.027 | 0.009 | 2.289 | -16.039 | -13.416 | 1.784 | -1.769 | -2.638 | -0.040 | |
| 10 | 10 | GLN | -1 | -0.900 | -0.932 | 5.208 | -38.792 | -38.727 | -0.001 | -0.001 | -0.063 | 0.000 |