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: 9Y762
Calculation Name: 1L2Y-A-MD57-57600ps
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 | -24802.421751 |
|---|---|
| FMO2-HF: Nuclear repulsion | 20200.177224 |
| FMO2-HF: Total energy | -4602.244527 |
| FMO2-MP2: Total energy | -4615.690759 |
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. |
| -143.401 | -131.798 | 16.918 | -13.114 | -15.409 | -0.141 |
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 | 0.097 | 0.019 | 2.812 | -4.165 | -1.499 | 0.332 | -1.274 | -1.724 | -0.009 | |
| 4 | 4 | GLN | 0 | 0.011 | 0.023 | 4.984 | 3.020 | 3.186 | -0.001 | -0.006 | -0.158 | 0.000 | |
| 5 | 5 | GLN | 0 | -0.022 | -0.032 | 6.291 | -3.165 | -3.165 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 6 | 6 | GLN | 0 | -0.031 | -0.006 | 1.965 | -4.867 | -4.223 | 2.283 | -1.063 | -1.864 | 0.001 | |
| 7 | 7 | GLN | 0 | 0.014 | 0.033 | 2.107 | -19.301 | -16.233 | 5.038 | -3.967 | -4.140 | -0.058 | |
| 8 | 8 | GLN | 0 | 0.054 | 0.020 | 2.370 | -31.419 | -26.656 | 4.153 | -4.093 | -4.823 | -0.038 | |
| 9 | 9 | GLN | 0 | -0.004 | 0.008 | 3.606 | -5.190 | -4.808 | 0.001 | -0.075 | -0.309 | -0.001 | |
| 10 | 10 | GLN | -1 | -0.862 | -0.908 | 1.983 | -78.314 | -78.400 | 5.112 | -2.636 | -2.391 | -0.036 |