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: N3NGQ
Calculation Name: 1L2Y-A-MD56-28000ps
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 | -23135.945599 |
|---|---|
| FMO2-HF: Nuclear repulsion | 18533.764345 |
| FMO2-HF: Total energy | -4602.181254 |
| FMO2-MP2: Total energy | -4615.606285 |
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. |
| -48.846 | -39.463 | 3.837 | -4.576 | -8.643 | -0.036 |
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 | 0.052 | 0.015 | 3.004 | -7.452 | -5.198 | 0.140 | -1.047 | -1.347 | -0.007 | |
| 4 | 4 | GLN | 0 | 0.020 | 0.023 | 4.975 | 1.414 | 1.596 | -0.001 | -0.006 | -0.174 | 0.000 | |
| 5 | 5 | GLN | 0 | -0.068 | -0.034 | 2.523 | -7.019 | -4.667 | 1.193 | -1.097 | -2.448 | -0.014 | |
| 6 | 6 | GLN | 0 | 0.047 | 0.033 | 3.220 | -10.286 | -8.962 | 0.116 | -0.608 | -0.832 | -0.005 | |
| 7 | 7 | GLN | 0 | -0.051 | -0.032 | 2.449 | -8.676 | -5.736 | 2.387 | -1.754 | -3.573 | -0.010 | |
| 8 | 8 | GLN | 0 | -0.002 | -0.027 | 4.727 | 2.536 | 2.606 | -0.001 | -0.014 | -0.055 | 0.000 | |
| 9 | 9 | GLN | 0 | -0.021 | 0.007 | 7.183 | 1.906 | 1.906 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 10 | 10 | GLN | -1 | -0.916 | -0.940 | 3.815 | -21.269 | -21.008 | 0.003 | -0.050 | -0.214 | 0.000 |