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: 3NZ1L
Calculation Name: 1L2Y-A-MD57-51800ps
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 | -24733.833935 |
|---|---|
| FMO2-HF: Nuclear repulsion | 20131.539573 |
| FMO2-HF: Total energy | -4602.294362 |
| FMO2-MP2: Total energy | -4615.741747 |
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. |
| -186.924 | -170.906 | 27.085 | -17.987 | -25.116 | -0.145 |
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 | 0.058 | 0.006 | 2.265 | -10.288 | -7.056 | 9.392 | -4.468 | -8.157 | 0.005 | |
| 4 | 4 | GLN | 0 | -0.031 | 0.003 | 3.486 | 0.400 | 0.382 | 0.097 | 0.443 | -0.522 | 0.003 | |
| 5 | 5 | GLN | 0 | 0.023 | 0.002 | 5.910 | -3.902 | -3.902 | 0.000 | 0.000 | 0.000 | 0.000 | |
| 6 | 6 | GLN | 0 | -0.070 | -0.039 | 3.034 | -6.170 | -4.165 | 0.426 | -0.860 | -1.571 | 0.001 | |
| 7 | 7 | GLN | 0 | 0.083 | 0.066 | 3.648 | -1.019 | -0.133 | 0.029 | -0.188 | -0.726 | -0.001 | |
| 8 | 8 | GLN | 0 | 0.011 | -0.011 | 2.348 | -30.490 | -26.006 | 4.975 | -4.344 | -5.115 | -0.052 | |
| 9 | 9 | GLN | 0 | 0.021 | 0.003 | 2.294 | -29.352 | -27.543 | 5.416 | -3.311 | -3.914 | -0.036 | |
| 10 | 10 | GLN | -1 | -0.922 | -0.948 | 2.204 | -106.103 | -102.483 | 6.750 | -5.259 | -5.111 | -0.065 |