FMODB ID: 7NL7K
Calculation Name: 7AMC-A-Xray547
Preferred Name:
Target Type:
Ligand Name: 4-[(2s,4r)-1-acetyl-4-[(4-chlorophenyl)amino]-2-methyl-1,2,3,4-tetrahydroquinolin-6-yl]benzoic acid | glycerol | 1,2-ethanediol
Ligand 3-letter code: 73B | GOL | EDO
Ligand of Interest (LOI):
Structure Source: PDB
PDB ID: 7AMC
Chain ID: A
Base Structure: X-ray
Registration Date: 2025-10-04
Reference: Sci Data 11, 1164 (2024).
DOI: https://doi.org/10.1038/s41597-024-03999-2
Apendix: None
Modeling method
| Optimization | MOE:Amber10:EHT |
|---|---|
| Restraint | OptAll |
| Protonation | MOE:Protonate 3D |
| Complement | MOE:Homology Modeling |
| Water | No |
| Procedure | Manual calculation |
| Remarks |
ac.sh, 23 2024 Oct; Missing atoms/residues were imported from a 100% homology model, which was constructed by MOE. |
FMO calculation
| FMO method | FMO2-MP2/6-31G(d) |
|---|---|
| Fragmentation | Auto |
| Number of fragment | 115 |
| LigandResidueName | |
| LigandFragmentNumber | 0 |
| LigandCharge | |
| Software | ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922 |
Total energy (hartree)
| FMO2-HF: Electronic energy | -965264.11061 |
|---|---|
| FMO2-HF: Nuclear repulsion | 918546.904988 |
| FMO2-HF: Total energy | -46717.205622 |
| FMO2-MP2: Total energy | -46853.230756 |
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(A:15:LEU)
Summations of interaction energy for
fragment #1(A:15:LEU)
| 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. |
| -83.193 | -79.494 | 5.288 | -1.27 | -7.717 | -0.031 |
Interaction energy analysis for fragmet #1(A:15:LEU)
| 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 | A | 17 | LEU | 0 | 0.025 | 0.024 | 2.637 | -2.403 | 0.928 | 1.014 | -1.265 | -3.080 | -0.009 |
| 4 | A | 18 | SER | 0 | 0.124 | 0.056 | 4.404 | 0.701 | 0.793 | -0.001 | -0.019 | -0.073 | 0.000 |
| 61 | A | 75 | GLU | -1 | -0.895 | -0.929 | 3.229 | -37.036 | -36.127 | 0.081 | -0.348 | -0.642 | -0.002 |
| 62 | A | 76 | SER | 0 | -0.074 | -0.059 | 2.658 | -10.415 | -8.801 | 1.032 | -1.077 | -1.569 | -0.013 |
| 63 | A | 77 | GLY | 0 | -0.006 | -0.017 | 2.463 | -2.845 | -2.314 | 2.748 | -1.196 | -2.082 | -0.005 |
| 64 | A | 78 | GLN | 0 | -0.076 | -0.044 | 2.835 | 8.052 | 5.274 | 0.414 | 2.635 | -0.271 | -0.002 |
| 5 | A | 19 | GLU | -1 | -0.755 | -0.869 | 8.074 | -27.018 | -27.018 | 0.000 | 0.000 | 0.000 | 0.000 |
| 6 | A | 20 | ALA | 0 | 0.036 | 0.037 | 10.831 | 0.422 | 0.422 | 0.000 | 0.000 | 0.000 | 0.000 |
| 7 | A | 21 | LEU | 0 | 0.067 | 0.026 | 5.484 | 0.156 | 0.156 | 0.000 | 0.000 | 0.000 | 0.000 |
| 8 | A | 22 | LYS | 1 | 0.767 | 0.864 | 7.552 | 28.335 | 28.335 | 0.000 | 0.000 | 0.000 | 0.000 |
| 9 | A | 23 | ALA | 0 | 0.011 | 0.011 | 9.086 | 0.907 | 0.907 | 0.000 | 0.000 | 0.000 | 0.000 |
| 10 | A | 24 | CYS | 0 | -0.019 | 0.001 | 9.658 | 1.318 | 1.318 | 0.000 | 0.000 | 0.000 | 0.000 |
| 11 | A | 25 | SER | 0 | 0.004 | 0.001 | 7.879 | 0.986 | 0.986 | 0.000 | 0.000 | 0.000 | 0.000 |
| 12 | A | 26 | ASN | 0 | -0.040 | -0.040 | 9.932 | 0.218 | 0.218 | 0.000 | 0.000 | 0.000 | 0.000 |
| 13 | A | 27 | ILE | 0 | 0.044 | 0.030 | 13.291 | 1.015 | 1.015 | 0.000 | 0.000 | 0.000 | 0.000 |
| 14 | A | 28 | LEU | 0 | 0.013 | 0.020 | 10.647 | 0.852 | 0.852 | 0.000 | 0.000 | 0.000 | 0.000 |
| 15 | A | 29 | LYS | 1 | 0.899 | 0.959 | 10.165 | 26.251 | 26.251 | 0.000 | 0.000 | 0.000 | 0.000 |
| 16 | A | 30 | ASP | -1 | -0.810 | -0.885 | 14.676 | -13.070 | -13.070 | 0.000 | 0.000 | 0.000 | 0.000 |
| 17 | A | 31 | ILE | 0 | 0.033 | 0.029 | 16.739 | 0.700 | 0.700 | 0.000 | 0.000 | 0.000 | 0.000 |
| 18 | A | 32 | SER | 0 | 0.023 | 0.001 | 15.670 | 0.594 | 0.594 | 0.000 | 0.000 | 0.000 | 0.000 |
| 19 | A | 33 | SER | 0 | -0.057 | -0.028 | 18.090 | 0.467 | 0.467 | 0.000 | 0.000 | 0.000 | 0.000 |
| 20 | A | 34 | GLN | 0 | 0.031 | 0.002 | 19.987 | -0.003 | -0.003 | 0.000 | 0.000 | 0.000 | 0.000 |
| 21 | A | 35 | ARG | 1 | 0.837 | 0.905 | 21.993 | 13.129 | 13.129 | 0.000 | 0.000 | 0.000 | 0.000 |
| 22 | A | 36 | TYR | 0 | 0.036 | 0.028 | 21.799 | 0.605 | 0.605 | 0.000 | 0.000 | 0.000 | 0.000 |
| 23 | A | 37 | ARG | 1 | 0.791 | 0.888 | 20.712 | 13.070 | 13.070 | 0.000 | 0.000 | 0.000 | 0.000 |
| 24 | A | 38 | ASP | -1 | -0.862 | -0.946 | 25.408 | -10.397 | -10.397 | 0.000 | 0.000 | 0.000 | 0.000 |
| 25 | A | 39 | LEU | 0 | -0.005 | -0.002 | 25.355 | 0.120 | 0.120 | 0.000 | 0.000 | 0.000 | 0.000 |
| 26 | A | 40 | ASN | 0 | 0.003 | -0.014 | 21.162 | 0.126 | 0.126 | 0.000 | 0.000 | 0.000 | 0.000 |
| 27 | A | 41 | HIS | 0 | -0.018 | -0.006 | 22.343 | -0.594 | -0.594 | 0.000 | 0.000 | 0.000 | 0.000 |
| 28 | A | 42 | PHE | 0 | 0.001 | -0.002 | 23.676 | -0.193 | -0.193 | 0.000 | 0.000 | 0.000 | 0.000 |
| 29 | A | 43 | PHE | 0 | 0.026 | 0.011 | 20.483 | -0.042 | -0.042 | 0.000 | 0.000 | 0.000 | 0.000 |
| 30 | A | 44 | LEU | 0 | -0.045 | -0.018 | 18.717 | -0.855 | -0.855 | 0.000 | 0.000 | 0.000 | 0.000 |
| 31 | A | 45 | LYS | 1 | 0.890 | 0.940 | 16.825 | 15.206 | 15.206 | 0.000 | 0.000 | 0.000 | 0.000 |
| 32 | A | 46 | PRO | 0 | -0.015 | 0.004 | 18.102 | 0.407 | 0.407 | 0.000 | 0.000 | 0.000 | 0.000 |
| 33 | A | 47 | VAL | 0 | 0.020 | 0.014 | 20.584 | 0.306 | 0.306 | 0.000 | 0.000 | 0.000 | 0.000 |
| 34 | A | 48 | ASP | -1 | -0.853 | -0.917 | 24.252 | -10.548 | -10.548 | 0.000 | 0.000 | 0.000 | 0.000 |
| 35 | A | 49 | VAL | 0 | 0.019 | -0.016 | 26.595 | 0.243 | 0.243 | 0.000 | 0.000 | 0.000 | 0.000 |
| 36 | A | 50 | VAL | 0 | -0.020 | 0.004 | 29.705 | 0.356 | 0.356 | 0.000 | 0.000 | 0.000 | 0.000 |
| 37 | A | 51 | ALA | 0 | -0.031 | -0.020 | 29.162 | 0.291 | 0.291 | 0.000 | 0.000 | 0.000 | 0.000 |
| 38 | A | 52 | LEU | 0 | -0.038 | -0.019 | 27.444 | 0.140 | 0.140 | 0.000 | 0.000 | 0.000 | 0.000 |
| 39 | A | 53 | GLY | 0 | -0.008 | 0.008 | 31.745 | 0.181 | 0.181 | 0.000 | 0.000 | 0.000 | 0.000 |
| 40 | A | 54 | LEU | 0 | -0.059 | -0.024 | 29.252 | 0.165 | 0.165 | 0.000 | 0.000 | 0.000 | 0.000 |
| 41 | A | 55 | HIS | 0 | -0.015 | -0.002 | 33.386 | 0.155 | 0.155 | 0.000 | 0.000 | 0.000 | 0.000 |
| 42 | A | 56 | ASP | -1 | -0.835 | -0.920 | 34.239 | -8.173 | -8.173 | 0.000 | 0.000 | 0.000 | 0.000 |
| 43 | A | 57 | TYR | 0 | -0.012 | -0.005 | 25.153 | -0.338 | -0.338 | 0.000 | 0.000 | 0.000 | 0.000 |
| 44 | A | 58 | TYR | 0 | -0.021 | -0.036 | 24.243 | -0.363 | -0.363 | 0.000 | 0.000 | 0.000 | 0.000 |
| 45 | A | 59 | ASP | -1 | -0.913 | -0.930 | 29.089 | -8.838 | -8.838 | 0.000 | 0.000 | 0.000 | 0.000 |
| 46 | A | 60 | VAL | 0 | -0.033 | -0.003 | 29.524 | -0.001 | -0.001 | 0.000 | 0.000 | 0.000 | 0.000 |
| 47 | A | 61 | VAL | 0 | -0.089 | -0.050 | 24.335 | -0.260 | -0.260 | 0.000 | 0.000 | 0.000 | 0.000 |
| 48 | A | 62 | LYS | 1 | 0.963 | 0.978 | 24.144 | 11.036 | 11.036 | 0.000 | 0.000 | 0.000 | 0.000 |
| 49 | A | 63 | LYS | 1 | 0.897 | 0.947 | 15.133 | 15.683 | 15.683 | 0.000 | 0.000 | 0.000 | 0.000 |
| 50 | A | 64 | ALA | 0 | 0.062 | 0.044 | 21.317 | 0.056 | 0.056 | 0.000 | 0.000 | 0.000 | 0.000 |
| 51 | A | 65 | MET | 0 | -0.065 | -0.035 | 14.744 | -1.032 | -1.032 | 0.000 | 0.000 | 0.000 | 0.000 |
| 52 | A | 66 | ASP | -1 | -0.694 | -0.806 | 16.630 | -15.686 | -15.686 | 0.000 | 0.000 | 0.000 | 0.000 |
| 53 | A | 67 | LEU | 0 | 0.081 | 0.026 | 15.155 | -1.091 | -1.091 | 0.000 | 0.000 | 0.000 | 0.000 |
| 54 | A | 68 | SER | 0 | -0.113 | -0.067 | 13.407 | -1.360 | -1.360 | 0.000 | 0.000 | 0.000 | 0.000 |
| 55 | A | 69 | THR | 0 | -0.004 | -0.019 | 12.232 | -1.790 | -1.790 | 0.000 | 0.000 | 0.000 | 0.000 |
| 56 | A | 70 | ILE | 0 | 0.019 | 0.006 | 11.051 | -1.724 | -1.724 | 0.000 | 0.000 | 0.000 | 0.000 |
| 57 | A | 71 | LYS | 1 | 0.841 | 0.891 | 9.233 | 24.233 | 24.233 | 0.000 | 0.000 | 0.000 | 0.000 |
| 58 | A | 72 | THR | 0 | -0.020 | -0.021 | 7.456 | -3.102 | -3.102 | 0.000 | 0.000 | 0.000 | 0.000 |
| 59 | A | 73 | LYS | 1 | 0.826 | 0.931 | 6.881 | 17.626 | 17.626 | 0.000 | 0.000 | 0.000 | 0.000 |
| 60 | A | 74 | LEU | 0 | -0.003 | 0.018 | 5.236 | -2.627 | -2.627 | 0.000 | 0.000 | 0.000 | 0.000 |
| 65 | A | 79 | TYR | 0 | -0.088 | -0.065 | 5.582 | 2.761 | 2.761 | 0.000 | 0.000 | 0.000 | 0.000 |
| 66 | A | 80 | HIS | 0 | 0.015 | 0.011 | 5.944 | -3.929 | -3.929 | 0.000 | 0.000 | 0.000 | 0.000 |
| 67 | A | 81 | THR | 0 | -0.023 | -0.010 | 8.060 | 0.210 | 0.210 | 0.000 | 0.000 | 0.000 | 0.000 |
| 68 | A | 82 | LYS | 1 | 0.829 | 0.879 | 10.168 | 15.857 | 15.857 | 0.000 | 0.000 | 0.000 | 0.000 |
| 69 | A | 83 | TYR | 0 | 0.002 | -0.009 | 11.826 | 0.906 | 0.906 | 0.000 | 0.000 | 0.000 | 0.000 |
| 70 | A | 84 | ASP | -1 | -0.769 | -0.873 | 10.341 | -19.982 | -19.982 | 0.000 | 0.000 | 0.000 | 0.000 |
| 71 | A | 85 | PHE | 0 | -0.017 | -0.022 | 9.479 | 0.130 | 0.130 | 0.000 | 0.000 | 0.000 | 0.000 |
| 72 | A | 86 | ALA | 0 | -0.008 | -0.007 | 11.346 | 0.686 | 0.686 | 0.000 | 0.000 | 0.000 | 0.000 |
| 73 | A | 87 | ASP | -1 | -0.910 | -0.944 | 14.961 | -14.003 | -14.003 | 0.000 | 0.000 | 0.000 | 0.000 |
| 74 | A | 88 | ASP | -1 | -0.752 | -0.864 | 13.081 | -17.319 | -17.319 | 0.000 | 0.000 | 0.000 | 0.000 |
| 75 | A | 89 | VAL | 0 | 0.000 | 0.003 | 14.228 | 0.604 | 0.604 | 0.000 | 0.000 | 0.000 | 0.000 |
| 76 | A | 90 | ARG | 1 | 0.917 | 0.963 | 16.738 | 14.331 | 14.331 | 0.000 | 0.000 | 0.000 | 0.000 |
| 77 | A | 91 | LEU | 0 | -0.059 | -0.008 | 17.893 | 0.660 | 0.660 | 0.000 | 0.000 | 0.000 | 0.000 |
| 78 | A | 92 | MET | 0 | -0.051 | -0.007 | 18.483 | 0.333 | 0.333 | 0.000 | 0.000 | 0.000 | 0.000 |
| 79 | A | 93 | PHE | 0 | 0.014 | 0.006 | 20.021 | 0.456 | 0.456 | 0.000 | 0.000 | 0.000 | 0.000 |
| 80 | A | 94 | ASN | 0 | 0.035 | 0.000 | 23.029 | 0.660 | 0.660 | 0.000 | 0.000 | 0.000 | 0.000 |
| 81 | A | 95 | ASN | 0 | -0.042 | -0.032 | 22.041 | 0.779 | 0.779 | 0.000 | 0.000 | 0.000 | 0.000 |
| 82 | A | 96 | CYS | 0 | -0.023 | 0.014 | 24.950 | 0.477 | 0.477 | 0.000 | 0.000 | 0.000 | 0.000 |
| 83 | A | 97 | TYR | 0 | -0.006 | -0.033 | 25.415 | 0.442 | 0.442 | 0.000 | 0.000 | 0.000 | 0.000 |
| 84 | A | 98 | LYS | 1 | 0.862 | 0.942 | 25.396 | 10.975 | 10.975 | 0.000 | 0.000 | 0.000 | 0.000 |
| 85 | A | 99 | TYR | 0 | -0.036 | -0.017 | 29.347 | 0.123 | 0.123 | 0.000 | 0.000 | 0.000 | 0.000 |
| 86 | A | 100 | ASN | 0 | -0.032 | -0.028 | 28.852 | 0.341 | 0.341 | 0.000 | 0.000 | 0.000 | 0.000 |
| 87 | A | 101 | GLY | 0 | 0.053 | 0.045 | 32.487 | 0.287 | 0.287 | 0.000 | 0.000 | 0.000 | 0.000 |
| 88 | A | 102 | GLU | -1 | -0.832 | -0.928 | 31.091 | -9.320 | -9.320 | 0.000 | 0.000 | 0.000 | 0.000 |
| 89 | A | 103 | ASP | -1 | -0.862 | -0.919 | 33.544 | -7.745 | -7.745 | 0.000 | 0.000 | 0.000 | 0.000 |
| 90 | A | 104 | SER | 0 | -0.031 | -0.018 | 32.906 | 0.040 | 0.040 | 0.000 | 0.000 | 0.000 | 0.000 |
| 91 | A | 105 | GLU | -1 | -0.880 | -0.956 | 33.351 | -8.398 | -8.398 | 0.000 | 0.000 | 0.000 | 0.000 |
| 92 | A | 106 | VAL | 0 | 0.010 | 0.000 | 27.739 | -0.201 | -0.201 | 0.000 | 0.000 | 0.000 | 0.000 |
| 93 | A | 107 | ALA | 0 | 0.018 | 0.013 | 28.476 | -0.396 | -0.396 | 0.000 | 0.000 | 0.000 | 0.000 |
| 94 | A | 108 | ARG | 1 | 0.818 | 0.913 | 29.628 | 7.882 | 7.882 | 0.000 | 0.000 | 0.000 | 0.000 |
| 95 | A | 109 | VAL | 0 | 0.017 | 0.006 | 27.652 | -0.154 | -0.154 | 0.000 | 0.000 | 0.000 | 0.000 |
| 96 | A | 110 | GLY | 0 | 0.030 | 0.012 | 25.565 | -0.375 | -0.375 | 0.000 | 0.000 | 0.000 | 0.000 |
| 97 | A | 111 | LYS | 1 | 0.801 | 0.901 | 25.625 | 9.339 | 9.339 | 0.000 | 0.000 | 0.000 | 0.000 |
| 98 | A | 112 | GLN | 0 | -0.018 | -0.006 | 27.378 | -0.015 | -0.015 | 0.000 | 0.000 | 0.000 | 0.000 |
| 99 | A | 113 | LEU | 0 | -0.010 | -0.006 | 21.270 | -0.240 | -0.240 | 0.000 | 0.000 | 0.000 | 0.000 |
| 100 | A | 114 | GLN | 0 | 0.023 | 0.035 | 22.384 | -0.309 | -0.309 | 0.000 | 0.000 | 0.000 | 0.000 |
| 101 | A | 115 | ALA | 0 | 0.007 | 0.008 | 23.134 | -0.273 | -0.273 | 0.000 | 0.000 | 0.000 | 0.000 |
| 102 | A | 116 | ILE | 0 | -0.005 | 0.005 | 22.027 | -0.161 | -0.161 | 0.000 | 0.000 | 0.000 | 0.000 |
| 103 | A | 117 | PHE | 0 | -0.018 | -0.001 | 15.322 | -0.600 | -0.600 | 0.000 | 0.000 | 0.000 | 0.000 |
| 104 | A | 118 | ASP | -1 | -0.835 | -0.944 | 19.992 | -12.821 | -12.821 | 0.000 | 0.000 | 0.000 | 0.000 |
| 105 | A | 119 | GLU | -1 | -0.903 | -0.931 | 21.893 | -11.489 | -11.489 | 0.000 | 0.000 | 0.000 | 0.000 |
| 106 | A | 120 | ASN | 0 | -0.028 | -0.040 | 19.274 | -0.061 | -0.061 | 0.000 | 0.000 | 0.000 | 0.000 |
| 107 | A | 121 | PHE | 0 | 0.008 | -0.003 | 14.159 | -0.467 | -0.467 | 0.000 | 0.000 | 0.000 | 0.000 |
| 108 | A | 122 | ALA | 0 | -0.016 | -0.009 | 18.356 | -0.307 | -0.307 | 0.000 | 0.000 | 0.000 | 0.000 |
| 109 | A | 123 | LYS | 1 | 0.770 | 0.882 | 19.925 | 12.676 | 12.676 | 0.000 | 0.000 | 0.000 | 0.000 |
| 110 | A | 124 | VAL | 0 | -0.054 | -0.009 | 13.706 | -0.529 | -0.529 | 0.000 | 0.000 | 0.000 | 0.000 |
| 111 | A | 125 | PRO | 0 | 0.002 | 0.006 | 14.322 | 0.539 | 0.539 | 0.000 | 0.000 | 0.000 | 0.000 |
| 112 | A | 126 | ASP | -1 | -0.834 | -0.920 | 15.515 | -16.158 | -16.158 | 0.000 | 0.000 | 0.000 | 0.000 |
| 113 | A | 127 | ASP | -1 | -0.820 | -0.916 | 11.655 | -20.711 | -20.711 | 0.000 | 0.000 | 0.000 | 0.000 |
| 114 | A | 128 | GLU | -1 | -0.989 | -0.987 | 11.351 | -20.515 | -20.515 | 0.000 | 0.000 | 0.000 | 0.000 |
| 115 | A | 129 | SER | -1 | -0.987 | -0.999 | 12.422 | -20.513 | -20.513 | 0.000 | 0.000 | 0.000 | 0.000 |