FMODB ID: 224QR
Calculation Name: 1EGP-A-Xray372
Preferred Name:
Target Type:
Ligand Name:
ligand 3-letter code:
PDB ID: 1EGP
Chain ID: A
UniProt ID: P01051
Base Structure: X-ray
Registration Date: 2023-03-13
Reference: C. Watanabe, N. Tani, K. Kamisaka, T. Honma et al., Interaction energy analysis of Apo structure dataset on FMODB, To be published.
Modeling method
Optimization | MOE:Amber10:EHT |
---|---|
Restraint | OptH |
Protonation | MOE:Protonate 3D |
Complement | MOE:Structure Preparation |
Water | No |
Procedure | Auto-FMO protocol ver. 2.20220422 |
FMO calculation
FMO method | FMO2-MP2/6-31G(d) |
---|---|
Fragmentation | Auto |
Number of fragment | 39 |
LigandCharge | |
Software | ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP) |
Total energy (hartree)
FMO2-HF: Electronic energy | -155732.5012 |
---|---|
FMO2-HF: Nuclear repulsion | 140285.828544 |
FMO2-HF: Total energy | -15446.672656 |
FMO2-MP2: Total energy | -15493.078014 |
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:7:LEU)
Summations of interaction energy for
fragment #1(A:7: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. |
-1.299 | 1.145 | -0.048 | -1.267 | -1.13 | 0.002 |
Interaction energy analysis for fragmet #1(A:7: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 | 9 | SER | 0 | -0.005 | -0.001 | 3.777 | -1.150 | 1.294 | -0.048 | -1.267 | -1.130 | 0.002 |
4 | A | 10 | PHE | 0 | 0.011 | -0.007 | 6.918 | -0.053 | -0.053 | 0.000 | 0.000 | 0.000 | 0.000 |
5 | A | 11 | PRO | 0 | 0.042 | 0.020 | 10.062 | 0.049 | 0.049 | 0.000 | 0.000 | 0.000 | 0.000 |
6 | A | 12 | GLU | -1 | -0.819 | -0.890 | 12.561 | 0.014 | 0.014 | 0.000 | 0.000 | 0.000 | 0.000 |
7 | A | 13 | VAL | 0 | -0.015 | -0.009 | 14.036 | 0.015 | 0.015 | 0.000 | 0.000 | 0.000 | 0.000 |
8 | A | 14 | VAL | 0 | -0.004 | 0.003 | 14.893 | 0.014 | 0.014 | 0.000 | 0.000 | 0.000 | 0.000 |
9 | A | 15 | GLY | 0 | -0.001 | 0.001 | 17.476 | -0.016 | -0.016 | 0.000 | 0.000 | 0.000 | 0.000 |
10 | A | 16 | LYS | 1 | 0.874 | 0.967 | 18.449 | -0.087 | -0.087 | 0.000 | 0.000 | 0.000 | 0.000 |
11 | A | 17 | THR | 0 | 0.052 | 0.029 | 21.239 | 0.010 | 0.010 | 0.000 | 0.000 | 0.000 | 0.000 |
12 | A | 18 | VAL | 0 | 0.030 | -0.004 | 20.752 | 0.013 | 0.013 | 0.000 | 0.000 | 0.000 | 0.000 |
13 | A | 19 | ASP | -1 | -0.929 | -0.976 | 21.354 | 0.145 | 0.145 | 0.000 | 0.000 | 0.000 | 0.000 |
14 | A | 20 | GLN | 0 | 0.070 | 0.042 | 21.952 | 0.007 | 0.007 | 0.000 | 0.000 | 0.000 | 0.000 |
15 | A | 21 | ALA | 0 | -0.024 | -0.010 | 17.238 | 0.005 | 0.005 | 0.000 | 0.000 | 0.000 | 0.000 |
16 | A | 22 | ARG | 1 | 0.970 | 0.972 | 17.933 | -0.185 | -0.185 | 0.000 | 0.000 | 0.000 | 0.000 |
17 | A | 23 | GLU | -1 | -0.943 | -0.962 | 19.518 | 0.143 | 0.143 | 0.000 | 0.000 | 0.000 | 0.000 |
18 | A | 24 | TYR | 0 | -0.086 | -0.059 | 13.588 | -0.005 | -0.005 | 0.000 | 0.000 | 0.000 | 0.000 |
19 | A | 25 | PHE | 0 | 0.034 | -0.018 | 11.128 | 0.007 | 0.007 | 0.000 | 0.000 | 0.000 | 0.000 |
20 | A | 26 | THR | 0 | -0.034 | -0.007 | 15.920 | 0.043 | 0.043 | 0.000 | 0.000 | 0.000 | 0.000 |
21 | A | 27 | LEU | 0 | -0.026 | -0.010 | 18.669 | 0.001 | 0.001 | 0.000 | 0.000 | 0.000 | 0.000 |
22 | A | 28 | HIS | 0 | -0.030 | -0.013 | 14.682 | -0.005 | -0.005 | 0.000 | 0.000 | 0.000 | 0.000 |
23 | A | 29 | TYR | 0 | -0.089 | -0.043 | 10.035 | 0.031 | 0.031 | 0.000 | 0.000 | 0.000 | 0.000 |
24 | A | 30 | PRO | 0 | 0.042 | 0.028 | 13.380 | 0.089 | 0.089 | 0.000 | 0.000 | 0.000 | 0.000 |
25 | A | 31 | GLN | 0 | 0.014 | -0.006 | 10.198 | -0.086 | -0.086 | 0.000 | 0.000 | 0.000 | 0.000 |
26 | A | 32 | TYR | 0 | -0.036 | -0.003 | 5.880 | -0.159 | -0.159 | 0.000 | 0.000 | 0.000 | 0.000 |
27 | A | 33 | ASN | 0 | -0.034 | -0.008 | 11.575 | -0.163 | -0.163 | 0.000 | 0.000 | 0.000 | 0.000 |
28 | A | 34 | VAL | 0 | 0.042 | 0.016 | 12.573 | 0.071 | 0.071 | 0.000 | 0.000 | 0.000 | 0.000 |
29 | A | 35 | TYR | 0 | -0.002 | 0.001 | 14.317 | -0.100 | -0.100 | 0.000 | 0.000 | 0.000 | 0.000 |
30 | A | 36 | PHE | 0 | -0.035 | -0.026 | 15.759 | 0.009 | 0.009 | 0.000 | 0.000 | 0.000 | 0.000 |
31 | A | 37 | LEU | 0 | -0.031 | -0.035 | 16.162 | -0.015 | -0.015 | 0.000 | 0.000 | 0.000 | 0.000 |
32 | A | 38 | PRO | 0 | -0.008 | 0.006 | 19.343 | -0.005 | -0.005 | 0.000 | 0.000 | 0.000 | 0.000 |
33 | A | 39 | GLU | -1 | -0.837 | -0.917 | 19.150 | 0.093 | 0.093 | 0.000 | 0.000 | 0.000 | 0.000 |
34 | A | 40 | GLY | 0 | -0.020 | -0.014 | 21.977 | -0.007 | -0.007 | 0.000 | 0.000 | 0.000 | 0.000 |
35 | A | 41 | SER | 0 | -0.098 | -0.032 | 22.671 | -0.013 | -0.013 | 0.000 | 0.000 | 0.000 | 0.000 |
36 | A | 42 | PRO | 0 | 0.014 | 0.008 | 25.166 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 |
37 | A | 43 | VAL | 0 | 0.043 | 0.013 | 24.943 | -0.002 | -0.002 | 0.000 | 0.000 | 0.000 | 0.000 |
38 | A | 44 | THR | 0 | -0.053 | -0.037 | 24.729 | 0.001 | 0.001 | 0.000 | 0.000 | 0.000 | 0.000 |
39 | A | 45 | LEU | 0 | 0.004 | 0.021 | 24.805 | -0.008 | -0.008 | 0.000 | 0.000 | 0.000 | 0.000 |