FMODB

FMODB: The database of quantum mechanical data based on the FMO method

Last updated: 2025-10-17

All entries: 77277

Number of unique PDB entries: 32023

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FMODB ID: KQLR3

Calculation Name: 1EF4-A-Other549

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1EF4

Chain ID: A

ChEMBL ID:

UniProt ID: O26147

Base Structure: SolutionNMR

Registration Date: 2025-10-11

Reference: Sci Data 11, 1164 (2024).

DOI: https://doi.org/10.1038/s41597-024-03999-2

Apendix: None


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
Protonation MOE:Protonate 3D
Complement ac.sh, 23 2024 Oct
Water No
Procedure Manual calculation
Remarks
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 55
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -304075.690356
FMO2-HF: Nuclear repulsion 280354.233779
FMO2-HF: Total energy -23721.456578
FMO2-MP2: Total energy -23786.358994


3D Structure Molmil
Snapshot
 
Ligand structure

ligand structure
Ligand Interaction
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/AN/AN/AN/AN/AN/A


Interactive mode: IFIE and PIEDA for fragment #1(A:1:MET)


Summations of interaction energy for fragment #1(A:1:MET)
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.
-37.854-29.82216.943-9.826-15.151-0.089
Interaction energy analysis for fragmet #1(A:1:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.793 / q_NPA : 0.895
Distance from base fragment(s) [Å]
Dist
Interaction energy by IFIE and PIEDA
[kcal/mol]
| Total | > | ES | > | EX | >
| CT+mix | > | DI(MP2) | >
Fragment charge [e]
FCHARGE q_Mulliken
q_NPA q(I=>J)
Residue
Res #    RES   
Sort
Graph Options
X Axis Label
Y Axis Max Y Axis Min
Display   
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].
3A3PRO00.0700.0322.571-3.042-0.8841.593-1.427-2.324-0.014
4A4VAL00.0240.0144.2732.9033.029-0.0010.005-0.1300.000
6A6CYS0-0.0020.0004.058-4.341-4.1900.002-0.035-0.1170.000
7A7LEU00.0300.0152.1651.9893.0941.873-0.802-2.1760.001
8A8SER00.046-0.0262.481-13.793-11.1600.732-1.213-2.153-0.009
9A9CYS0-0.105-0.0454.2144.7154.8200.000-0.014-0.0910.000
12A12PRO00.0220.0284.117-3.948-3.790-0.001-0.010-0.1470.000
13A13VAL00.0870.0462.3680.9761.3712.229-0.637-1.987-0.005
14A14SER0-0.025-0.0071.852-25.039-26.24210.310-4.412-4.696-0.051
15A15ALA00.0390.0254.0253.2533.8200.003-0.359-0.211-0.002
17A17PHE00.005-0.0102.934-3.103-1.3400.204-0.919-1.049-0.009
48A48LEU0-0.012-0.0064.753-0.829-0.755-0.001-0.003-0.0700.000
5A5ARG10.9460.9685.69228.50328.5030.0000.0000.0000.000
10A10GLY00.0250.0315.8372.5152.5150.0000.0000.0000.000
11A11LYS10.9240.9586.82625.28225.2820.0000.0000.0000.000
16A16TYR00.0850.0437.3121.6801.6800.0000.0000.0000.000
18A18ASN0-0.028-0.0087.2493.3353.3350.0000.0000.0000.000
19A19GLU-1-0.875-0.92510.566-18.628-18.6280.0000.0000.0000.000
20A20TYR0-0.015-0.0209.5381.4021.4020.0000.0000.0000.000
21A21GLN00.0140.00310.6681.1731.1730.0000.0000.0000.000
22A22ARG10.9680.98412.48017.64717.6470.0000.0000.0000.000
23A23ARG10.8250.90714.93617.89017.8900.0000.0000.0000.000
24A24VAL0-0.029-0.02014.2111.0041.0040.0000.0000.0000.000
25A25ALA0-0.058-0.01516.4570.6370.6370.0000.0000.0000.000
26A26ASP-1-0.926-0.96018.024-13.832-13.8320.0000.0000.0000.000
27A27GLY0-0.039-0.01119.7780.7790.7790.0000.0000.0000.000
28A28GLU-1-0.870-0.93618.705-14.767-14.7670.0000.0000.0000.000
29A29ASP-1-0.887-0.94818.483-15.059-15.0590.0000.0000.0000.000
30A30PRO00.0350.00914.345-0.732-0.7320.0000.0000.0000.000
31A31LYS10.8720.91214.49314.00814.0080.0000.0000.0000.000
32A32ASP-1-0.855-0.90616.265-14.915-14.9150.0000.0000.0000.000
33A33VAL00.0550.03912.017-0.639-0.6390.0000.0000.0000.000
34A34LEU0-0.098-0.0719.880-1.765-1.7650.0000.0000.0000.000
35A35ASP-1-0.964-0.97312.536-17.392-17.3920.0000.0000.0000.000
36A36ASP-1-0.827-0.91513.874-18.327-18.3270.0000.0000.0000.000
37A37LEU0-0.100-0.0567.242-1.627-1.6270.0000.0000.0000.000
38A38GLY00.0060.0269.155-2.337-2.3370.0000.0000.0000.000
39A39LEU0-0.055-0.0306.547-1.170-1.1700.0000.0000.0000.000
40A40LYS10.9470.9748.92620.14620.1460.0000.0000.0000.000
41A41ARG11.0020.9739.63816.80816.8080.0000.0000.0000.000
42A42TYR00.0730.03411.254-1.443-1.4430.0000.0000.0000.000
43A43CYS0-0.036-0.0169.615-0.063-0.0630.0000.0000.0000.000
44A44CYS00.0190.0076.969-0.900-0.9000.0000.0000.0000.000
45A45ARG10.9230.9638.53719.41419.4140.0000.0000.0000.000
46A46ARG10.9720.98710.73618.53118.5310.0000.0000.0000.000
47A47MET0-0.043-0.0107.2611.3191.3190.0000.0000.0000.000
49A49ILE00.011-0.0138.9120.3950.3950.0000.0000.0000.000
50A50SER0-0.058-0.02112.3371.5091.5090.0000.0000.0000.000
51A51HIS0-0.054-0.0189.634-0.075-0.0750.0000.0000.0000.000
52A52VAL0-0.027-0.0215.845-0.973-0.9730.0000.0000.0000.000
53A53GLU-1-0.918-0.9527.009-28.187-28.1870.0000.0000.0000.000
54A54THR0-0.088-0.0495.645-6.199-6.1990.0000.0000.0000.000
55A55TRP-1-0.940-0.9457.305-32.542-32.5420.0000.0000.0000.000