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

tag_button

FMODB ID: Z7MQN

Calculation Name: 2L2E-A-Other547

Preferred Name:

Target Type:

Ligand Name: myristic acid

Ligand 3-letter code: MYR

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 2L2E

Chain ID: A

ChEMBL ID:

UniProt ID: Q09711

Base Structure: SolutionNMR

Registration Date: 2025-10-04

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 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 189
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2104425.885528
FMO2-HF: Nuclear repulsion 2027086.18741
FMO2-HF: Total energy -77339.698118
FMO2-MP2: Total energy -77563.043829


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:2:GLY)


Summations of interaction energy for fragment #1(A:2:GLY)
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.
-143.274-139.2564.327-4.27-4.074-0.03
Interaction energy analysis for fragmet #1(A:2:GLY)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.915 / q_NPA : 0.946
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].
3A4SER00.000-0.0053.8624.9887.374-0.023-1.235-1.129-0.006
5A6SER00.0190.0204.559-8.457-8.297-0.001-0.015-0.1440.000
135A136VAL0-0.027-0.0202.382-5.723-6.1233.934-2.033-1.501-0.015
137A138LEU00.0320.0123.352-21.996-20.8430.033-0.610-0.576-0.005
138A139PRO0-0.083-0.0482.491-0.890-0.2570.385-0.362-0.655-0.004
139A140GLU-1-0.913-0.9564.647-24.569-24.483-0.001-0.015-0.0690.000
4A5GLN00.0760.0425.3973.8373.8370.0000.0000.0000.000
6A7LYS10.9030.9416.26938.98538.9850.0000.0000.0000.000
7A8LEU00.0530.0328.1531.0751.0750.0000.0000.0000.000
8A9SER0-0.034-0.02611.5210.0210.0210.0000.0000.0000.000
9A10GLN00.0240.00114.326-0.225-0.2250.0000.0000.0000.000
10A11ASP-1-0.840-0.90115.386-15.716-15.7160.0000.0000.0000.000
11A12GLN0-0.004-0.01215.201-0.660-0.6600.0000.0000.0000.000
12A13LEU0-0.0120.00410.291-0.616-0.6160.0000.0000.0000.000
13A14GLN00.0240.01114.1290.7330.7330.0000.0000.0000.000
14A15ASP-1-0.959-0.97517.281-14.696-14.6960.0000.0000.0000.000
15A16LEU00.0290.01813.6430.4940.4940.0000.0000.0000.000
16A17VAL00.0190.00414.4720.4670.4670.0000.0000.0000.000
17A18ARG10.8590.92816.96613.90713.9070.0000.0000.0000.000
18A19SER00.0300.01619.6570.9220.9220.0000.0000.0000.000
19A20THR0-0.037-0.01017.4800.2920.2920.0000.0000.0000.000
20A21ARG10.9340.98220.32613.44413.4440.0000.0000.0000.000
21A22PHE0-0.011-0.01521.8550.5200.5200.0000.0000.0000.000
22A23ASP-1-0.908-0.93924.303-11.567-11.5670.0000.0000.0000.000
23A24LYS10.8710.93522.66512.97712.9770.0000.0000.0000.000
24A25LYS10.9850.96725.40110.81110.8110.0000.0000.0000.000
25A26GLU-1-0.932-0.94628.482-9.676-9.6760.0000.0000.0000.000
26A27LEU00.0430.01724.3780.2260.2260.0000.0000.0000.000
27A28GLN0-0.011-0.00927.0430.1680.1680.0000.0000.0000.000
28A29GLN0-0.039-0.01628.2620.3590.3590.0000.0000.0000.000
29A30TRP00.0460.01629.6960.1240.1240.0000.0000.0000.000
30A31TYR0-0.035-0.02725.9030.1950.1950.0000.0000.0000.000
31A32LYS10.9840.99229.5899.5909.5900.0000.0000.0000.000
32A33GLY0-0.0030.00031.7030.2470.2470.0000.0000.0000.000
33A34PHE00.0050.00131.4510.1860.1860.0000.0000.0000.000
34A35PHE00.004-0.01727.1940.0090.0090.0000.0000.0000.000
35A36LYS10.9260.98232.2388.2298.2290.0000.0000.0000.000
36A37ASP-1-0.943-0.97835.497-7.954-7.9540.0000.0000.0000.000
37A38CYS0-0.083-0.04235.2010.2730.2730.0000.0000.0000.000
38A39PRO00.0000.01432.929-0.339-0.3390.0000.0000.0000.000
39A40SER0-0.0040.00431.5000.1290.1290.0000.0000.0000.000
40A41GLY0-0.020-0.00427.698-0.125-0.1250.0000.0000.0000.000
41A42HIS10.8560.90825.68211.33311.3330.0000.0000.0000.000
42A43LEU0-0.0120.00226.2120.3820.3820.0000.0000.0000.000
43A44ASN00.0340.01627.288-0.398-0.3980.0000.0000.0000.000
44A45LYS10.9410.99125.75911.64211.6420.0000.0000.0000.000
45A46SER0-0.001-0.02328.180-0.128-0.1280.0000.0000.0000.000
46A47GLU-1-0.902-0.94730.930-9.547-9.5470.0000.0000.0000.000
47A48PHE00.0530.01923.1160.1310.1310.0000.0000.0000.000
48A49GLN00.005-0.00728.174-0.190-0.1900.0000.0000.0000.000
49A50LYS10.9140.96229.3728.6578.6570.0000.0000.0000.000
50A51ILE00.0220.01328.6450.2050.2050.0000.0000.0000.000
51A52TYR0-0.023-0.01523.3930.3420.3420.0000.0000.0000.000
52A53LYS10.9310.95328.3938.9838.9830.0000.0000.0000.000
53A54GLN0-0.080-0.02631.8150.4790.4790.0000.0000.0000.000
54A55PHE00.004-0.00229.3350.1740.1740.0000.0000.0000.000
55A56PHE0-0.009-0.00223.4160.1190.1190.0000.0000.0000.000
56A57PRO0-0.0100.00728.049-0.378-0.3780.0000.0000.0000.000
57A58PHE0-0.046-0.01826.9160.2880.2880.0000.0000.0000.000
58A59GLY00.0330.02126.5900.1860.1860.0000.0000.0000.000
59A60ASP-1-0.902-0.95327.049-10.715-10.7150.0000.0000.0000.000
60A61PRO0-0.007-0.01326.303-0.415-0.4150.0000.0000.0000.000
61A62SER0-0.040-0.02326.621-0.265-0.2650.0000.0000.0000.000
62A63ALA00.0960.05224.266-0.240-0.2400.0000.0000.0000.000
63A64PHE00.0300.01418.408-0.535-0.5350.0000.0000.0000.000
64A65ALA00.005-0.00521.637-0.505-0.5050.0000.0000.0000.000
65A66GLU-1-0.951-0.98723.164-12.069-12.0690.0000.0000.0000.000
66A67TYR0-0.0050.01314.305-0.675-0.6750.0000.0000.0000.000
67A68VAL0-0.009-0.01318.305-0.764-0.7640.0000.0000.0000.000
68A69PHE0-0.009-0.00819.262-0.294-0.2940.0000.0000.0000.000
69A70ASN00.0210.00817.7910.2670.2670.0000.0000.0000.000
70A71VAL0-0.0400.00813.681-0.803-0.8030.0000.0000.0000.000
71A72PHE0-0.070-0.07915.536-0.484-0.4840.0000.0000.0000.000
72A73ASP-1-0.878-0.94018.634-12.418-12.4180.0000.0000.0000.000
73A74ALA0-0.004-0.00118.8630.2220.2220.0000.0000.0000.000
74A75ASP-1-0.945-0.97120.987-11.829-11.8290.0000.0000.0000.000
75A76LYS10.8900.94720.72614.78614.7860.0000.0000.0000.000
76A77ASN0-0.009-0.01025.0810.0280.0280.0000.0000.0000.000
77A78GLY00.0390.02227.2290.3150.3150.0000.0000.0000.000
78A79TYR0-0.088-0.03125.6490.1780.1780.0000.0000.0000.000
79A80ILE00.0440.02521.881-0.501-0.5010.0000.0000.0000.000
80A81ASP-1-0.845-0.92221.913-12.213-12.2130.0000.0000.0000.000
81A82PHE0-0.008-0.00721.606-0.650-0.6500.0000.0000.0000.000
82A83LYS10.9871.00122.40011.77111.7710.0000.0000.0000.000
83A84GLU-1-0.760-0.87418.014-16.528-16.5280.0000.0000.0000.000
84A85PHE0-0.0050.00117.645-0.988-0.9880.0000.0000.0000.000
85A86ILE00.0060.00218.165-0.705-0.7050.0000.0000.0000.000
86A87CYS0-0.032-0.00516.909-0.181-0.1810.0000.0000.0000.000
87A88ALA00.0250.01213.897-0.948-0.9480.0000.0000.0000.000
88A89LEU0-0.0030.00714.288-1.040-1.0400.0000.0000.0000.000
89A90SER0-0.024-0.02415.7020.4460.4460.0000.0000.0000.000
90A91VAL0-0.071-0.0309.966-0.565-0.5650.0000.0000.0000.000
91A92THR0-0.0090.00513.043-0.743-0.7430.0000.0000.0000.000
92A93SER00.0530.03115.2581.4871.4870.0000.0000.0000.000
93A94ARG10.9830.98317.78112.47812.4780.0000.0000.0000.000
94A95GLY0-0.030-0.01019.7860.9750.9750.0000.0000.0000.000
95A96GLU-1-0.883-0.93119.817-13.730-13.7300.0000.0000.0000.000
96A97LEU00.016-0.00315.564-0.156-0.1560.0000.0000.0000.000
97A98ASN0-0.010-0.01018.735-0.014-0.0140.0000.0000.0000.000
98A99ASP-1-0.842-0.92921.909-13.053-13.0530.0000.0000.0000.000
99A100LYS10.8750.93812.99122.73022.7300.0000.0000.0000.000
100A101LEU0-0.006-0.00117.351-0.238-0.2380.0000.0000.0000.000
101A102ILE00.0370.01320.3030.3050.3050.0000.0000.0000.000
102A103TRP0-0.050-0.01219.9400.7430.7430.0000.0000.0000.000
103A104ALA00.009-0.00918.7570.3030.3030.0000.0000.0000.000
104A105PHE00.0090.01920.8160.1690.1690.0000.0000.0000.000
105A106GLN0-0.009-0.02623.7850.2600.2600.0000.0000.0000.000
106A107LEU0-0.092-0.02320.4820.4560.4560.0000.0000.0000.000
107A108TYR00.021-0.01820.3380.2080.2080.0000.0000.0000.000
108A109ASP-1-0.848-0.90125.244-10.139-10.1390.0000.0000.0000.000
109A110LEU0-0.093-0.06127.8720.3830.3830.0000.0000.0000.000
110A111ASP-1-0.945-0.96529.648-10.342-10.3420.0000.0000.0000.000
111A112ASN0-0.130-0.05932.2880.3040.3040.0000.0000.0000.000
112A113ASN00.0250.00732.0670.5330.5330.0000.0000.0000.000
113A114GLY0-0.0100.00930.8960.1390.1390.0000.0000.0000.000
114A115LEU0-0.065-0.04729.410-0.142-0.1420.0000.0000.0000.000
115A116ILE00.0120.02322.7620.0780.0780.0000.0000.0000.000
116A117SER00.021-0.00526.4060.2520.2520.0000.0000.0000.000
117A118TYR0-0.033-0.02720.981-0.676-0.6760.0000.0000.0000.000
118A119ASP-1-0.886-0.96021.998-13.086-13.0860.0000.0000.0000.000
119A120GLU-1-0.781-0.90821.586-15.324-15.3240.0000.0000.0000.000
120A121MET0-0.0070.02016.441-0.948-0.9480.0000.0000.0000.000
121A122LEU00.005-0.00815.996-1.259-1.2590.0000.0000.0000.000
122A123ARG10.8660.92816.60613.98213.9820.0000.0000.0000.000
123A124ILE00.0080.00416.484-0.916-0.9160.0000.0000.0000.000
124A125VAL0-0.052-0.03412.579-1.236-1.2360.0000.0000.0000.000
125A126ASP-1-0.943-0.95512.250-23.180-23.1800.0000.0000.0000.000
126A127ALA00.0340.01813.064-1.212-1.2120.0000.0000.0000.000
127A128ILE0-0.050-0.0259.882-0.795-0.7950.0000.0000.0000.000
128A129TYR0-0.017-0.0157.723-2.841-2.8410.0000.0000.0000.000
129A130LYS10.8850.9448.88517.37617.3760.0000.0000.0000.000
130A131MET00.0160.01411.1140.6070.6070.0000.0000.0000.000
131A132VAL0-0.015-0.0054.875-1.801-1.8010.0000.0000.0000.000
132A133GLY00.0140.0096.579-3.344-3.3440.0000.0000.0000.000
133A134SER0-0.032-0.0137.9882.4062.4060.0000.0000.0000.000
134A135MET0-0.067-0.0197.6932.4242.4240.0000.0000.0000.000
136A137LYS10.9380.9714.93833.69233.6920.0000.0000.0000.000
140A141ASP-1-0.901-0.9457.549-28.402-28.4020.0000.0000.0000.000
141A142GLU-1-0.941-0.9665.829-43.337-43.3370.0000.0000.0000.000
142A143ASP-1-0.880-0.9338.924-28.860-28.8600.0000.0000.0000.000
143A144THR0-0.048-0.02011.1061.8571.8570.0000.0000.0000.000
144A145PRO00.0480.01810.5390.7960.7960.0000.0000.0000.000
145A146GLU-1-0.796-0.88712.502-15.294-15.2940.0000.0000.0000.000
146A147LYS10.9490.97015.13420.29620.2960.0000.0000.0000.000
147A148ARG10.7670.8646.97835.52535.5250.0000.0000.0000.000
148A149VAL00.0470.02714.6980.7540.7540.0000.0000.0000.000
149A150ASN0-0.020-0.01616.9111.1841.1840.0000.0000.0000.000
150A151LYS10.8830.93715.29219.89619.8960.0000.0000.0000.000
151A152ILE0-0.0110.00215.9660.5610.5610.0000.0000.0000.000
152A153PHE00.0450.01119.6190.8550.8550.0000.0000.0000.000
153A154ASN0-0.067-0.02322.2940.4670.4670.0000.0000.0000.000
154A155MET0-0.031-0.00918.9250.5520.5520.0000.0000.0000.000
155A156MET0-0.067-0.03023.1730.2940.2940.0000.0000.0000.000
156A157ASP-1-0.958-0.96025.586-10.178-10.1780.0000.0000.0000.000
157A158LYS10.8510.94924.97712.37112.3710.0000.0000.0000.000
158A159ASN0-0.027-0.02528.2570.1520.1520.0000.0000.0000.000
159A160LYS10.8980.94326.15411.41711.4170.0000.0000.0000.000
160A161ASP-1-0.869-0.93625.864-11.699-11.6990.0000.0000.0000.000
161A162GLY0-0.044-0.02028.1880.0430.0430.0000.0000.0000.000
162A163GLN00.0250.00027.875-0.279-0.2790.0000.0000.0000.000
163A164LEU0-0.040-0.01223.6180.0380.0380.0000.0000.0000.000
164A165THR00.0780.04227.429-0.130-0.1300.0000.0000.0000.000
165A166LEU00.0160.01224.473-0.516-0.5160.0000.0000.0000.000
166A167GLU-1-0.858-0.94024.916-11.557-11.5570.0000.0000.0000.000
167A168GLU-1-0.889-0.95325.644-11.497-11.4970.0000.0000.0000.000
168A169PHE0-0.033-0.00718.143-0.587-0.5870.0000.0000.0000.000
169A170CYS0-0.053-0.01820.994-0.897-0.8970.0000.0000.0000.000
170A171GLU-1-0.805-0.88021.261-13.326-13.3260.0000.0000.0000.000
171A172GLY00.0420.00321.417-0.306-0.3060.0000.0000.0000.000
172A173SER0-0.088-0.06016.850-0.850-0.8500.0000.0000.0000.000
173A174LYS10.8060.88617.35311.96711.9670.0000.0000.0000.000
174A175ARG10.9120.95219.82812.81912.8190.0000.0000.0000.000
175A176ASP-1-0.786-0.88315.149-19.466-19.4660.0000.0000.0000.000
176A177PRO00.015-0.00314.977-1.226-1.2260.0000.0000.0000.000
177A178THR0-0.0320.0049.454-1.492-1.4920.0000.0000.0000.000
178A179ILE00.0480.02110.422-2.426-2.4260.0000.0000.0000.000
179A180VAL0-0.0030.00412.293-0.505-0.5050.0000.0000.0000.000
180A181SER0-0.065-0.05010.115-0.890-0.8900.0000.0000.0000.000
181A182ALA0-0.006-0.0097.737-1.876-1.8760.0000.0000.0000.000
182A183LEU0-0.010-0.0028.148-2.103-2.1030.0000.0000.0000.000
183A184SER00.0300.02310.272-0.332-0.3320.0000.0000.0000.000
184A185LEU0-0.073-0.0445.249-0.043-0.0430.0000.0000.0000.000
185A186TYR0-0.020-0.0187.062-2.787-2.7870.0000.0000.0000.000
186A187ASP-1-0.889-0.9409.405-19.959-19.9590.0000.0000.0000.000
187A188GLY0-0.049-0.03912.8631.0961.0960.0000.0000.0000.000
188A189LEU0-0.112-0.0499.4580.0340.0340.0000.0000.0000.000
189A190VAL-1-0.927-0.94114.179-16.505-16.5050.0000.0000.0000.000