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: ZLL3N

Calculation Name: 4DOO-A-Xray547

Preferred Name:

Target Type:

Ligand Name: lauric acid | potassium ion

Ligand 3-letter code: DAO | K

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 4DOO

Chain ID: A

ChEMBL ID:

UniProt ID: Q9M1X2

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


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 203
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2295995.56123
FMO2-HF: Nuclear repulsion 2217284.71592
FMO2-HF: Total energy -78710.84531
FMO2-MP2: Total energy -78941.811359


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:3:GLU)


Summations of interaction energy for fragment #1(A:3:GLU)
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.
5.8418.010.015-0.951-1.233-0.001
Interaction energy analysis for fragmet #1(A:3:GLU)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.091 / q_NPA : -0.048
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].
3A5VAL00.0590.0483.5703.9495.8370.011-0.863-1.036-0.001
14A16ALA00.0860.0303.6292.3632.6440.004-0.088-0.1970.000
4A6VAL0-0.016-0.0145.430-0.791-0.7910.0000.0000.0000.000
5A7GLU-1-0.715-0.8378.3321.0401.0400.0000.0000.0000.000
6A8PRO0-0.0020.00011.343-0.004-0.0040.0000.0000.0000.000
7A9LYS10.7900.87513.063-0.225-0.2250.0000.0000.0000.000
8A10THR0-0.106-0.10215.497-0.145-0.1450.0000.0000.0000.000
9A11GLY00.0150.01812.715-0.082-0.0820.0000.0000.0000.000
10A12PHE0-0.056-0.03012.096-0.251-0.2510.0000.0000.0000.000
11A13SER00.0220.0127.349-0.395-0.3950.0000.0000.0000.000
12A14PHE00.0340.0198.3810.1150.1150.0000.0000.0000.000
13A15PRO0-0.0060.0135.665-1.837-1.8370.0000.0000.0000.000
15A17SER0-0.032-0.0035.5123.6803.6800.0000.0000.0000.000
16A18ILE0-0.023-0.0157.740-0.545-0.5450.0000.0000.0000.000
17A19GLY00.0290.01610.7280.6220.6220.0000.0000.0000.000
18A20ASP-1-0.883-0.9249.346-6.318-6.3180.0000.0000.0000.000
19A21SER0-0.014-0.00610.5630.0370.0370.0000.0000.0000.000
20A22ARG10.9170.96212.6953.2453.2450.0000.0000.0000.000
21A23ARG10.9380.9508.5504.2284.2280.0000.0000.0000.000
22A24LEU0-0.070-0.0307.5631.0411.0410.0000.0000.0000.000
23A25LEU00.0000.0009.722-0.009-0.0090.0000.0000.0000.000
24A26GLY00.0660.04712.4080.6370.6370.0000.0000.0000.000
25A27VAL0-0.035-0.0219.731-0.532-0.5320.0000.0000.0000.000
26A28GLY00.0350.02813.0050.4250.4250.0000.0000.0000.000
27A29LEU0-0.093-0.04516.304-0.173-0.1730.0000.0000.0000.000
28A30ARG10.9150.98518.9810.6330.6330.0000.0000.0000.000
29A31LYS10.9500.97121.323-0.074-0.0740.0000.0000.0000.000
30A32LYS10.9350.97224.8120.1970.1970.0000.0000.0000.000
31A33SER00.0150.01428.5610.0400.0400.0000.0000.0000.000
32A34LEU0-0.042-0.04130.804-0.039-0.0390.0000.0000.0000.000
33A35LEU00.0420.02233.8960.0170.0170.0000.0000.0000.000
34A36GLY00.0160.00736.0530.0160.0160.0000.0000.0000.000
35A37LEU00.0570.02132.535-0.004-0.0040.0000.0000.0000.000
36A38LYS10.9060.97031.257-0.043-0.0430.0000.0000.0000.000
37A39ASN00.0260.00827.423-0.058-0.0580.0000.0000.0000.000
38A40ILE0-0.019-0.00126.3220.0310.0310.0000.0000.0000.000
39A41ASP-1-0.757-0.86621.1270.0030.0030.0000.0000.0000.000
40A42VAL0-0.048-0.03023.261-0.021-0.0210.0000.0000.0000.000
41A43TYR00.0470.01119.786-0.018-0.0180.0000.0000.0000.000
42A44ALA00.0340.04515.1870.1210.1210.0000.0000.0000.000
43A45PHE0-0.020-0.02916.309-0.105-0.1050.0000.0000.0000.000
44A46GLY00.0440.03812.9710.1440.1440.0000.0000.0000.000
45A47VAL0-0.016-0.01613.729-0.021-0.0210.0000.0000.0000.000
46A48TYR0-0.024-0.0419.0690.4300.4300.0000.0000.0000.000
47A49ALA00.0220.00714.0180.4570.4570.0000.0000.0000.000
48A50ASP-1-0.840-0.92714.333-3.043-3.0430.0000.0000.0000.000
49A51CYS00.0220.00713.2860.0060.0060.0000.0000.0000.000
50A52ASP-1-0.883-0.93015.800-1.915-1.9150.0000.0000.0000.000
51A53ASP-1-0.814-0.89019.190-1.583-1.5830.0000.0000.0000.000
52A54VAL0-0.016-0.00717.6460.1980.1980.0000.0000.0000.000
53A55LYS10.8620.93616.1202.0292.0290.0000.0000.0000.000
54A56LYS10.8310.90620.5911.0481.0480.0000.0000.0000.000
55A57LEU0-0.036-0.00923.0450.1240.1240.0000.0000.0000.000
56A58VAL00.029-0.00121.3880.1150.1150.0000.0000.0000.000
57A59GLY0-0.003-0.00124.2470.1000.1000.0000.0000.0000.000
58A60ASP-1-0.889-0.92826.134-0.707-0.7070.0000.0000.0000.000
59A61LYS10.8030.89028.0110.5990.5990.0000.0000.0000.000
60A62TYR0-0.051-0.04526.1100.0790.0790.0000.0000.0000.000
61A63ALA00.0530.03527.4820.0290.0290.0000.0000.0000.000
62A64ASN0-0.085-0.05827.7680.0420.0420.0000.0000.0000.000
63A65LEU00.0030.03127.3340.0610.0610.0000.0000.0000.000
64A66PRO00.0290.02024.153-0.055-0.0550.0000.0000.0000.000
65A67ALA00.0710.02919.708-0.013-0.0130.0000.0000.0000.000
66A68SER00.008-0.00221.766-0.017-0.0170.0000.0000.0000.000
67A69GLU-1-0.930-0.97423.7460.0360.0360.0000.0000.0000.000
68A70ILE0-0.0320.00222.589-0.028-0.0280.0000.0000.0000.000
69A71ARG10.7450.84219.905-0.055-0.0550.0000.0000.0000.000
70A72GLY0-0.0110.00123.7350.0140.0140.0000.0000.0000.000
71A73ASN0-0.084-0.04827.2110.0040.0040.0000.0000.0000.000
72A74LYS10.9520.96027.831-0.002-0.0020.0000.0000.0000.000
73A75SER00.0140.01229.402-0.003-0.0030.0000.0000.0000.000
74A76PHE00.0230.02620.739-0.065-0.0650.0000.0000.0000.000
75A77MET0-0.007-0.00424.327-0.083-0.0830.0000.0000.0000.000
76A78ASP-1-0.872-0.91725.408-0.606-0.6060.0000.0000.0000.000
77A79ASP-1-0.753-0.86126.951-0.574-0.5740.0000.0000.0000.000
78A80LEU0-0.016-0.01120.618-0.097-0.0970.0000.0000.0000.000
79A81MET0-0.090-0.02923.852-0.102-0.1020.0000.0000.0000.000
80A82GLU-1-0.962-0.98325.604-0.646-0.6460.0000.0000.0000.000
81A83ALA00.0530.02625.443-0.005-0.0050.0000.0000.0000.000
82A84ASP-1-0.897-0.95126.070-1.247-1.2470.0000.0000.0000.000
83A85ILE0-0.018-0.00519.965-0.070-0.0700.0000.0000.0000.000
84A86LYS10.7950.88219.1082.0672.0670.0000.0000.0000.000
85A87MET0-0.016-0.01517.809-0.157-0.1570.0000.0000.0000.000
86A88THR0-0.015-0.01415.3880.0770.0770.0000.0000.0000.000
87A89ILE0-0.0140.01916.433-0.142-0.1420.0000.0000.0000.000
88A90ARG10.8530.89412.0324.2274.2270.0000.0000.0000.000
89A91LEU0-0.023-0.01816.2510.0920.0920.0000.0000.0000.000
90A92GLN0-0.002-0.01012.2720.1350.1350.0000.0000.0000.000
91A93ILE0-0.015-0.00818.0000.2300.2300.0000.0000.0000.000
92A94VAL00.0120.01818.6350.0230.0230.0000.0000.0000.000
93A95TYR0-0.007-0.01121.2620.1260.1260.0000.0000.0000.000
94A96GLY00.000-0.00825.037-0.054-0.0540.0000.0000.0000.000
95A97LYS10.9010.95326.4020.1950.1950.0000.0000.0000.000
96A98LEU00.0040.02426.1020.0510.0510.0000.0000.0000.000
97A99ASN0-0.011-0.01330.090-0.014-0.0140.0000.0000.0000.000
98A100ILE00.0770.03031.1730.0110.0110.0000.0000.0000.000
99A101ARG10.9720.99733.1560.3720.3720.0000.0000.0000.000
100A102SER0-0.019-0.00733.334-0.001-0.0010.0000.0000.0000.000
101A103VAL00.0190.00328.6970.0060.0060.0000.0000.0000.000
102A104ARG10.8890.93631.4690.6140.6140.0000.0000.0000.000
103A105ASN00.0320.01633.747-0.019-0.0190.0000.0000.0000.000
104A106ALA00.0020.00830.8120.0090.0090.0000.0000.0000.000
105A107PHE00.0140.01629.469-0.001-0.0010.0000.0000.0000.000
106A108GLN0-0.017-0.01531.0780.0210.0210.0000.0000.0000.000
107A109GLU-1-0.955-0.97234.228-0.321-0.3210.0000.0000.0000.000
108A110SER0-0.070-0.05929.773-0.011-0.0110.0000.0000.0000.000
109A111VAL00.0540.02329.527-0.003-0.0030.0000.0000.0000.000
110A112GLY00.0430.02632.0370.0060.0060.0000.0000.0000.000
111A113ASN0-0.076-0.03933.6480.0090.0090.0000.0000.0000.000
112A114ARG10.7810.88028.9580.4960.4960.0000.0000.0000.000
113A115LEU00.0400.02033.6130.0100.0100.0000.0000.0000.000
114A116LYS10.9500.97035.7190.3090.3090.0000.0000.0000.000
115A117LYS10.8370.93033.7660.3650.3650.0000.0000.0000.000
116A118PHE0-0.007-0.00430.8770.0090.0090.0000.0000.0000.000
117A119GLY00.0360.01636.253-0.015-0.0150.0000.0000.0000.000
118A120GLY00.0030.01538.7230.0290.0290.0000.0000.0000.000
119A121SER0-0.082-0.06241.586-0.003-0.0030.0000.0000.0000.000
120A122ASP-1-0.892-0.94243.044-0.362-0.3620.0000.0000.0000.000
121A123ASN0-0.025-0.00938.414-0.036-0.0360.0000.0000.0000.000
122A124ASP-1-0.876-0.93739.230-0.436-0.4360.0000.0000.0000.000
123A125GLU-1-0.899-0.95340.092-0.481-0.4810.0000.0000.0000.000
124A126LEU0-0.0120.00834.288-0.040-0.0400.0000.0000.0000.000
125A127LEU00.0290.01734.295-0.053-0.0530.0000.0000.0000.000
126A128GLN00.0050.01335.667-0.051-0.0510.0000.0000.0000.000
127A129SER0-0.032-0.02335.207-0.040-0.0400.0000.0000.0000.000
128A130PHE00.0430.00827.607-0.039-0.0390.0000.0000.0000.000
129A131THR0-0.031-0.03531.888-0.029-0.0290.0000.0000.0000.000
130A132SER0-0.056-0.03733.890-0.001-0.0010.0000.0000.0000.000
131A133LEU0-0.0240.00728.624-0.006-0.0060.0000.0000.0000.000
132A134PHE00.0160.01426.335-0.046-0.0460.0000.0000.0000.000
133A135LYS10.8560.92531.3950.7150.7150.0000.0000.0000.000
134A136ASP-1-0.856-0.91333.241-0.665-0.6650.0000.0000.0000.000
135A137GLU-1-0.892-0.93228.786-0.968-0.9680.0000.0000.0000.000
136A138TYR0-0.015-0.02131.9790.0780.0780.0000.0000.0000.000
137A139LYS10.8880.94127.6080.8710.8710.0000.0000.0000.000
138A140ILE00.0430.01825.095-0.041-0.0410.0000.0000.0000.000
139A141PRO00.0120.01324.9080.0620.0620.0000.0000.0000.000
140A142ARG10.9230.95618.7550.3770.3770.0000.0000.0000.000
141A143ASN0-0.020-0.02318.5580.0570.0570.0000.0000.0000.000
142A144SER0-0.0130.00318.793-0.163-0.1630.0000.0000.0000.000
143A145THR00.003-0.01315.790-0.076-0.0760.0000.0000.0000.000
144A146ILE0-0.049-0.02718.7890.1040.1040.0000.0000.0000.000
145A147ASP-1-0.768-0.82916.274-3.322-3.3220.0000.0000.0000.000
146A148LEU0-0.007-0.00619.2110.2030.2030.0000.0000.0000.000
147A149THR0-0.055-0.05018.696-0.136-0.1360.0000.0000.0000.000
148A150LYS10.8420.94220.9241.4321.4320.0000.0000.0000.000
149A151ASP-1-0.800-0.88321.591-2.011-2.0110.0000.0000.0000.000
150A152PRO00.031-0.00223.2130.1090.1090.0000.0000.0000.000
151A153GLY0-0.023-0.00725.9940.0600.0600.0000.0000.0000.000
152A154HIS0-0.040-0.02127.3720.0520.0520.0000.0000.0000.000
153A155VAL0-0.034-0.01527.2030.1010.1010.0000.0000.0000.000
154A156LEU00.0260.02024.904-0.097-0.0970.0000.0000.0000.000
155A157SER0-0.009-0.01823.6080.1560.1560.0000.0000.0000.000
156A158VAL0-0.024-0.00223.557-0.085-0.0850.0000.0000.0000.000
157A159ALA00.0210.00820.6470.0400.0400.0000.0000.0000.000
158A160ILE0-0.0020.00021.776-0.079-0.0790.0000.0000.0000.000
159A161GLU-1-0.873-0.94220.291-1.547-1.5470.0000.0000.0000.000
160A162GLY0-0.024-0.00619.349-0.041-0.0410.0000.0000.0000.000
161A163ASN0-0.041-0.01420.065-0.014-0.0140.0000.0000.0000.000
162A164HIS0-0.018-0.01523.7690.0250.0250.0000.0000.0000.000
163A165VAL00.001-0.00324.9300.0760.0760.0000.0000.0000.000
164A166GLY00.0090.00427.4610.1080.1080.0000.0000.0000.000
165A167SER0-0.023-0.03426.926-0.090-0.0900.0000.0000.0000.000
166A168VAL0-0.014-0.00329.1920.0810.0810.0000.0000.0000.000
167A169LYS10.9130.96130.2170.8680.8680.0000.0000.0000.000
168A170SER00.0310.01031.1200.0700.0700.0000.0000.0000.000
169A171HIS00.0630.04630.614-0.018-0.0180.0000.0000.0000.000
170A172LEU00.0260.03330.865-0.026-0.0260.0000.0000.0000.000
171A173LEU00.0280.01829.8360.0140.0140.0000.0000.0000.000
172A174CYS0-0.026-0.01126.703-0.051-0.0510.0000.0000.0000.000
173A175ARG10.8780.92326.8790.5920.5920.0000.0000.0000.000
174A176SER0-0.002-0.02528.5560.0420.0420.0000.0000.0000.000
175A177ILE0-0.024-0.02024.5680.0260.0260.0000.0000.0000.000
176A178LEU00.0210.00421.669-0.026-0.0260.0000.0000.0000.000
177A179ASP-1-0.776-0.87524.067-0.521-0.5210.0000.0000.0000.000
178A180LEU0-0.034-0.01625.5730.0680.0680.0000.0000.0000.000
179A181TYR0-0.084-0.05120.1480.0130.0130.0000.0000.0000.000
180A182ILE0-0.011-0.01018.4920.0500.0500.0000.0000.0000.000
181A183GLY00.1130.06622.5330.0530.0530.0000.0000.0000.000
182A184GLU-1-0.864-0.93325.755-0.143-0.1430.0000.0000.0000.000
183A185GLU-1-0.951-0.98727.978-0.199-0.1990.0000.0000.0000.000
184A186PRO0-0.0060.02322.916-0.028-0.0280.0000.0000.0000.000
185A187PHE0-0.054-0.05622.6300.0900.0900.0000.0000.0000.000
186A188ASP-1-0.857-0.93518.776-0.051-0.0510.0000.0000.0000.000
187A189LYS10.9340.96020.7000.0500.0500.0000.0000.0000.000
188A190ASN0-0.0200.00815.1810.1240.1240.0000.0000.0000.000
189A191ALA00.0210.00715.836-0.015-0.0150.0000.0000.0000.000
190A192ARG10.7510.87516.8220.0650.0650.0000.0000.0000.000
191A193GLU-1-0.818-0.88619.086-0.112-0.1120.0000.0000.0000.000
192A194ASP-1-0.833-0.91613.4550.4230.4230.0000.0000.0000.000
193A195PHE0-0.014-0.02315.053-0.195-0.1950.0000.0000.0000.000
194A196LEU0-0.005-0.00716.293-0.133-0.1330.0000.0000.0000.000
195A197ASP-1-0.791-0.87916.3200.2050.2050.0000.0000.0000.000
196A198ASN0-0.033-0.01811.7830.1580.1580.0000.0000.0000.000
197A199ALA0-0.017-0.00914.536-0.213-0.2130.0000.0000.0000.000
198A200ALA0-0.031-0.01717.077-0.028-0.0280.0000.0000.0000.000
199A201SER0-0.047-0.03314.5790.1970.1970.0000.0000.0000.000
200A202LEU0-0.006-0.00712.459-0.088-0.0880.0000.0000.0000.000
201A203ALA0-0.050-0.03515.146-0.183-0.1830.0000.0000.0000.000
202A204PHE0-0.097-0.05417.1080.0630.0630.0000.0000.0000.000
203A205ASP-2-1.790-1.86512.548-3.149-3.1490.0000.0000.0000.000