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: VN8L1

Calculation Name: 2OQO-A-Xray547

Preferred Name:

Target Type:

Ligand Name: 3-[(3-cholamidopropyl)dimethylammonio]-1-propanesulfonate | 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid

Ligand 3-letter code: CPS | EPE

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 2OQO

Chain ID: A

ChEMBL ID:

UniProt ID: O66874

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 187
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2120686.262074
FMO2-HF: Nuclear repulsion 2047063.731146
FMO2-HF: Total energy -73622.530928
FMO2-MP2: Total energy -73843.079453


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:57:THR)


Summations of interaction energy for fragment #1(A:57:THR)
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.
98.904100.13-0.018-0.466-0.741-0.001
Interaction energy analysis for fragmet #1(A:57:THR)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.890 / q_NPA : 0.931
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].
3A59GLY00.0120.0093.8712.2303.377-0.017-0.462-0.668-0.001
7A63ARG10.9090.9804.42732.85232.931-0.001-0.004-0.0730.000
4A60ILE00.0000.0015.322-3.646-3.6460.0000.0000.0000.000
5A61GLN0-0.005-0.0137.0160.9900.9900.0000.0000.0000.000
6A62LYS10.9460.9766.09538.68238.6820.0000.0000.0000.000
8A64PHE00.0270.0035.506-2.833-2.8330.0000.0000.0000.000
9A65TYR0-0.041-0.0368.5391.0251.0250.0000.0000.0000.000
10A66VAL0-0.048-0.02111.506-0.062-0.0620.0000.0000.0000.000
11A67SER0-0.010-0.02414.9670.0160.0160.0000.0000.0000.000
12A68ILE00.000-0.02318.2430.2330.2330.0000.0000.0000.000
13A69ASP-1-0.860-0.90521.344-14.319-14.3190.0000.0000.0000.000
14A70LYS10.9060.96716.60517.88117.8810.0000.0000.0000.000
15A71ILE0-0.049-0.01918.179-0.471-0.4710.0000.0000.0000.000
16A72PRO00.0380.02221.1880.5430.5430.0000.0000.0000.000
17A73GLU-1-0.880-0.94424.522-10.481-10.4810.0000.0000.0000.000
18A74HIS00.0500.02427.302-0.051-0.0510.0000.0000.0000.000
19A75VAL00.0020.00020.955-0.001-0.0010.0000.0000.0000.000
20A76ILE0-0.008-0.01023.6610.0090.0090.0000.0000.0000.000
21A77ASN00.0340.00625.3930.0610.0610.0000.0000.0000.000
22A78ALA00.0630.04026.2210.3190.3190.0000.0000.0000.000
23A79PHE0-0.022-0.02020.6420.0900.0900.0000.0000.0000.000
24A80VAL0-0.022-0.00226.1970.2140.2140.0000.0000.0000.000
25A81ALA00.0290.01529.0000.2790.2790.0000.0000.0000.000
26A82THR0-0.077-0.03428.3830.4810.4810.0000.0000.0000.000
27A83GLU-1-0.972-1.00125.829-11.310-11.3100.0000.0000.0000.000
28A84ASP-1-0.806-0.90729.181-10.109-10.1090.0000.0000.0000.000
29A85ARG10.9250.96830.8948.5118.5110.0000.0000.0000.000
30A86ASN0-0.015-0.01233.4950.1660.1660.0000.0000.0000.000
31A87PHE0-0.025-0.00426.5340.0330.0330.0000.0000.0000.000
32A88TRP00.031-0.00627.273-0.185-0.1850.0000.0000.0000.000
33A89HIS00.0010.00232.5690.0750.0750.0000.0000.0000.000
34A90HIS0-0.094-0.02630.3030.3390.3390.0000.0000.0000.000
35A91PHE00.0480.01533.970-0.153-0.1530.0000.0000.0000.000
36A92GLY00.0440.02030.597-0.067-0.0670.0000.0000.0000.000
37A93ILE0-0.047-0.02331.229-0.225-0.2250.0000.0000.0000.000
38A94ASP-1-0.718-0.86034.008-8.376-8.3760.0000.0000.0000.000
39A95PRO00.003-0.01236.3230.0290.0290.0000.0000.0000.000
40A96VAL00.0540.03739.6420.1540.1540.0000.0000.0000.000
41A97ALA0-0.051-0.02436.0100.0900.0900.0000.0000.0000.000
42A98ILE0-0.019-0.01235.9320.0340.0340.0000.0000.0000.000
43A99VAL0-0.0010.00038.7230.0880.0880.0000.0000.0000.000
44A100ARG10.9820.99136.3258.4488.4480.0000.0000.0000.000
45A101ALA0-0.005-0.00937.6310.0520.0520.0000.0000.0000.000
46A102ALA0-0.070-0.02639.670-0.015-0.0150.0000.0000.0000.000
47A103ILE0-0.015-0.00642.6070.0590.0590.0000.0000.0000.000
48A104VAL00.0140.01343.2390.1250.1250.0000.0000.0000.000
49A105ASN0-0.070-0.05040.556-0.102-0.1020.0000.0000.0000.000
50A106TYR00.0780.04542.574-0.092-0.0920.0000.0000.0000.000
51A107ARG10.9860.97940.1877.6177.6170.0000.0000.0000.000
52A108ALA00.0400.02540.1080.0190.0190.0000.0000.0000.000
53A109GLY00.0200.01637.718-0.158-0.1580.0000.0000.0000.000
54A110ARG10.8740.90838.7127.7957.7950.0000.0000.0000.000
55A111ILE0-0.0140.04535.0960.0600.0600.0000.0000.0000.000
56A112VAL00.0170.00437.163-0.251-0.2510.0000.0000.0000.000
57A113GLN0-0.046-0.02736.3270.0080.0080.0000.0000.0000.000
58A114GLY00.0170.01532.903-0.196-0.1960.0000.0000.0000.000
59A115GLY00.003-0.01333.3330.2220.2220.0000.0000.0000.000
60A116SER0-0.099-0.03429.6480.0840.0840.0000.0000.0000.000
61A117THR00.0290.00829.737-0.228-0.2280.0000.0000.0000.000
62A118ILE00.0220.00124.175-0.314-0.3140.0000.0000.0000.000
63A119THR0-0.040-0.04024.783-0.629-0.6290.0000.0000.0000.000
64A120GLN00.0260.00525.599-0.170-0.1700.0000.0000.0000.000
65A121GLN0-0.030-0.00723.516-0.491-0.4910.0000.0000.0000.000
66A122LEU0-0.0030.00719.479-0.556-0.5560.0000.0000.0000.000
67A123ALA00.010-0.00221.456-0.447-0.4470.0000.0000.0000.000
68A124LYS10.8660.93423.10112.37212.3720.0000.0000.0000.000
69A125ASN0-0.043-0.03418.1570.5640.5640.0000.0000.0000.000
70A126LEU0-0.0110.01118.548-0.863-0.8630.0000.0000.0000.000
71A127PHE0-0.064-0.02520.4260.2320.2320.0000.0000.0000.000
72A128LEU00.0410.02517.981-0.259-0.2590.0000.0000.0000.000
73A129THR00.0180.02120.508-0.250-0.2500.0000.0000.0000.000
74A130ARG10.9950.98821.42113.66513.6650.0000.0000.0000.000
75A131GLU-1-0.801-0.84924.331-10.553-10.5530.0000.0000.0000.000
76A132ARG10.7690.81327.50211.17811.1780.0000.0000.0000.000
77A133THR00.0730.01830.5590.3600.3600.0000.0000.0000.000
78A134LEU00.0210.00133.007-0.193-0.1930.0000.0000.0000.000
79A135GLU-1-0.817-0.91133.934-9.357-9.3570.0000.0000.0000.000
80A136ARG10.7940.89324.68011.96211.9620.0000.0000.0000.000
81A137LYS10.9000.94830.3689.4729.4720.0000.0000.0000.000
82A138ILE00.0210.02032.128-0.067-0.0670.0000.0000.0000.000
83A139LYS10.9090.95429.52910.03310.0330.0000.0000.0000.000
84A140GLU-1-0.744-0.84726.659-11.712-11.7120.0000.0000.0000.000
85A141ALA0-0.0040.00328.840-0.166-0.1660.0000.0000.0000.000
86A142LEU00.0080.00031.7070.0140.0140.0000.0000.0000.000
87A143LEU0-0.0170.00524.2920.0290.0290.0000.0000.0000.000
88A144ALA00.0220.00127.632-0.186-0.1860.0000.0000.0000.000
89A145ILE00.0030.00028.6130.0130.0130.0000.0000.0000.000
90A146LYS10.8910.95429.30510.69510.6950.0000.0000.0000.000
91A147ILE00.0020.00723.983-0.051-0.0510.0000.0000.0000.000
92A148GLU-1-0.722-0.85127.439-10.682-10.6820.0000.0000.0000.000
93A149ARG10.8920.96329.9619.1619.1610.0000.0000.0000.000
94A150THR0-0.081-0.04826.8420.2490.2490.0000.0000.0000.000
95A151PHE0-0.019-0.01123.303-0.294-0.2940.0000.0000.0000.000
96A152ASP-1-0.788-0.88926.533-11.421-11.4210.0000.0000.0000.000
97A153LYS10.8240.89426.4359.6699.6690.0000.0000.0000.000
98A154LYS10.9971.00025.42111.09911.0990.0000.0000.0000.000
99A155LYS10.8900.93019.90514.56514.5650.0000.0000.0000.000
100A156ILE0-0.0040.00221.600-0.792-0.7920.0000.0000.0000.000
101A157MET0-0.0010.01422.247-0.685-0.6850.0000.0000.0000.000
102A158GLU-1-0.786-0.85917.999-16.790-16.7900.0000.0000.0000.000
103A159LEU00.0180.01617.157-1.037-1.0370.0000.0000.0000.000
104A160TYR00.002-0.00317.339-0.995-0.9950.0000.0000.0000.000
105A161LEU00.0330.00818.245-0.672-0.6720.0000.0000.0000.000
106A162ASN0-0.038-0.02613.569-1.815-1.8150.0000.0000.0000.000
107A163GLN0-0.012-0.00113.248-1.540-1.5400.0000.0000.0000.000
108A164ILE0-0.038-0.00414.852-0.272-0.2720.0000.0000.0000.000
109A165TYR0-0.0110.00013.822-0.803-0.8030.0000.0000.0000.000
110A166LEU00.0090.00515.9111.2531.2530.0000.0000.0000.000
111A167GLY00.0410.02717.0970.6030.6030.0000.0000.0000.000
112A168SER00.0150.00015.423-0.745-0.7450.0000.0000.0000.000
113A169GLY0-0.0070.00511.651-1.070-1.0700.0000.0000.0000.000
114A170ALA0-0.005-0.00110.554-3.034-3.0340.0000.0000.0000.000
115A171TYR0-0.034-0.03210.5041.8511.8510.0000.0000.0000.000
116A172GLY00.0620.04111.538-1.696-1.6960.0000.0000.0000.000
117A173VAL0-0.007-0.02014.147-0.420-0.4200.0000.0000.0000.000
118A174GLU-1-0.747-0.82911.898-21.151-21.1510.0000.0000.0000.000
119A175ALA0-0.014-0.00710.497-0.556-0.5560.0000.0000.0000.000
120A176ALA00.004-0.00612.0270.2870.2870.0000.0000.0000.000
121A177ALA00.0200.01815.5350.7940.7940.0000.0000.0000.000
122A178GLN0-0.048-0.03010.280-0.773-0.7730.0000.0000.0000.000
123A179VAL0-0.084-0.04412.3270.4680.4680.0000.0000.0000.000
124A180TYR0-0.083-0.07214.8580.7180.7180.0000.0000.0000.000
125A181PHE00.0200.00718.2150.7830.7830.0000.0000.0000.000
126A182GLY0-0.0030.02216.6990.4990.4990.0000.0000.0000.000
127A183LYS10.8000.89817.54213.52413.5240.0000.0000.0000.000
128A184HIS10.8350.88113.33118.99018.9900.0000.0000.0000.000
129A185VAL00.026-0.01416.6400.9700.9700.0000.0000.0000.000
130A186TRP0-0.002-0.02014.7830.2720.2720.0000.0000.0000.000
131A187GLU-1-0.878-0.93019.265-15.392-15.3920.0000.0000.0000.000
132A188LEU0-0.078-0.02619.8840.2170.2170.0000.0000.0000.000
133A189SER00.007-0.02423.5520.2160.2160.0000.0000.0000.000
134A190LEU00.005-0.00726.445-0.343-0.3430.0000.0000.0000.000
135A191ASP-1-0.768-0.87328.485-11.117-11.1170.0000.0000.0000.000
136A192GLU-1-0.772-0.86123.377-13.330-13.3300.0000.0000.0000.000
137A193ALA0-0.027-0.01723.633-0.516-0.5160.0000.0000.0000.000
138A194ALA00.0270.00024.703-0.233-0.2330.0000.0000.0000.000
139A195LEU0-0.020-0.00523.6490.0430.0430.0000.0000.0000.000
140A196LEU0-0.029-0.01918.837-0.393-0.3930.0000.0000.0000.000
141A197ALA00.0110.00622.197-0.267-0.2670.0000.0000.0000.000
142A198ALA00.0050.01124.6510.3430.3430.0000.0000.0000.000
143A199LEU0-0.0240.00120.2020.2630.2630.0000.0000.0000.000
144A200PRO00.016-0.00121.763-0.007-0.0070.0000.0000.0000.000
145A201LYS10.9210.97823.23610.19510.1950.0000.0000.0000.000
146A202ALA0-0.030-0.03424.6720.3460.3460.0000.0000.0000.000
147A203PRO00.0270.02820.1310.2790.2790.0000.0000.0000.000
148A204ALA00.0410.03021.950-0.155-0.1550.0000.0000.0000.000
149A205LYS10.9080.96423.08810.32510.3250.0000.0000.0000.000
150A206TYR00.029-0.01025.4100.6630.6630.0000.0000.0000.000
151A207ASN00.0270.03319.386-0.009-0.0090.0000.0000.0000.000
152A208PRO00.0740.02221.6970.4690.4690.0000.0000.0000.000
153A209PHE0-0.006-0.00717.1920.2440.2440.0000.0000.0000.000
154A210TYR0-0.021-0.01620.5600.2670.2670.0000.0000.0000.000
155A211HIS0-0.057-0.02125.6550.7220.7220.0000.0000.0000.000
156A212PRO00.0740.04227.4420.0130.0130.0000.0000.0000.000
157A213GLU-1-0.788-0.89828.476-10.078-10.0780.0000.0000.0000.000
158A214ARG10.7800.87829.08510.48210.4820.0000.0000.0000.000
159A215ALA0-0.0260.00126.2310.0190.0190.0000.0000.0000.000
160A216LEU00.0580.04128.074-0.072-0.0720.0000.0000.0000.000
161A217GLN0-0.012-0.00530.6980.0590.0590.0000.0000.0000.000
162A218ARG10.8070.89627.87311.07111.0710.0000.0000.0000.000
163A219ARG10.8040.89128.31210.19210.1920.0000.0000.0000.000
164A220ASN00.0820.03329.901-0.159-0.1590.0000.0000.0000.000
165A221LEU0-0.048-0.01333.0400.2220.2220.0000.0000.0000.000
166A222VAL0-0.028-0.01328.3040.1730.1730.0000.0000.0000.000
167A223LEU00.0390.02031.0460.0780.0780.0000.0000.0000.000
168A224LYS10.8920.93533.3818.1268.1260.0000.0000.0000.000
169A225ARG10.6400.78633.1509.0999.0990.0000.0000.0000.000
170A226MET0-0.0130.00229.668-0.016-0.0160.0000.0000.0000.000
171A227LEU00.0140.02134.0770.1000.1000.0000.0000.0000.000
172A228GLU-1-0.866-0.91237.701-7.956-7.9560.0000.0000.0000.000
173A229GLU-1-0.850-0.91734.892-8.399-8.3990.0000.0000.0000.000
174A230GLY00.0120.01837.327-0.036-0.0360.0000.0000.0000.000
175A231TYR0-0.043-0.02832.958-0.085-0.0850.0000.0000.0000.000
176A232ILE0-0.048-0.01733.275-0.233-0.2330.0000.0000.0000.000
177A233THR0-0.001-0.02536.1550.1050.1050.0000.0000.0000.000
178A234PRO00.030-0.00338.823-0.182-0.1820.0000.0000.0000.000
179A235GLU-1-0.812-0.88440.686-7.599-7.5990.0000.0000.0000.000
180A236GLN00.0210.01335.212-0.141-0.1410.0000.0000.0000.000
181A237TYR0-0.030-0.01435.724-0.328-0.3280.0000.0000.0000.000
182A238GLU-1-0.895-0.96036.820-7.865-7.8650.0000.0000.0000.000
183A239GLU-1-0.890-0.92535.065-9.099-9.0990.0000.0000.0000.000
184A240ALA0-0.013-0.00832.366-0.215-0.2150.0000.0000.0000.000
185A241VAL0-0.053-0.04133.123-0.282-0.2820.0000.0000.0000.000
186A242ASN0-0.089-0.05135.3430.0360.0360.0000.0000.0000.000
187A243LYS0-0.0100.03831.176-0.375-0.3750.0000.0000.0000.000