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: 55RYZ

Calculation Name: 2F20-A-Xray547

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 2F20

Chain ID: A

ChEMBL ID:

UniProt ID: Q8A8E9

Base Structure: X-ray

Registration Date: 2025-10-05

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 233
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -3179776.298835
FMO2-HF: Nuclear repulsion 3084155.064729
FMO2-HF: Total energy -95621.234105
FMO2-MP2: Total energy -95900.436487


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:CYS)


Summations of interaction energy for fragment #1(A:2:CYS)
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.
-208.521-203.26429.745-16.495-18.509-0.152
Interaction energy analysis for fragmet #1(A:2:CYS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.797 / q_NPA : 0.903
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].
3A4HIS00.0190.0262.85813.60316.7120.005-1.603-1.5120.001
4A5ASN00.0250.0323.791-12.997-12.6250.001-0.147-0.227-0.001
59A60TRP0-0.073-0.0324.778-0.0200.127-0.001-0.036-0.1100.000
81A82ASN0-0.076-0.0392.407-16.710-14.8371.518-1.463-1.928-0.019
109A110TYR0-0.046-0.0332.697-7.827-5.9770.967-1.125-1.692-0.012
110A111PHE0-0.013-0.0104.3345.2365.409-0.001-0.020-0.1520.000
111A112GLU-1-0.822-0.9041.884-152.876-157.86624.472-10.898-8.584-0.117
112A113TRP0-0.047-0.0265.1866.4136.470-0.001-0.003-0.0530.000
134A135MET0-0.054-0.0105.892-4.131-4.076-0.001-0.005-0.0480.000
155A156ILE00.0090.0134.3001.3361.484-0.001-0.022-0.1250.000
157A158THR0-0.020-0.0163.725-2.938-2.3780.128-0.123-0.5650.000
158A159THR0-0.008-0.0176.0974.9454.922-0.001-0.0040.0290.000
168A169ASP-1-0.721-0.8654.724-40.790-40.633-0.001-0.008-0.1490.000
173A174ARG10.8330.9293.32133.05433.3031.026-0.319-0.9570.000
174A175MET00.0140.0363.068-6.924-6.0020.601-0.525-0.998-0.004
175A176PRO00.0290.0092.8863.7514.3421.033-0.173-1.4520.000
176A177ALA0-0.020-0.0255.0603.1763.1830.001-0.0210.0140.000
5A6SER00.007-0.0135.7084.6934.6930.0000.0000.0000.000
6A7MET00.0170.0069.103-0.387-0.3870.0000.0000.0000.000
7A8SER00.0240.01412.2601.5941.5940.0000.0000.0000.000
8A9ALA00.0060.00815.1021.3281.3280.0000.0000.0000.000
9A10LYS10.8420.91017.69413.43513.4350.0000.0000.0000.000
10A11ALA00.0820.03219.285-0.246-0.2460.0000.0000.0000.000
11A12ILE00.0250.00120.305-0.214-0.2140.0000.0000.0000.000
12A13LYS10.8910.94920.11213.20013.2000.0000.0000.0000.000
13A14VAL00.0300.01416.076-0.194-0.1940.0000.0000.0000.000
14A15ALA00.0040.00218.623-0.135-0.1350.0000.0000.0000.000
15A16ALA0-0.022-0.01021.6450.2060.2060.0000.0000.0000.000
16A17ARG10.6920.80616.33318.06818.0680.0000.0000.0000.000
17A18TYR0-0.018-0.02814.578-0.499-0.4990.0000.0000.0000.000
18A19GLY0-0.0110.00721.0020.3140.3140.0000.0000.0000.000
19A20ARG10.7450.85021.51614.32114.3210.0000.0000.0000.000
20A21GLN0-0.024-0.01124.7510.1100.1100.0000.0000.0000.000
21A22SER00.050-0.00524.095-0.482-0.4820.0000.0000.0000.000
22A23ASP-1-0.849-0.87925.149-10.978-10.9780.0000.0000.0000.000
23A24VAL00.009-0.00222.8800.0850.0850.0000.0000.0000.000
24A25VAL0-0.020-0.01319.284-0.260-0.2600.0000.0000.0000.000
25A26GLU-1-0.888-0.95122.211-12.100-12.1000.0000.0000.0000.000
26A27ILE0-0.0150.00624.9600.0320.0320.0000.0000.0000.000
27A28TYR0-0.009-0.01221.3090.1540.1540.0000.0000.0000.000
28A29GLN00.0590.02521.295-0.404-0.4040.0000.0000.0000.000
29A30SER0-0.026-0.01721.212-0.377-0.3770.0000.0000.0000.000
30A31ILE0-0.081-0.03018.297-0.004-0.0040.0000.0000.0000.000
31A32LEU0-0.023-0.01516.548-1.089-1.0890.0000.0000.0000.000
32A33ASP-1-0.838-0.91716.608-15.196-15.1960.0000.0000.0000.000
33A34GLU-1-0.910-0.93816.714-14.890-14.8900.0000.0000.0000.000
34A35GLN00.0010.00113.403-0.345-0.3450.0000.0000.0000.000
35A36TYR00.004-0.00312.254-2.447-2.4470.0000.0000.0000.000
36A37HIS0-0.055-0.0198.035-0.003-0.0030.0000.0000.0000.000
37A38VAL00.0150.0198.7931.9871.9870.0000.0000.0000.000
38A39ASN00.0350.0127.798-7.282-7.2820.0000.0000.0000.000
39A40ALA00.0720.0376.5003.6453.6450.0000.0000.0000.000
40A41PHE0-0.018-0.0187.1872.4652.4650.0000.0000.0000.000
41A42THR0-0.068-0.04111.3632.5262.5260.0000.0000.0000.000
42A43PHE0-0.028-0.01412.2371.7421.7420.0000.0000.0000.000
43A44PRO00.0150.03511.5251.5741.5740.0000.0000.0000.000
44A45ARG10.9210.95913.92214.28814.2880.0000.0000.0000.000
45A46TYR0-0.049-0.04210.082-0.734-0.7340.0000.0000.0000.000
46A47PRO00.0360.01313.5630.9850.9850.0000.0000.0000.000
47A48ILE0-0.036-0.01512.292-1.664-1.6640.0000.0000.0000.000
48A49ILE00.0070.01815.4491.4751.4750.0000.0000.0000.000
49A50THR00.026-0.00116.846-0.766-0.7660.0000.0000.0000.000
50A51SER00.016-0.00119.5470.1580.1580.0000.0000.0000.000
51A52SER0-0.014-0.00522.5910.6960.6960.0000.0000.0000.000
52A53ASP-1-0.820-0.91023.455-11.619-11.6190.0000.0000.0000.000
53A54GLU0-0.085-0.08224.774-0.190-0.1900.0000.0000.0000.000
54A55VAL0-0.0140.00818.619-0.493-0.4930.0000.0000.0000.000
55A56GLN0-0.046-0.01818.7930.6380.6380.0000.0000.0000.000
56A57VAL0-0.012-0.01217.862-0.794-0.7940.0000.0000.0000.000
57A58PHE00.0050.01815.4140.3590.3590.0000.0000.0000.000
58A59ASN0-0.004-0.02615.231-0.165-0.1650.0000.0000.0000.000
60A61GLY00.015-0.00711.1650.2440.2440.0000.0000.0000.000
61A62LEU0-0.033-0.01112.0271.6161.6160.0000.0000.0000.000
62A63ILE00.0440.03214.077-0.208-0.2080.0000.0000.0000.000
63A64PRO0-0.034-0.00916.6720.4520.4520.0000.0000.0000.000
64A65PHE0-0.018-0.01119.3080.6200.6200.0000.0000.0000.000
65A66TRP0-0.067-0.03719.1290.5670.5670.0000.0000.0000.000
66A67VAL0-0.028-0.01519.8740.4230.4230.0000.0000.0000.000
67A68ARG10.9090.95123.25310.75110.7510.0000.0000.0000.000
68A69SER00.0370.01124.9560.3130.3130.0000.0000.0000.000
69A70GLU-1-0.824-0.91323.747-12.601-12.6010.0000.0000.0000.000
70A71GLU-1-0.942-0.95122.652-12.024-12.0240.0000.0000.0000.000
71A72ASP-1-0.853-0.91921.657-12.976-12.9760.0000.0000.0000.000
72A73ALA0-0.033-0.01619.436-0.943-0.9430.0000.0000.0000.000
73A74THR0-0.066-0.04418.083-1.286-1.2860.0000.0000.0000.000
74A75GLU-1-0.802-0.88817.165-17.152-17.1520.0000.0000.0000.000
75A76ILE0-0.020-0.01915.368-1.340-1.3400.0000.0000.0000.000
76A77ARG10.9160.98613.80217.20717.2070.0000.0000.0000.000
77A78LYS10.7850.87411.69115.21015.2100.0000.0000.0000.000
78A79MET0-0.068-0.0319.958-2.185-2.1850.0000.0000.0000.000
79A80THR0-0.045-0.0349.820-1.466-1.4660.0000.0000.0000.000
80A81LEU00.0480.0427.037-0.642-0.6420.0000.0000.0000.000
82A83ALA00.0580.0376.1443.5983.5980.0000.0000.0000.000
83A84ARG10.8330.9098.23722.71322.7130.0000.0000.0000.000
84A85ALA00.0500.0159.5341.8991.8990.0000.0000.0000.000
85A86ASP-1-0.838-0.89511.584-20.215-20.2150.0000.0000.0000.000
86A87THR00.003-0.00713.4350.8130.8130.0000.0000.0000.000
87A88ILE0-0.019-0.00611.6240.7000.7000.0000.0000.0000.000
88A89PHE00.000-0.02214.8590.6090.6090.0000.0000.0000.000
89A90GLU-1-0.929-0.95717.833-13.995-13.9950.0000.0000.0000.000
90A91LYS10.9720.97612.04921.09321.0930.0000.0000.0000.000
91A92PRO00.010-0.00817.641-0.267-0.2670.0000.0000.0000.000
92A93SER00.0130.01615.1300.6430.6430.0000.0000.0000.000
93A94PHE00.020-0.00211.009-0.633-0.6330.0000.0000.0000.000
94A95ARG10.9410.98716.19013.01013.0100.0000.0000.0000.000
95A96GLU-1-0.890-0.94419.292-11.893-11.8930.0000.0000.0000.000
96A97PRO00.0150.00216.3240.2390.2390.0000.0000.0000.000
97A98ILE00.0130.01214.9860.0290.0290.0000.0000.0000.000
98A99MET0-0.043-0.01917.4930.1690.1690.0000.0000.0000.000
99A100LYS10.8890.93720.71312.07012.0700.0000.0000.0000.000
100A101LYS10.8050.92218.58814.43114.4310.0000.0000.0000.000
101A102ARG10.8700.94115.81814.07414.0740.0000.0000.0000.000
102A103CYS0-0.057-0.01313.8350.4560.4560.0000.0000.0000.000
103A104ILE00.0130.01812.849-0.948-0.9480.0000.0000.0000.000
104A105VAL00.0110.0088.3420.7840.7840.0000.0000.0000.000
105A106PRO00.0460.03210.202-1.557-1.5570.0000.0000.0000.000
106A107SER00.022-0.0036.944-2.202-2.2020.0000.0000.0000.000
107A108THR0-0.0040.0109.5332.1662.1660.0000.0000.0000.000
108A109GLY00.0210.0038.0741.8771.8770.0000.0000.0000.000
113A114ARG10.8870.9658.71919.41319.4130.0000.0000.0000.000
114A115HIS0-0.013-0.0169.0413.6403.6400.0000.0000.0000.000
115A116GLU-1-0.823-0.89813.503-17.663-17.6630.0000.0000.0000.000
116A117GLY00.0200.01217.1390.6830.6830.0000.0000.0000.000
117A118ALA0-0.005-0.01417.932-0.642-0.6420.0000.0000.0000.000
118A119ASN0-0.055-0.01117.354-0.567-0.5670.0000.0000.0000.000
119A120LYS10.9080.94311.64221.05621.0560.0000.0000.0000.000
120A121ILE00.0270.02413.2720.7070.7070.0000.0000.0000.000
121A122PRO0-0.0170.0049.852-2.112-2.1120.0000.0000.0000.000
122A123TYR00.042-0.0068.8863.2083.2080.0000.0000.0000.000
123A124TYR0-0.021-0.0137.916-4.288-4.2880.0000.0000.0000.000
124A125ILE0-0.022-0.0205.4343.7663.7660.0000.0000.0000.000
125A126TYR00.0180.0037.856-3.055-3.0550.0000.0000.0000.000
126A127VAL0-0.0220.00010.3470.2910.2910.0000.0000.0000.000
127A128LYS10.8710.92412.94218.11018.1100.0000.0000.0000.000
128A129ASP-1-0.925-0.97016.552-15.168-15.1680.0000.0000.0000.000
129A130GLU-1-0.835-0.92015.188-19.018-19.0180.0000.0000.0000.000
130A131PRO0-0.031-0.02414.745-1.303-1.3030.0000.0000.0000.000
131A132ILE0-0.031-0.01213.540-0.914-0.9140.0000.0000.0000.000
132A133PHE00.0460.0477.7120.5470.5470.0000.0000.0000.000
133A134SER00.031-0.02011.571-1.380-1.3800.0000.0000.0000.000
135A136ALA00.0490.0269.4921.6921.6920.0000.0000.0000.000
136A137GLY00.0170.0039.145-3.137-3.1370.0000.0000.0000.000
137A138ILE0-0.052-0.02810.9842.1102.1100.0000.0000.0000.000
138A139TYR00.0500.00912.799-1.234-1.2340.0000.0000.0000.000
139A140ASP-1-0.798-0.91015.544-13.769-13.7690.0000.0000.0000.000
140A141ARG10.9690.99518.37911.82511.8250.0000.0000.0000.000
141A142TRP0-0.051-0.04521.395-0.001-0.0010.0000.0000.0000.000
142A143LEU00.0370.03622.976-0.088-0.0880.0000.0000.0000.000
143A144ASP-1-0.846-0.92725.856-11.587-11.5870.0000.0000.0000.000
144A145LYS10.8930.93927.0039.8519.8510.0000.0000.0000.000
145A146ASP-1-0.950-0.97429.621-9.603-9.6030.0000.0000.0000.000
146A147THR0-0.041-0.02427.7880.4440.4440.0000.0000.0000.000
147A148GLY0-0.027-0.00630.3130.1970.1970.0000.0000.0000.000
148A149GLU-1-0.930-0.97324.438-12.638-12.6380.0000.0000.0000.000
149A150GLU-1-0.916-0.97124.924-12.210-12.2100.0000.0000.0000.000
150A151HIS10.8640.94820.60013.11713.1170.0000.0000.0000.000
151A152GLU-1-0.892-0.95319.478-14.134-14.1340.0000.0000.0000.000
152A153THR0-0.047-0.01015.151-0.651-0.6510.0000.0000.0000.000
153A154PHE00.014-0.0058.7790.4940.4940.0000.0000.0000.000
154A155SER0-0.021-0.0329.029-1.911-1.9110.0000.0000.0000.000
156A157ILE0-0.024-0.0096.399-1.293-1.2930.0000.0000.0000.000
159A160ASP-1-0.917-0.9766.550-26.052-26.0520.0000.0000.0000.000
160A161THR0-0.015-0.0386.414-0.975-0.9750.0000.0000.0000.000
161A162ASN00.0170.0158.5121.2761.2760.0000.0000.0000.000
162A163SER00.022-0.01010.742-1.171-1.1710.0000.0000.0000.000
163A164LEU00.0160.03110.6860.0520.0520.0000.0000.0000.000
164A165THR00.017-0.0266.203-0.983-0.9830.0000.0000.0000.000
165A166ASP-1-0.827-0.8687.575-26.204-26.2040.0000.0000.0000.000
166A167TYR0-0.0170.0009.7250.9930.9930.0000.0000.0000.000
167A168ILE0-0.006-0.0037.3740.6830.6830.0000.0000.0000.000
169A170ASN0-0.004-0.0176.8120.2820.2820.0000.0000.0000.000
170A171THR0-0.059-0.0308.3232.2142.2140.0000.0000.0000.000
171A172LYS10.8060.8925.63432.34232.3420.0000.0000.0000.000
172A173HIS10.8190.9067.02326.78826.7880.0000.0000.0000.000
177A178ILE0-0.038-0.0107.8050.2600.2600.0000.0000.0000.000
178A179LEU0-0.0150.00110.4311.5791.5790.0000.0000.0000.000
179A180THR0-0.055-0.06013.958-0.081-0.0810.0000.0000.0000.000
180A181GLN00.0350.01517.0100.5000.5000.0000.0000.0000.000
181A182GLU-1-0.907-0.96019.010-14.344-14.3440.0000.0000.0000.000
182A183GLU-1-0.905-0.92917.414-16.736-16.7360.0000.0000.0000.000
183A184GLU-1-0.764-0.80416.709-17.973-17.9730.0000.0000.0000.000
184A185GLU-1-0.743-0.86618.757-14.239-14.2390.0000.0000.0000.000
185A186LYS10.8940.96121.16014.15014.1500.0000.0000.0000.000
186A187TRP0-0.010-0.03413.7350.2760.2760.0000.0000.0000.000
187A188LEU0-0.0100.00817.283-0.209-0.2090.0000.0000.0000.000
188A189ASN00.0400.04020.1250.6960.6960.0000.0000.0000.000
189A190PRO00.008-0.01522.881-0.296-0.2960.0000.0000.0000.000
190A191SER0-0.048-0.02624.5420.2290.2290.0000.0000.0000.000
191A192LEU0-0.076-0.00520.7330.2330.2330.0000.0000.0000.000
192A193SER0-0.007-0.04023.745-0.200-0.2000.0000.0000.0000.000
193A194LYS10.9740.97120.93813.20613.2060.0000.0000.0000.000
194A195ALA0-0.014-0.00320.850-0.604-0.6040.0000.0000.0000.000
195A196GLU-1-0.810-0.87921.335-12.437-12.4370.0000.0000.0000.000
196A197ILE00.0040.00516.881-0.584-0.5840.0000.0000.0000.000
197A198ALA00.005-0.01016.685-0.962-0.9620.0000.0000.0000.000
198A199SER0-0.090-0.04616.739-0.374-0.3740.0000.0000.0000.000
199A200LEU0-0.0240.00516.3090.1940.1940.0000.0000.0000.000
200A201LEU0-0.047-0.01011.464-1.460-1.4600.0000.0000.0000.000
201A202LYS10.9350.96212.71417.46017.4600.0000.0000.0000.000
202A203PRO00.0120.01310.189-1.234-1.2340.0000.0000.0000.000
203A204PHE00.0290.01010.4901.5621.5620.0000.0000.0000.000
204A205ASP-1-0.814-0.91812.358-17.236-17.2360.0000.0000.0000.000
205A206THR00.011-0.01313.373-1.458-1.4580.0000.0000.0000.000
206A207GLU-1-0.904-0.94214.348-16.399-16.3990.0000.0000.0000.000
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