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: 2G3JR

Calculation Name: 1EX2-A-Xray549

Preferred Name:

Target Type:

Ligand Name: beta-d-fructofuranose | alpha-d-glucopyranose | phosphate ion

Ligand 3-letter code: FRU | GLC | PO4

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1EX2

Chain ID: A

ChEMBL ID:

UniProt ID: Q02169

Base Structure: X-ray

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 184
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -1970693.497888
FMO2-HF: Nuclear repulsion 1897053.776172
FMO2-HF: Total energy -73639.721716
FMO2-MP2: Total energy -73852.564095


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.
-85.838-83.6771.869-1.404-2.625-0.016
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 : 0.821 / q_NPA : 0.913
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].
3A3LYS10.8760.9202.55633.82135.8001.870-1.392-2.456-0.016
4A4PRO0-0.0200.0044.1112.7002.882-0.001-0.012-0.1690.000
5A5LEU00.0360.0236.5990.1760.1760.0000.0000.0000.000
6A6ILE00.002-0.00610.2591.2301.2300.0000.0000.0000.000
7A7LEU0-0.0130.00313.1050.1340.1340.0000.0000.0000.000
8A8ALA00.0460.02116.8930.4860.4860.0000.0000.0000.000
9A9SER0-0.015-0.03619.1210.8370.8370.0000.0000.0000.000
10A10GLN00.0470.02221.991-0.139-0.1390.0000.0000.0000.000
11A11SER0-0.054-0.01424.5710.4420.4420.0000.0000.0000.000
12A12PRO00.0580.01525.080-0.385-0.3850.0000.0000.0000.000
13A13ARG10.9751.00725.9609.4939.4930.0000.0000.0000.000
14A14ARG10.8480.91022.88011.44211.4420.0000.0000.0000.000
15A15LYS10.8640.93320.77412.18012.1800.0000.0000.0000.000
16A16GLU-1-0.898-0.95621.883-10.739-10.7390.0000.0000.0000.000
17A17LEU0-0.025-0.02523.854-0.173-0.1730.0000.0000.0000.000
18A18LEU0-0.0010.00416.164-0.347-0.3470.0000.0000.0000.000
19A19ASP-1-0.797-0.86618.935-13.815-13.8150.0000.0000.0000.000
20A20LEU0-0.050-0.02020.454-0.188-0.1880.0000.0000.0000.000
21A21LEU0-0.049-0.02317.545-0.031-0.0310.0000.0000.0000.000
22A22GLN0-0.056-0.02517.782-0.899-0.8990.0000.0000.0000.000
23A23LEU00.0080.01812.853-0.660-0.6600.0000.0000.0000.000
24A24PRO0-0.027-0.00810.0490.9120.9120.0000.0000.0000.000
25A25TYR0-0.043-0.05311.178-1.441-1.4410.0000.0000.0000.000
26A26SER0-0.026-0.00311.9810.8900.8900.0000.0000.0000.000
27A27ILE0-0.001-0.00714.190-0.187-0.1870.0000.0000.0000.000
28A28ILE0-0.0050.00014.0390.0360.0360.0000.0000.0000.000
29A29VAL0-0.030-0.01418.0900.2090.2090.0000.0000.0000.000
30A30SER0-0.011-0.01520.844-0.191-0.1910.0000.0000.0000.000
31A31GLU-1-0.954-0.95822.787-9.918-9.9180.0000.0000.0000.000
32A32VAL00.0240.00324.829-0.286-0.2860.0000.0000.0000.000
33A33GLU-1-0.910-0.93526.926-10.279-10.2790.0000.0000.0000.000
34A34GLU-1-0.867-0.94427.043-11.010-11.0100.0000.0000.0000.000
35A35LYS10.8340.90530.0839.7159.7150.0000.0000.0000.000
36A36LEU00.0430.02533.236-0.140-0.1400.0000.0000.0000.000
37A37ASN00.0170.01434.2350.1960.1960.0000.0000.0000.000
38A38ARG10.9550.94936.4297.2967.2960.0000.0000.0000.000
39A39ASN0-0.014-0.00338.4860.2910.2910.0000.0000.0000.000
40A40PHE0-0.0300.00731.242-0.126-0.1260.0000.0000.0000.000
41A41SER00.005-0.02435.1220.1200.1200.0000.0000.0000.000
42A42PRO00.0460.00235.186-0.246-0.2460.0000.0000.0000.000
43A43GLU-1-0.793-0.89032.243-9.336-9.3360.0000.0000.0000.000
44A44GLU-1-0.833-0.87230.693-9.894-9.8940.0000.0000.0000.000
45A45ASN0-0.016-0.01230.260-0.485-0.4850.0000.0000.0000.000
46A46VAL0-0.0010.00329.126-0.365-0.3650.0000.0000.0000.000
47A47GLN0-0.001-0.03126.440-0.799-0.7990.0000.0000.0000.000
48A48TRP0-0.068-0.02525.521-0.653-0.6530.0000.0000.0000.000
49A49LEU00.0460.01325.854-0.405-0.4050.0000.0000.0000.000
50A50ALA0-0.051-0.01623.481-0.301-0.3010.0000.0000.0000.000
51A51LYS10.9280.95721.41212.38812.3880.0000.0000.0000.000
52A52GLN0-0.060-0.02421.218-1.047-1.0470.0000.0000.0000.000
53A53LYS10.8090.88722.12311.27411.2740.0000.0000.0000.000
54A54ALA00.0270.01217.618-0.292-0.2920.0000.0000.0000.000
55A55LYS10.9560.97917.33513.99413.9940.0000.0000.0000.000
56A56ALA00.0450.03518.287-0.438-0.4380.0000.0000.0000.000
57A57VAL0-0.027-0.00815.0340.0740.0740.0000.0000.0000.000
58A58ALA00.002-0.01913.696-0.740-0.7400.0000.0000.0000.000
59A59ASP-1-0.920-0.97013.876-17.134-17.1340.0000.0000.0000.000
60A60LEU0-0.072-0.02815.8140.0530.0530.0000.0000.0000.000
61A61HIS0-0.059-0.02611.176-1.268-1.2680.0000.0000.0000.000
62A62PRO00.0610.03810.715-1.621-1.6210.0000.0000.0000.000
63A63HIS0-0.025-0.0225.573-2.198-2.1980.0000.0000.0000.000
64A64ALA0-0.041-0.0305.993-5.179-5.1790.0000.0000.0000.000
65A65ILE00.0010.0158.161-0.142-0.1420.0000.0000.0000.000
66A66VAL0-0.011-0.00910.4041.0921.0920.0000.0000.0000.000
67A67ILE00.0110.00613.8420.4040.4040.0000.0000.0000.000
68A68GLY00.0290.01516.9570.4600.4600.0000.0000.0000.000
69A69ALA00.007-0.01020.327-0.059-0.0590.0000.0000.0000.000
70A70ASP-1-0.871-0.92623.711-10.302-10.3020.0000.0000.0000.000
71A71THR00.019-0.02027.500-0.267-0.2670.0000.0000.0000.000
72A72MET0-0.0350.01030.6680.2700.2700.0000.0000.0000.000
73A73VAL00.0440.03134.341-0.070-0.0700.0000.0000.0000.000
74A74CYS0-0.101-0.06737.676-0.094-0.0940.0000.0000.0000.000
75A75LEU00.0240.00439.974-0.006-0.0060.0000.0000.0000.000
76A76ASP-1-0.794-0.86343.668-6.838-6.8380.0000.0000.0000.000
77A77GLY0-0.0090.00141.9770.0780.0780.0000.0000.0000.000
78A78GLU-1-0.824-0.85741.920-7.087-7.0870.0000.0000.0000.000
79A80LEU00.0160.01640.1130.0800.0800.0000.0000.0000.000
80A81GLY00.0430.01838.337-0.249-0.2490.0000.0000.0000.000
81A82LYS10.8840.93533.8958.6778.6770.0000.0000.0000.000
82A83PRO0-0.0180.01839.7060.0630.0630.0000.0000.0000.000
83A84GLN0-0.044-0.04440.921-0.213-0.2130.0000.0000.0000.000
84A85ASP-1-0.824-0.91544.213-6.123-6.1230.0000.0000.0000.000
85A86GLN0-0.011-0.01547.192-0.110-0.1100.0000.0000.0000.000
86A87GLU-1-0.850-0.92948.936-5.799-5.7990.0000.0000.0000.000
87A88GLU-1-0.905-0.95345.444-6.984-6.9840.0000.0000.0000.000
88A89ALA0-0.006-0.01745.743-0.085-0.0850.0000.0000.0000.000
89A90ALA00.0450.02846.849-0.067-0.0670.0000.0000.0000.000
90A91SER0-0.017-0.00649.685-0.006-0.0060.0000.0000.0000.000
91A92MET0-0.062-0.02243.114-0.084-0.0840.0000.0000.0000.000
92A93LEU00.0210.00844.807-0.044-0.0440.0000.0000.0000.000
93A94ARG10.9670.97847.6356.0246.0240.0000.0000.0000.000
94A95ARG10.7770.85546.5136.8266.8260.0000.0000.0000.000
95A96LEU0-0.027-0.00842.859-0.043-0.0430.0000.0000.0000.000
96A97SER0-0.041-0.01447.012-0.008-0.0080.0000.0000.0000.000
97A98GLY0-0.021-0.01549.8940.0830.0830.0000.0000.0000.000
98A99ARG10.7150.84046.6066.8866.8860.0000.0000.0000.000
99A100SER0-0.014-0.03144.353-0.044-0.0440.0000.0000.0000.000
100A101HIS0-0.0010.01840.303-0.058-0.0580.0000.0000.0000.000
101A102SER0-0.016-0.00937.860-0.144-0.1440.0000.0000.0000.000
102A103VAL00.0130.01933.6390.0360.0360.0000.0000.0000.000
103A104ILE0-0.020-0.01631.783-0.127-0.1270.0000.0000.0000.000
104A105THR00.0030.01126.9640.0500.0500.0000.0000.0000.000
105A106ALA0-0.023-0.00526.217-0.076-0.0760.0000.0000.0000.000
106A107VAL0-0.011-0.00720.3580.0390.0390.0000.0000.0000.000
107A108SER0-0.053-0.03120.319-0.185-0.1850.0000.0000.0000.000
108A109ILE00.0140.00914.2590.0730.0730.0000.0000.0000.000
109A110GLN0-0.017-0.02214.8970.0050.0050.0000.0000.0000.000
110A111ALA00.0650.0309.536-0.875-0.8750.0000.0000.0000.000
111A112GLU-1-0.867-0.9157.296-38.441-38.4410.0000.0000.0000.000
112A113ASN0-0.0070.0066.6742.9292.9290.0000.0000.0000.000
113A114HIS00.0000.0049.9801.5931.5930.0000.0000.0000.000
114A115SER0-0.042-0.01612.2000.5360.5360.0000.0000.0000.000
115A116GLU-1-0.873-0.93115.501-17.181-17.1810.0000.0000.0000.000
116A117THR0-0.074-0.05718.0700.3230.3230.0000.0000.0000.000
117A118PHE00.0210.03220.7210.4030.4030.0000.0000.0000.000
118A119TYR00.023-0.00424.6170.0960.0960.0000.0000.0000.000
119A120ASP-1-0.842-0.88927.930-10.890-10.8900.0000.0000.0000.000
120A121LYS10.8800.92629.8728.9978.9970.0000.0000.0000.000
121A122THR00.0090.01933.382-0.036-0.0360.0000.0000.0000.000
122A123GLU-1-0.871-0.90535.885-7.446-7.4460.0000.0000.0000.000
123A124VAL0-0.014-0.02138.184-0.080-0.0800.0000.0000.0000.000
124A125ALA00.0100.01040.9030.1330.1330.0000.0000.0000.000
125A126PHE00.0250.00042.274-0.085-0.0850.0000.0000.0000.000
126A127TRP00.003-0.00246.5430.2020.2020.0000.0000.0000.000
127A128SER0-0.026-0.03449.734-0.075-0.0750.0000.0000.0000.000
128A129LEU0-0.0400.01147.5840.0650.0650.0000.0000.0000.000
129A130SER0-0.022-0.04652.2260.0680.0680.0000.0000.0000.000
130A131GLU-1-0.864-0.95353.734-5.850-5.8500.0000.0000.0000.000
131A132GLU-1-0.895-0.94954.514-5.514-5.5140.0000.0000.0000.000
132A133GLU-1-0.852-0.87350.864-6.146-6.1460.0000.0000.0000.000
133A134ILE0-0.029-0.01049.809-0.155-0.1550.0000.0000.0000.000
134A135TRP00.003-0.00349.773-0.159-0.1590.0000.0000.0000.000
135A136THR0-0.027-0.03451.034-0.100-0.1000.0000.0000.0000.000
136A137TYR0-0.020-0.00941.308-0.158-0.1580.0000.0000.0000.000
137A138ILE0-0.018-0.00346.471-0.183-0.1830.0000.0000.0000.000
138A139GLU-1-0.912-0.94647.429-5.900-5.9000.0000.0000.0000.000
139A140THR0-0.114-0.07845.112-0.091-0.0910.0000.0000.0000.000
140A141LYS10.9210.95443.7306.3686.3680.0000.0000.0000.000
141A142GLU-1-0.774-0.84540.873-7.503-7.5030.0000.0000.0000.000
142A143PRO00.0330.02840.267-0.261-0.2610.0000.0000.0000.000
143A144MET00.0120.01241.399-0.049-0.0490.0000.0000.0000.000
144A145ASP-1-0.915-0.94736.456-7.974-7.9740.0000.0000.0000.000
145A146LYS10.8040.88236.1447.7617.7610.0000.0000.0000.000
146A147ALA00.0230.00435.8710.1780.1780.0000.0000.0000.000
147A148GLY00.011-0.01337.719-0.032-0.0320.0000.0000.0000.000
148A149ALA00.0140.01740.8250.1440.1440.0000.0000.0000.000
149A150TYR0-0.025-0.02739.1340.1020.1020.0000.0000.0000.000
150A151GLY00.004-0.00337.385-0.250-0.2500.0000.0000.0000.000
151A152ILE00.0000.00734.9480.1720.1720.0000.0000.0000.000
152A153GLN0-0.005-0.00832.042-0.036-0.0360.0000.0000.0000.000
153A154GLY00.0070.01137.3580.0430.0430.0000.0000.0000.000
154A155ARG10.8400.86840.0927.1677.1670.0000.0000.0000.000
155A156GLY00.0430.04241.7130.1090.1090.0000.0000.0000.000
156A157ALA0-0.032-0.01940.064-0.007-0.0070.0000.0000.0000.000
157A158LEU0-0.019-0.01541.6300.0360.0360.0000.0000.0000.000
158A159PHE00.0360.01944.4630.1160.1160.0000.0000.0000.000
159A160VAL0-0.048-0.01140.5900.0350.0350.0000.0000.0000.000
160A161LYS10.9090.97243.9486.4836.4830.0000.0000.0000.000
161A162LYS10.9080.94342.6667.6017.6010.0000.0000.0000.000
162A163ILE00.0160.00335.993-0.019-0.0190.0000.0000.0000.000
163A164ASP-1-0.962-0.97838.604-8.180-8.1800.0000.0000.0000.000
164A165GLY00.0570.03434.530-0.072-0.0720.0000.0000.0000.000
165A166ASP-1-0.875-0.94828.820-10.985-10.9850.0000.0000.0000.000
166A167TYR00.0520.01032.160-0.040-0.0400.0000.0000.0000.000
167A168TYR00.020-0.00927.5790.0460.0460.0000.0000.0000.000
168A169SER0-0.030-0.02728.782-0.265-0.2650.0000.0000.0000.000
169A170VAL00.0160.02329.811-0.002-0.0020.0000.0000.0000.000
170A171MET0-0.078-0.03628.9380.1720.1720.0000.0000.0000.000
171A172GLY0-0.0070.01228.424-0.006-0.0060.0000.0000.0000.000
172A173LEU0-0.023-0.01921.026-0.396-0.3960.0000.0000.0000.000
173A174PRO00.0600.04225.0840.0880.0880.0000.0000.0000.000
174A175ILE00.0440.03322.996-0.638-0.6380.0000.0000.0000.000
175A176SER00.0170.01222.496-0.761-0.7610.0000.0000.0000.000
176A177LYS10.8390.89822.55811.11111.1110.0000.0000.0000.000
177A178THR00.021-0.00218.771-0.670-0.6700.0000.0000.0000.000
178A179MET00.0070.01918.504-1.203-1.2030.0000.0000.0000.000
179A180ARG10.8930.93217.61812.94712.9470.0000.0000.0000.000
180A181ALA00.0390.03217.490-0.591-0.5910.0000.0000.0000.000
181A182LEU00.013-0.00913.489-1.116-1.1160.0000.0000.0000.000
182A183ARG10.8540.92812.74515.62515.6250.0000.0000.0000.000
183A184HIS0-0.050-0.01712.099-1.220-1.2200.0000.0000.0000.000
184A185PHE-1-0.943-0.9577.850-38.712-38.7120.0000.0000.0000.000