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: 9RL22

Calculation Name: 2FNC-A-Xray547

Preferred Name:

Target Type:

Ligand Name: alpha-d-glucopyranose

Ligand 3-letter code: GLC

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 2FNC

Chain ID: A

ChEMBL ID:

UniProt ID: Q9S5Y1

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 379
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -6244368.43161
FMO2-HF: Nuclear repulsion 6098677.425318
FMO2-HF: Total energy -145691.006292
FMO2-MP2: Total energy -146115.691826


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:6:LYS)


Summations of interaction energy for fragment #1(A:6:LYS)
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.
-426.694-417.23227.797-19.507-17.753-0.217
Interaction energy analysis for fragmet #1(A:6:LYS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 2 / q_Mulliken : 1.629 / q_NPA : 1.793
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].
3A8THR0-0.008-0.0292.342-3.603-0.4711.004-1.552-2.584-0.013
4A9ILE00.003-0.0054.7528.5048.579-0.001-0.014-0.0600.000
27A32ILE0-0.042-0.0203.235-7.617-7.1710.035-0.130-0.351-0.001
28A33PRO0-0.041-0.0232.3341.3642.7601.244-0.861-1.779-0.001
29A34VAL00.0370.0192.310-27.458-24.2423.418-3.368-3.266-0.040
30A35GLU-1-0.844-0.8951.673-190.892-190.11122.098-13.426-9.453-0.161
31A36VAL00.004-0.0044.5410.0650.128-0.001-0.016-0.0470.000
271A276ASN0-0.064-0.0503.574-3.592-3.2390.000-0.140-0.213-0.001
5A10TRP00.0240.0067.7731.0751.0750.0000.0000.0000.000
6A11CYS0-0.024-0.01010.6561.2851.2850.0000.0000.0000.000
7A12SER00.0360.01813.828-0.068-0.0680.0000.0000.0000.000
8A13GLU-1-0.806-0.93816.097-31.213-31.2130.0000.0000.0000.000
9A14LYS10.8430.93917.57625.36025.3600.0000.0000.0000.000
10A15GLN00.0670.03115.540-0.792-0.7920.0000.0000.0000.000
11A16VAL00.0110.00311.759-1.560-1.5600.0000.0000.0000.000
12A17ASP-1-0.876-0.93413.150-36.461-36.4610.0000.0000.0000.000
13A18ILE0-0.079-0.03715.286-0.273-0.2730.0000.0000.0000.000
14A19LEU00.0330.00411.378-1.122-1.1220.0000.0000.0000.000
15A20GLN00.003-0.0076.505-4.842-4.8420.0000.0000.0000.000
16A21LYS10.9290.96710.39531.69431.6940.0000.0000.0000.000
17A22LEU00.0070.00312.787-0.019-0.0190.0000.0000.0000.000
18A23GLY00.0470.0168.443-0.872-0.8720.0000.0000.0000.000
19A24GLU-1-0.848-0.9308.278-63.923-63.9230.0000.0000.0000.000
20A25GLU-1-0.856-0.91410.088-32.641-32.6410.0000.0000.0000.000
21A26PHE0-0.0080.0006.7500.7290.7290.0000.0000.0000.000
22A27LYS10.9000.9556.29266.07366.0730.0000.0000.0000.000
23A28ALA0-0.040-0.0218.5221.2741.2740.0000.0000.0000.000
24A29LYS10.8650.93311.75236.05836.0580.0000.0000.0000.000
25A30TYR0-0.054-0.0449.1491.8391.8390.0000.0000.0000.000
26A31GLY00.0060.0168.935-1.621-1.6210.0000.0000.0000.000
32A37GLN0-0.066-0.0286.902-1.265-1.2650.0000.0000.0000.000
33A38TYR00.0320.0108.6492.2982.2980.0000.0000.0000.000
34A39VAL0-0.048-0.02411.720-1.330-1.3300.0000.0000.0000.000
35A40ASP-1-0.779-0.88714.347-27.679-27.6790.0000.0000.0000.000
36A41PHE00.0300.00318.172-0.668-0.6680.0000.0000.0000.000
37A42GLY00.0110.01419.8020.0580.0580.0000.0000.0000.000
38A43SER0-0.051-0.03717.9350.5400.5400.0000.0000.0000.000
39A44ILE0-0.049-0.00814.571-1.414-1.4140.0000.0000.0000.000
40A45LYS10.9120.95016.42424.40924.4090.0000.0000.0000.000
41A46SER00.0430.02418.977-0.697-0.6970.0000.0000.0000.000
42A47LYS10.9610.99311.32043.80343.8030.0000.0000.0000.000
43A48PHE0-0.023-0.01612.676-1.323-1.3230.0000.0000.0000.000
44A49LEU0-0.029-0.01815.531-0.489-0.4890.0000.0000.0000.000
45A50THR0-0.018-0.00717.5770.0380.0380.0000.0000.0000.000
46A51ALA0-0.0070.00812.447-0.061-0.0610.0000.0000.0000.000
47A52ALA0-0.006-0.00513.772-1.959-1.9590.0000.0000.0000.000
48A53PRO0-0.003-0.00314.804-1.305-1.3050.0000.0000.0000.000
49A54GLN0-0.044-0.02214.7990.2090.2090.0000.0000.0000.000
50A55GLY0-0.0050.00212.589-1.282-1.2820.0000.0000.0000.000
51A56GLN0-0.058-0.0309.671-7.286-7.2860.0000.0000.0000.000
52A57GLY0-0.017-0.0059.795-0.846-0.8460.0000.0000.0000.000
53A58ALA00.0040.0087.353-3.265-3.2650.0000.0000.0000.000
54A59ASP-1-0.742-0.8265.692-84.854-84.8540.0000.0000.0000.000
55A60ILE0-0.032-0.0138.8605.6715.6710.0000.0000.0000.000
56A61ILE00.0040.01410.534-2.568-2.5680.0000.0000.0000.000
57A62VAL0-0.013-0.02013.0541.2561.2560.0000.0000.0000.000
58A63GLY00.0090.00415.652-0.022-0.0220.0000.0000.0000.000
59A64ALA00.0390.02719.1520.3430.3430.0000.0000.0000.000
60A65HIS0-0.021-0.01822.376-1.194-1.1940.0000.0000.0000.000
61A66ASP-1-0.844-0.93024.419-23.812-23.8120.0000.0000.0000.000
62A67TRP00.019-0.01117.626-0.693-0.6930.0000.0000.0000.000
63A68VAL00.0110.01122.238-0.470-0.4700.0000.0000.0000.000
64A69GLY00.0520.01823.751-0.478-0.4780.0000.0000.0000.000
65A70GLU-1-0.758-0.85324.445-25.003-25.0030.0000.0000.0000.000
66A71LEU00.0020.00018.474-0.430-0.4300.0000.0000.0000.000
67A72ALA0-0.0100.01221.823-0.900-0.9000.0000.0000.0000.000
68A73VAL0-0.044-0.03023.7670.0660.0660.0000.0000.0000.000
69A74ASN0-0.051-0.03223.0740.7690.7690.0000.0000.0000.000
70A75GLY0-0.0200.00321.668-0.730-0.7300.0000.0000.0000.000
71A76LEU0-0.033-0.03218.085-1.530-1.5300.0000.0000.0000.000
72A77ILE0-0.026-0.00516.735-2.599-2.5990.0000.0000.0000.000
73A78GLU-1-0.837-0.92815.701-32.962-32.9620.0000.0000.0000.000
74A79PRO0-0.052-0.02417.8070.3040.3040.0000.0000.0000.000
75A80ILE0-0.007-0.00517.099-1.537-1.5370.0000.0000.0000.000
76A81PRO0-0.006-0.01218.5561.6451.6450.0000.0000.0000.000
77A82ASN00.009-0.00321.417-0.182-0.1820.0000.0000.0000.000
78A83PHE00.0600.02920.424-0.216-0.2160.0000.0000.0000.000
79A84SER00.001-0.01722.4710.7360.7360.0000.0000.0000.000
80A85ASP-1-0.797-0.89622.679-23.952-23.9520.0000.0000.0000.000
81A86LEU0-0.0140.02023.8280.3470.3470.0000.0000.0000.000
82A87LYS10.9550.96425.30520.96120.9610.0000.0000.0000.000
83A88ASN0-0.066-0.03626.6421.4061.4060.0000.0000.0000.000
84A89PHE0-0.023-0.01021.843-0.077-0.0770.0000.0000.0000.000
85A90TYR00.0240.01827.6590.9220.9220.0000.0000.0000.000
86A91ASP-1-0.816-0.90829.414-19.344-19.3440.0000.0000.0000.000
87A92THR00.011-0.00231.201-0.280-0.2800.0000.0000.0000.000
88A93ALA00.0480.02026.400-0.250-0.2500.0000.0000.0000.000
89A94LEU0-0.010-0.01225.314-0.900-0.9000.0000.0000.0000.000
90A95LYS10.8690.93127.20417.77517.7750.0000.0000.0000.000
91A96ALA00.0390.03827.389-0.061-0.0610.0000.0000.0000.000
92A97PHE00.0200.01020.621-0.431-0.4310.0000.0000.0000.000
93A98SER0-0.049-0.04124.401-0.912-0.9120.0000.0000.0000.000
94A99TYR00.0390.02326.6500.6610.6610.0000.0000.0000.000
95A100GLY00.0190.01127.924-0.351-0.3510.0000.0000.0000.000
96A101GLY0-0.031-0.01530.0100.0550.0550.0000.0000.0000.000
97A102LYS10.8990.95124.87422.40322.4030.0000.0000.0000.000
98A103LEU00.0290.03722.5720.1840.1840.0000.0000.0000.000
99A104TYR00.013-0.01520.9100.0360.0360.0000.0000.0000.000
100A105GLY00.0420.01118.912-1.623-1.6230.0000.0000.0000.000
101A106VAL0-0.031-0.00418.0401.5051.5050.0000.0000.0000.000
102A107PRO00.0010.00719.331-1.145-1.1450.0000.0000.0000.000
103A108TYR0-0.026-0.05918.941-0.501-0.5010.0000.0000.0000.000
104A109ALA0-0.019-0.01121.5910.8530.8530.0000.0000.0000.000
105A110MET0-0.029-0.00424.711-0.198-0.1980.0000.0000.0000.000
106A111GLU-1-0.794-0.88925.541-24.436-24.4360.0000.0000.0000.000
107A112ALA00.0440.02029.1110.1840.1840.0000.0000.0000.000
108A113VAL00.0060.01432.085-0.230-0.2300.0000.0000.0000.000
109A114ALA0-0.0100.00933.7680.3920.3920.0000.0000.0000.000
110A115LEU00.0060.01636.616-0.191-0.1910.0000.0000.0000.000
111A116ILE0-0.056-0.03133.554-0.042-0.0420.0000.0000.0000.000
112A117TYR00.0350.01038.1030.1740.1740.0000.0000.0000.000
113A118ASN00.0290.00640.014-0.184-0.1840.0000.0000.0000.000
114A119LYS10.8600.91441.29715.38715.3870.0000.0000.0000.000
115A120ASP-1-0.917-0.94442.790-14.278-14.2780.0000.0000.0000.000
116A121TYR0-0.023-0.00542.6750.3090.3090.0000.0000.0000.000
117A122VAL0-0.053-0.02944.7900.1710.1710.0000.0000.0000.000
118A123ASP-1-0.893-0.93746.694-12.696-12.6960.0000.0000.0000.000
119A124SER0-0.076-0.05248.7710.0750.0750.0000.0000.0000.000
120A125VAL0-0.016-0.00444.774-0.092-0.0920.0000.0000.0000.000
121A126PRO0-0.0020.00745.9920.2720.2720.0000.0000.0000.000
122A127LYS10.9040.94247.95011.69111.6910.0000.0000.0000.000
123A128THR00.0030.00149.544-0.104-0.1040.0000.0000.0000.000
124A129MET00.0390.01044.202-0.191-0.1910.0000.0000.0000.000
125A130ASP-1-0.822-0.88648.397-12.044-12.0440.0000.0000.0000.000
126A131GLU-1-0.832-0.91251.093-12.016-12.0160.0000.0000.0000.000
127A132LEU0-0.040-0.02543.491-0.034-0.0340.0000.0000.0000.000
128A133ILE00.0160.00748.076-0.111-0.1110.0000.0000.0000.000
129A134GLU-1-0.988-0.99549.460-11.357-11.3570.0000.0000.0000.000
130A135LYS10.9030.95148.29112.81012.8100.0000.0000.0000.000
131A136ALA0-0.043-0.02046.704-0.073-0.0730.0000.0000.0000.000
132A137LYS10.9200.94348.20111.90311.9030.0000.0000.0000.000
133A138GLN0-0.019-0.00751.254-0.013-0.0130.0000.0000.0000.000
134A139ILE00.0070.00946.3870.0470.0470.0000.0000.0000.000
135A140ASP-1-0.838-0.92546.486-13.597-13.5970.0000.0000.0000.000
136A141GLU-1-1.022-0.99449.051-11.119-11.1190.0000.0000.0000.000
137A142GLU-1-0.950-0.97252.093-11.832-11.8320.0000.0000.0000.000
138A143TYR0-0.086-0.06647.881-0.036-0.0360.0000.0000.0000.000
139A144GLY0-0.0270.00148.593-0.219-0.2190.0000.0000.0000.000
140A145GLY00.0120.00847.3730.1000.1000.0000.0000.0000.000
141A146GLU-1-1.000-1.00444.482-13.386-13.3860.0000.0000.0000.000
142A147VAL0-0.037-0.01343.076-0.422-0.4220.0000.0000.0000.000
143A148ARG10.7880.88241.15814.98614.9860.0000.0000.0000.000
144A149GLY00.0340.00343.251-0.199-0.1990.0000.0000.0000.000
145A150PHE0-0.065-0.05840.691-0.210-0.2100.0000.0000.0000.000
146A151ILE00.0260.01837.5100.0080.0080.0000.0000.0000.000
147A152TYR00.000-0.04336.019-0.225-0.2250.0000.0000.0000.000
148A153ASP-1-0.801-0.90231.345-19.383-19.3830.0000.0000.0000.000
149A154VAL00.0350.01734.634-0.193-0.1930.0000.0000.0000.000
150A155ALA00.0350.02235.3620.1820.1820.0000.0000.0000.000
151A156ASN0-0.043-0.01929.577-0.090-0.0900.0000.0000.0000.000
152A157PHE00.0670.01033.7070.2290.2290.0000.0000.0000.000
153A158TYR0-0.036-0.02129.9880.2750.2750.0000.0000.0000.000
154A159PHE0-0.007-0.01629.3070.0700.0700.0000.0000.0000.000
155A160SER00.0390.02934.5850.5280.5280.0000.0000.0000.000
156A161ALA0-0.0020.00335.9810.5050.5050.0000.0000.0000.000
157A162PRO0-0.017-0.00336.8400.3410.3410.0000.0000.0000.000
158A163PHE00.0560.01839.7160.3670.3670.0000.0000.0000.000
159A164ILE0-0.038-0.00139.3780.3240.3240.0000.0000.0000.000
160A165LEU0-0.012-0.01637.2690.2680.2680.0000.0000.0000.000
161A166GLY0-0.0030.00941.9180.1790.1790.0000.0000.0000.000
162A167TYR0-0.023-0.03544.2130.2400.2400.0000.0000.0000.000
163A168GLY0-0.0070.00445.4990.2980.2980.0000.0000.0000.000
164A169GLY0-0.0050.02343.2790.0710.0710.0000.0000.0000.000
165A170TYR0-0.106-0.08740.625-0.110-0.1100.0000.0000.0000.000
166A171VAL00.0120.00034.9710.0800.0800.0000.0000.0000.000
167A172PHE00.016-0.00233.7440.0850.0850.0000.0000.0000.000
168A173LYS10.9090.97639.08613.55413.5540.0000.0000.0000.000
169A174GLU-1-0.926-0.95939.370-16.043-16.0430.0000.0000.0000.000
170A175THR0-0.032-0.02841.5450.5520.5520.0000.0000.0000.000
171A176PRO0-0.027-0.02842.034-0.313-0.3130.0000.0000.0000.000
172A177GLN0-0.016-0.00741.788-0.105-0.1050.0000.0000.0000.000
173A178GLY0-0.0010.01538.216-0.423-0.4230.0000.0000.0000.000
174A179LEU0-0.021-0.00834.6090.3400.3400.0000.0000.0000.000
175A180ASP-1-0.808-0.88338.479-15.001-15.0010.0000.0000.0000.000
176A181VAL0-0.018-0.02235.7650.0310.0310.0000.0000.0000.000
177A182THR0-0.069-0.05138.9590.0960.0960.0000.0000.0000.000
178A183ASP-1-0.853-0.91242.391-13.577-13.5770.0000.0000.0000.000
179A184ILE00.010-0.00439.367-0.260-0.2600.0000.0000.0000.000
180A185GLY00.0130.00742.2790.3180.3180.0000.0000.0000.000
181A186LEU0-0.050-0.03737.6050.1610.1610.0000.0000.0000.000
182A187ALA00.0400.01542.221-0.008-0.0080.0000.0000.0000.000
183A188ASN0-0.061-0.02245.5710.3330.3330.0000.0000.0000.000
184A189GLU-1-0.869-0.94947.954-12.090-12.0900.0000.0000.0000.000
185A190GLY00.0100.01147.6400.0710.0710.0000.0000.0000.000
186A191ALA00.011-0.00343.731-0.127-0.1270.0000.0000.0000.000
187A192VAL00.004-0.00145.186-0.117-0.1170.0000.0000.0000.000
188A193LYS10.8240.91547.85512.14012.1400.0000.0000.0000.000
189A194GLY00.0210.01245.0640.0530.0530.0000.0000.0000.000
190A195ALA00.019-0.00243.734-0.100-0.1000.0000.0000.0000.000
191A196LYS10.8160.89545.03212.15412.1540.0000.0000.0000.000
192A197LEU0-0.0080.00946.6230.1540.1540.0000.0000.0000.000
193A198ILE00.005-0.00441.0000.0140.0140.0000.0000.0000.000
194A199LYS10.8680.91644.75112.55912.5590.0000.0000.0000.000
195A200ARG10.7800.87647.04612.24512.2450.0000.0000.0000.000
196A201MET00.0080.00143.3480.1190.1190.0000.0000.0000.000
197A202ILE0-0.0360.00042.705-0.073-0.0730.0000.0000.0000.000
198A203ASP-1-0.869-0.92746.836-12.348-12.3480.0000.0000.0000.000
199A204GLU-1-0.871-0.92750.372-11.748-11.7480.0000.0000.0000.000
200A205GLY0-0.012-0.00448.4700.0920.0920.0000.0000.0000.000
201A206VAL0-0.0040.01245.645-0.160-0.1600.0000.0000.0000.000
202A207LEU0-0.064-0.03040.975-0.420-0.4200.0000.0000.0000.000
203A208THR00.011-0.02841.1110.2800.2800.0000.0000.0000.000
204A209PRO00.016-0.01141.176-0.352-0.3520.0000.0000.0000.000
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206A211ASP-1-0.764-0.82236.894-15.829-15.8290.0000.0000.0000.000
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