FMODB

FMODB: The database of quantum mechanical data based on the FMO method

Last updated: 2025-04-23

All entries: 37539

Number of unique PDB entries: 7791

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FMODB ID: 7655K

Calculation Name: 3L7N-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3L7N

Chain ID: A

ChEMBL ID:

UniProt ID: Q8DTU5

Base Structure: X-ray

Registration Date: 2023-09-23

Reference: C. Watanabe, N. Tani, K. Kamisaka, T. Honma et al., Interaction energy analysis of Apo structure dataset on FMODB, To be published.

DOI:

Apendix: None


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptAll
Protonation MOE:Protonate 3D
Complement MOE:Structure Preparation
Water No
Procedure Auto-FMO protocol ver. 2.20220422
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 234
LigandResidueName
LigandFragmentNumber 0
LigandCharge CYM=-1
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -3064028.918938
FMO2-HF: Nuclear repulsion 2970469.642881
FMO2-HF: Total energy -93559.276057
FMO2-MP2: Total energy -93828.208816


3D Structure
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.
-10.95-2.7193.128-5.045-6.316-0.029
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 : 0 / q_Mulliken : 0.016 / q_NPA : 0.013
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].
3A3ILE00.0290.0113.884-1.0020.804-0.012-0.856-0.9380.004
4A4HIS0-0.0020.0035.8910.7120.7120.0000.0000.0000.000
5A5PHE00.0300.0069.5150.0570.0570.0000.0000.0000.000
6A6ILE0-0.018-0.01212.3900.0780.0780.0000.0000.0000.000
7A7LEU00.004-0.00715.4530.0250.0250.0000.0000.0000.000
8A8HIS10.7850.84218.3700.3240.3240.0000.0000.0000.000
9A9GLU-1-0.762-0.87621.958-0.150-0.1500.0000.0000.0000.000
10A10THR0-0.091-0.04922.378-0.017-0.0170.0000.0000.0000.000
11A11PHE00.0570.02523.442-0.008-0.0080.0000.0000.0000.000
12A12GLU-1-0.862-0.92321.180-0.215-0.2150.0000.0000.0000.000
13A13ALA0-0.003-0.00118.978-0.038-0.0380.0000.0000.0000.000
14A14PRO00.001-0.02413.7230.0110.0110.0000.0000.0000.000
15A15GLY00.0460.02615.099-0.017-0.0170.0000.0000.0000.000
16A16ALA00.0240.00915.465-0.023-0.0230.0000.0000.0000.000
17A17TYR00.0600.02611.119-0.010-0.0100.0000.0000.0000.000
18A18LEU0-0.028-0.01010.554-0.110-0.1100.0000.0000.0000.000
19A19ALA0-0.006-0.00111.6750.0230.0230.0000.0000.0000.000
20A20TRP0-0.009-0.0265.663-0.029-0.0290.0000.0000.0000.000
21A21ALA00.005-0.0067.4880.0580.0580.0000.0000.0000.000
22A22ALA00.0030.0037.6190.1920.1920.0000.0000.0000.000
23A23LEU0-0.060-0.03110.1640.1610.1610.0000.0000.0000.000
24A24ARG10.7520.8436.453-0.048-0.0480.0000.0000.0000.000
25A25GLY0-0.041-0.0075.5290.2290.2290.0000.0000.0000.000
26A26HIS0-0.0110.0052.588-2.743-0.1122.382-2.118-2.896-0.019
27A27ASP-1-0.901-0.9483.786-1.343-0.6690.001-0.253-0.4230.001
28A28VAL0-0.021-0.0135.777-0.985-1.064-0.001-0.0070.0870.000
29A29SER0-0.0120.0088.5790.3680.3680.0000.0000.0000.000
30A30MET0-0.013-0.02611.204-0.021-0.0210.0000.0000.0000.000
31A31THR0-0.032-0.01914.1000.0630.0630.0000.0000.0000.000
32A32LYS10.8450.92017.2240.3170.3170.0000.0000.0000.000
33A33VAL00.0210.01319.9930.0320.0320.0000.0000.0000.000
34A34TYR00.0740.04020.9930.0250.0250.0000.0000.0000.000
35A35ARG10.7950.89722.7670.2160.2160.0000.0000.0000.000
36A36TYR0-0.011-0.00525.5550.0070.0070.0000.0000.0000.000
37A37GLU-1-0.767-0.85219.865-0.286-0.2860.0000.0000.0000.000
38A38LYS10.8500.90921.2840.1990.1990.0000.0000.0000.000
39A39LEU00.0780.04117.570-0.017-0.0170.0000.0000.0000.000
40A40PRO0-0.0060.02613.3520.0580.0580.0000.0000.0000.000
41A41LYS10.9430.96116.0460.2950.2950.0000.0000.0000.000
42A42ASP-1-0.872-0.92715.280-0.281-0.2810.0000.0000.0000.000
43A43ILE00.0160.00211.524-0.049-0.0490.0000.0000.0000.000
44A44ASP-1-0.859-0.9199.855-0.686-0.6860.0000.0000.0000.000
45A45ASP-1-0.909-0.9409.336-0.592-0.5920.0000.0000.0000.000
46A46PHE0-0.060-0.0306.388-0.053-0.0530.0000.0000.0000.000
47A47ASP-1-0.801-0.8862.453-7.097-4.1990.760-1.792-1.866-0.015
48A48MET0-0.043-0.0114.4430.5170.735-0.001-0.015-0.2020.000
49A49LEU0-0.035-0.0105.931-0.092-0.0920.0000.0000.0000.000
50A50ILE00.0140.0037.9870.1330.1330.0000.0000.0000.000
51A51LEU0-0.035-0.01311.3820.0210.0210.0000.0000.0000.000
52A52MET00.0290.03014.0870.0420.0420.0000.0000.0000.000
53A53GLY00.0960.04217.5750.0090.0090.0000.0000.0000.000
54A54GLY0-0.030-0.02321.334-0.022-0.0220.0000.0000.0000.000
55A55PRO0-0.0070.01824.2580.0080.0080.0000.0000.0000.000
56A56GLN0-0.036-0.01625.3960.0030.0030.0000.0000.0000.000
57A57SER00.1300.06427.105-0.008-0.0080.0000.0000.0000.000
58A58PRO0-0.008-0.00725.210-0.008-0.0080.0000.0000.0000.000
59A59SER0-0.029-0.01226.8590.0000.0000.0000.0000.0000.000
60A60SER0-0.026-0.00529.2460.0060.0060.0000.0000.0000.000
61A61THR0-0.035-0.02330.129-0.009-0.0090.0000.0000.0000.000
62A62LYS10.8640.91327.7960.1680.1680.0000.0000.0000.000
63A63LYS10.8840.93332.3060.0930.0930.0000.0000.0000.000
64A64GLU-1-0.804-0.86732.872-0.115-0.1150.0000.0000.0000.000
65A65PHE00.0800.03429.053-0.001-0.0010.0000.0000.0000.000
66A66PRO0-0.039-0.02529.921-0.010-0.0100.0000.0000.0000.000
67A67TYR0-0.092-0.04925.643-0.002-0.0020.0000.0000.0000.000
68A68TYR0-0.040-0.02523.445-0.024-0.0240.0000.0000.0000.000
69A69ASP-1-0.828-0.92824.306-0.176-0.1760.0000.0000.0000.000
70A70ALA00.1130.06923.645-0.020-0.0200.0000.0000.0000.000
71A71GLN00.0270.02123.759-0.008-0.0080.0000.0000.0000.000
72A72ALA0-0.031-0.01822.061-0.007-0.0070.0000.0000.0000.000
73A73GLU-1-0.783-0.88419.232-0.348-0.3480.0000.0000.0000.000
74A74VAL00.0010.01118.908-0.028-0.0280.0000.0000.0000.000
75A75LYS10.9000.93820.0470.1710.1710.0000.0000.0000.000
76A76LEU0-0.0110.00913.994-0.002-0.0020.0000.0000.0000.000
77A77ILE00.0430.01615.346-0.043-0.0430.0000.0000.0000.000
78A78GLN0-0.047-0.02915.969-0.003-0.0030.0000.0000.0000.000
79A79LYS10.7640.85716.0980.3370.3370.0000.0000.0000.000
80A80ALA00.0480.01911.7470.0100.0100.0000.0000.0000.000
81A81ALA00.0690.03312.8460.0030.0030.0000.0000.0000.000
82A82LYS10.7930.89714.8730.2970.2970.0000.0000.0000.000
83A83SER0-0.051-0.03612.7650.0380.0380.0000.0000.0000.000
84A84GLU-1-0.965-0.96811.618-0.139-0.1390.0000.0000.0000.000
85A85LYS10.8310.9298.0600.9180.9180.0000.0000.0000.000
86A86ILE00.0340.0315.1500.1460.1460.0000.0000.0000.000
87A87ILE0-0.039-0.0318.444-0.224-0.2240.0000.0000.0000.000
88A88VAL00.0290.01410.1430.1070.1070.0000.0000.0000.000
89A89GLY00.0140.01312.558-0.047-0.0470.0000.0000.0000.000
90A90VAL0-0.004-0.01415.4690.0340.0340.0000.0000.0000.000
91A91CYM-1-0.745-0.81718.147-0.186-0.1860.0000.0000.0000.000
92A92LEU00.0150.03321.944-0.003-0.0030.0000.0000.0000.000
93A93GLY00.0230.00318.268-0.001-0.0010.0000.0000.0000.000
94A94ALA0-0.023-0.01418.964-0.012-0.0120.0000.0000.0000.000
95A95GLN0-0.043-0.04519.9710.0130.0130.0000.0000.0000.000
96A96LEU0-0.029-0.00820.4790.0110.0110.0000.0000.0000.000
97A97MET0-0.030-0.00115.246-0.010-0.0100.0000.0000.0000.000
98A98GLY00.0250.01819.8540.0130.0130.0000.0000.0000.000
99A99VAL00.0010.00623.3130.0090.0090.0000.0000.0000.000
100A100ALA0-0.058-0.02320.0140.0090.0090.0000.0000.0000.000
101A101TYR0-0.0050.00016.738-0.004-0.0040.0000.0000.0000.000
102A102GLY0-0.050-0.01722.5520.0170.0170.0000.0000.0000.000
103A103ALA0-0.042-0.02726.1390.0130.0130.0000.0000.0000.000
104A104ASP-1-0.859-0.93126.859-0.144-0.1440.0000.0000.0000.000
105A105TYR0-0.046-0.03027.3570.0030.0030.0000.0000.0000.000
106A106LEU0-0.039-0.02028.9000.0100.0100.0000.0000.0000.000
107A107HIS0-0.013-0.02030.858-0.001-0.0010.0000.0000.0000.000
108A108SER0-0.022-0.02630.7490.0010.0010.0000.0000.0000.000
109A109PRO0-0.057-0.04132.5240.0030.0030.0000.0000.0000.000
110A110LYS10.8280.90934.3830.0660.0660.0000.0000.0000.000
111A111LYS10.8200.91932.6400.0840.0840.0000.0000.0000.000
112A112GLU-1-0.759-0.83929.964-0.088-0.0880.0000.0000.0000.000
113A113ILE0-0.016-0.00729.930-0.010-0.0100.0000.0000.0000.000
114A114GLY00.0710.02929.5270.0080.0080.0000.0000.0000.000
115A115ASN0-0.064-0.05227.584-0.014-0.0140.0000.0000.0000.000
116A116TYR00.0520.01428.7170.0090.0090.0000.0000.0000.000
117A117LEU0-0.029-0.01028.319-0.005-0.0050.0000.0000.0000.000
118A118ILE0-0.047-0.01622.897-0.004-0.0040.0000.0000.0000.000
119A119SER00.012-0.03127.3950.0050.0050.0000.0000.0000.000
120A120LEU0-0.043-0.01822.999-0.007-0.0070.0000.0000.0000.000
121A121THR0-0.031-0.03326.3830.0070.0070.0000.0000.0000.000
122A122GLU-1-0.879-0.96226.862-0.031-0.0310.0000.0000.0000.000
123A123ALA0-0.022-0.01024.6380.0040.0040.0000.0000.0000.000
124A124GLY00.020-0.00122.4560.0000.0000.0000.0000.0000.000
125A125LYS10.7940.89622.7740.0350.0350.0000.0000.0000.000
126A126MET0-0.034-0.00624.2590.0100.0100.0000.0000.0000.000
127A127ASP-1-0.760-0.83917.609-0.061-0.0610.0000.0000.0000.000
128A128SER00.0110.00317.2110.0000.0000.0000.0000.0000.000
129A129TYR0-0.0060.00312.6200.0110.0110.0000.0000.0000.000
130A130LEU00.0330.01215.790-0.018-0.0180.0000.0000.0000.000
131A131SER0-0.045-0.03818.7290.0020.0020.0000.0000.0000.000
132A132ASP-1-0.845-0.88117.7670.0200.0200.0000.0000.0000.000
133A133PHE0-0.048-0.02217.444-0.009-0.0090.0000.0000.0000.000
134A134SER0-0.029-0.03622.4450.0060.0060.0000.0000.0000.000
135A135ASP-1-0.820-0.91025.967-0.035-0.0350.0000.0000.0000.000
136A136ASP-1-0.875-0.89728.314-0.051-0.0510.0000.0000.0000.000
137A137LEU0-0.0020.00722.2760.0050.0050.0000.0000.0000.000
138A138LEU0-0.039-0.00626.786-0.006-0.0060.0000.0000.0000.000
139A139VAL00.007-0.01322.679-0.003-0.0030.0000.0000.0000.000
140A140GLY00.0790.03923.8790.0070.0070.0000.0000.0000.000
141A141HIS0-0.082-0.03424.612-0.018-0.0180.0000.0000.0000.000
142A142TRP00.048-0.01926.5310.0050.0050.0000.0000.0000.000
143A143HIS10.8000.88626.4300.1130.1130.0000.0000.0000.000
144A144GLY00.0440.01328.4500.0100.0100.0000.0000.0000.000
145A145ASP-1-0.813-0.88728.751-0.113-0.1130.0000.0000.0000.000
146A146MET0-0.044-0.00526.913-0.002-0.0020.0000.0000.0000.000
147A147PRO00.0280.02023.3380.0020.0020.0000.0000.0000.000
148A148GLY00.0470.03825.5570.0140.0140.0000.0000.0000.000
149A149LEU0-0.050-0.04225.166-0.009-0.0090.0000.0000.0000.000
150A150PRO0-0.0200.00324.6330.0090.0090.0000.0000.0000.000
151A151ASP-1-0.883-0.96126.677-0.086-0.0860.0000.0000.0000.000
152A152LYS10.8260.91223.8680.1340.1340.0000.0000.0000.000
153A153ALA0-0.0330.00522.791-0.001-0.0010.0000.0000.0000.000
154A154GLN0-0.005-0.00722.5200.0140.0140.0000.0000.0000.000
155A155VAL00.0290.01022.745-0.011-0.0110.0000.0000.0000.000
156A156LEU0-0.0220.00119.2030.0110.0110.0000.0000.0000.000
157A157ALA00.0310.02023.4010.0090.0090.0000.0000.0000.000
158A158ILE0-0.037-0.00525.200-0.009-0.0090.0000.0000.0000.000
159A159SER00.048-0.01828.138-0.001-0.0010.0000.0000.0000.000
160A160GLN00.002-0.00230.3000.0000.0000.0000.0000.0000.000
161A161GLY00.0330.03132.4930.0040.0040.0000.0000.0000.000
162A162CYS0-0.049-0.00228.730-0.006-0.0060.0000.0000.0000.000
163A163PRO00.0090.00429.580-0.001-0.0010.0000.0000.0000.000
164A164ARG10.8730.90326.1980.1080.1080.0000.0000.0000.000
165A165GLN00.0180.00424.728-0.023-0.0230.0000.0000.0000.000
166A166ILE00.0230.02218.983-0.015-0.0150.0000.0000.0000.000
167A167ILE0-0.036-0.01420.1870.0190.0190.0000.0000.0000.000
168A168LYS10.8250.93316.2460.0530.0530.0000.0000.0000.000
169A169PHE00.029-0.01217.8380.0180.0180.0000.0000.0000.000
170A170GLY0-0.005-0.00216.7330.0060.0060.0000.0000.0000.000
171A171PRO0-0.019-0.00914.564-0.002-0.0020.0000.0000.0000.000
172A172LYS10.8890.9278.884-0.286-0.2860.0000.0000.0000.000
173A173GLN0-0.012-0.00711.159-0.043-0.0430.0000.0000.0000.000
174A174TYR0-0.019-0.05313.3190.0550.0550.0000.0000.0000.000
175A175ALA00.000-0.00815.222-0.051-0.0510.0000.0000.0000.000
176A176PHE00.0120.01714.8790.0280.0280.0000.0000.0000.000
177A177GLN0-0.024-0.04419.376-0.016-0.0160.0000.0000.0000.000
178A178CYS0-0.0210.02122.0040.0030.0030.0000.0000.0000.000
179A179HIS10.7620.83520.3310.1780.1780.0000.0000.0000.000
180A180LEU00.0270.00318.1680.0190.0190.0000.0000.0000.000
181A181GLU-1-0.850-0.92716.520-0.219-0.2190.0000.0000.0000.000
182A182PHE00.0270.00818.2100.0000.0000.0000.0000.0000.000
183A183THR00.021-0.00820.6690.0010.0010.0000.0000.0000.000
184A184PRO00.0680.02723.466-0.004-0.0040.0000.0000.0000.000
185A185GLU-1-0.853-0.90224.458-0.092-0.0920.0000.0000.0000.000
186A186LEU0-0.043-0.02419.854-0.005-0.0050.0000.0000.0000.000
187A187VAL00.0280.01824.572-0.001-0.0010.0000.0000.0000.000
188A188ALA00.0200.01927.4560.0040.0040.0000.0000.0000.000
189A189ALA0-0.061-0.03526.4210.0030.0030.0000.0000.0000.000
190A190LEU0-0.0040.00624.912-0.001-0.0010.0000.0000.0000.000
191A191ILE0-0.005-0.00828.9490.0050.0050.0000.0000.0000.000
192A192ALA0-0.091-0.03431.6410.0050.0050.0000.0000.0000.000
193A193GLN0-0.071-0.03930.021-0.003-0.0030.0000.0000.0000.000
194A194GLU-1-0.795-0.87832.599-0.099-0.0990.0000.0000.0000.000
195A195ASP-1-0.925-0.96534.026-0.075-0.0750.0000.0000.0000.000
196A196ASP-1-0.880-0.93437.606-0.058-0.0580.0000.0000.0000.000
197A197LEU00.0320.01534.2210.0000.0000.0000.0000.0000.000
198A198ASP-1-0.935-0.95237.645-0.049-0.0490.0000.0000.0000.000
199A199THR00.006-0.03440.9080.0010.0010.0000.0000.0000.000
200A200GLN0-0.060-0.02536.4480.0000.0000.0000.0000.0000.000
201A201SER0-0.044-0.02138.6740.0010.0010.0000.0000.0000.000
202A202GLN0-0.068-0.03539.8610.0030.0030.0000.0000.0000.000
203A203THR0-0.091-0.04942.2440.0020.0020.0000.0000.0000.000
204A204GLU-1-0.812-0.87537.285-0.066-0.0660.0000.0000.0000.000
205A205THR0-0.071-0.04238.3950.0010.0010.0000.0000.0000.000
206A206TYR0-0.073-0.04833.8150.0030.0030.0000.0000.0000.000
207A207VAL00.0590.03234.003-0.007-0.0070.0000.0000.0000.000
208A208GLN00.0080.02732.5310.0010.0010.0000.0000.0000.000
209A209THR00.037-0.02035.712-0.003-0.0030.0000.0000.0000.000
210A210ALA00.022-0.00934.775-0.003-0.0030.0000.0000.0000.000
211A211GLU-1-0.934-0.96334.560-0.044-0.0440.0000.0000.0000.000
212A212GLU-1-0.816-0.86634.882-0.054-0.0540.0000.0000.0000.000
213A213MET0-0.0280.00830.616-0.004-0.0040.0000.0000.0000.000
214A214GLN0-0.055-0.01629.960-0.005-0.0050.0000.0000.0000.000
215A215THR0-0.062-0.05331.6290.0020.0020.0000.0000.0000.000
216A216PHE0-0.027-0.00127.0540.0050.0050.0000.0000.0000.000
217A217ASP-1-0.816-0.88226.665-0.051-0.0510.0000.0000.0000.000
218A218TYR0-0.007-0.03623.137-0.003-0.0030.0000.0000.0000.000
219A219SER0-0.043-0.04622.528-0.008-0.0080.0000.0000.0000.000
220A220SER00.002-0.00421.6200.0000.0000.0000.0000.0000.000
221A221MET0-0.0300.02021.505-0.005-0.0050.0000.0000.0000.000
222A222ASN0-0.046-0.03418.194-0.006-0.0060.0000.0000.0000.000
223A223GLN00.0110.00716.677-0.010-0.0100.0000.0000.0000.000
224A224ALA00.0260.01717.4510.0060.0060.0000.0000.0000.000
225A225LEU00.0250.01813.8090.0010.0010.0000.0000.0000.000
226A226TYR0-0.065-0.04012.939-0.029-0.0290.0000.0000.0000.000
227A227SER0-0.041-0.01812.6100.0100.0100.0000.0000.0000.000
228A228PHE00.0410.01712.4240.0160.0160.0000.0000.0000.000
229A229LEU0-0.017-0.0088.999-0.006-0.0060.0000.0000.0000.000
230A230ASP-1-0.764-0.8308.5530.0700.0700.0000.0000.0000.000
231A231ARG10.8440.9069.3970.0600.0600.0000.0000.0000.000
232A232LEU0-0.0330.0078.6810.0560.0560.0000.0000.0000.000
233A233THR0-0.073-0.0534.610-0.0480.035-0.001-0.004-0.0780.000
234A234GLU-1-1.037-1.0176.7970.6000.6000.0000.0000.0000.000