Manual

About

FMODB

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

Last updated: 2024-04-05

All entries: 36946

Number of unique PDB entries: 7781

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FMODB ID: 7M64K

Calculation Name: 2FQ4-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2FQ4

Chain ID: A

ChEMBL ID:

UniProt ID: Q81BJ4

Base Structure: X-ray

Registration Date: 2023-09-27

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

DOI:


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 184
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -1898519.618118
FMO2-HF: Nuclear repulsion 1827614.20295
FMO2-HF: Total energy -70905.415169
FMO2-MP2: Total energy -71118.145976


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:9:ARG)


Summations of interaction energy for fragment #1(A:9:ARG)
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.
27.00630.7460.569-1.493-2.8130.01
Interaction energy analysis for fragmet #1(A:9:ARG)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 1.010 / q_NPA : 0.985
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].
3A11ILE00.0990.0383.8665.3116.996-0.011-0.657-1.0170.001
4A12GLU-1-0.766-0.8555.172-22.649-22.488-0.001-0.006-0.1530.000
5A13THR0-0.002-0.0116.5093.6093.6090.0000.0000.0000.000
6A14GLN0-0.057-0.0213.762-1.278-0.9000.001-0.108-0.271-0.001
7A15LYS10.8880.9206.62826.06626.0660.0000.0000.0000.000
8A16ALA00.0070.0229.6061.8991.8990.0000.0000.0000.000
9A17ILE0-0.005-0.0128.6941.4571.4570.0000.0000.0000.000
10A18LEU0-0.0160.0028.8421.0941.0940.0000.0000.0000.000
11A19SER0-0.013-0.00412.2261.2081.2080.0000.0000.0000.000
12A20ALA00.0550.02914.8490.9400.9400.0000.0000.0000.000
13A21SER0-0.084-0.05914.9960.9110.9110.0000.0000.0000.000
14A22TYR00.0330.01716.8660.7500.7500.0000.0000.0000.000
15A23GLU-1-0.829-0.91718.001-13.796-13.7960.0000.0000.0000.000
16A24LEU00.0110.00119.1850.6090.6090.0000.0000.0000.000
17A25LEU0-0.040-0.01121.0950.5090.5090.0000.0000.0000.000
18A26LEU00.002-0.00122.6940.4900.4900.0000.0000.0000.000
19A27GLU-1-0.834-0.87123.951-11.097-11.0970.0000.0000.0000.000
20A28SER0-0.107-0.05925.1410.3440.3440.0000.0000.0000.000
21A29GLY00.0700.04826.3740.2920.2920.0000.0000.0000.000
22A30PHE00.030-0.00121.328-0.210-0.2100.0000.0000.0000.000
23A31LYS10.8540.92824.7238.8558.8550.0000.0000.0000.000
24A32ALA00.0160.02426.817-0.057-0.0570.0000.0000.0000.000
25A33VAL00.0450.04620.136-0.191-0.1910.0000.0000.0000.000
26A34THR00.006-0.00721.8760.0890.0890.0000.0000.0000.000
27A35VAL00.0420.00616.074-0.278-0.2780.0000.0000.0000.000
28A36ASP-1-0.844-0.90317.805-12.783-12.7830.0000.0000.0000.000
29A37LYS10.9660.98419.94910.23410.2340.0000.0000.0000.000
30A38ILE00.0140.01214.692-0.241-0.2410.0000.0000.0000.000
31A39ALA0-0.048-0.02815.476-0.703-0.7030.0000.0000.0000.000
32A40GLU-1-0.932-0.96316.538-12.341-12.3410.0000.0000.0000.000
33A41ARG10.7330.81918.28912.23712.2370.0000.0000.0000.000
34A42ALA0-0.006-0.01213.179-0.231-0.2310.0000.0000.0000.000
35A43LYS10.8670.95414.54014.18314.1830.0000.0000.0000.000
36A44VAL0-0.0170.00111.338-1.055-1.0550.0000.0000.0000.000
37A45SER00.0500.03113.3800.8290.8290.0000.0000.0000.000
38A46LYS10.9110.91513.58411.88311.8830.0000.0000.0000.000
39A47ALA00.0030.00313.284-0.328-0.3280.0000.0000.0000.000
40A48THR0-0.021-0.0198.432-1.393-1.3930.0000.0000.0000.000
41A49ILE00.0270.0189.270-1.210-1.2100.0000.0000.0000.000
42A50TYR00.007-0.01310.735-0.229-0.2290.0000.0000.0000.000
43A51LYS10.8690.9604.88928.30028.3000.0000.0000.0000.000
44A52TRP0-0.042-0.0212.953-3.226-1.7100.580-0.722-1.3720.010
45A53TRP0-0.015-0.0217.8710.1080.1080.0000.0000.0000.000
46A54PRO00.0170.00312.1430.4820.4820.0000.0000.0000.000
47A55ASN0-0.046-0.02415.1620.9040.9040.0000.0000.0000.000
48A56LYS10.8520.90216.50310.40610.4060.0000.0000.0000.000
49A57ALA00.0330.03018.001-0.144-0.1440.0000.0000.0000.000
50A58ALA0-0.0200.00614.266-0.209-0.2090.0000.0000.0000.000
51A59VAL00.000-0.00212.159-0.328-0.3280.0000.0000.0000.000
52A60VAL00.0180.01014.047-0.239-0.2390.0000.0000.0000.000
53A61MET0-0.0150.01017.1100.3170.3170.0000.0000.0000.000
54A62ASP-1-0.772-0.86511.534-17.725-17.7250.0000.0000.0000.000
55A63GLY00.000-0.01313.824-0.487-0.4870.0000.0000.0000.000
56A64PHE0-0.016-0.01114.7590.0460.0460.0000.0000.0000.000
57A65LEU0-0.043-0.03015.3440.2090.2090.0000.0000.0000.000
58A66SER0-0.084-0.03412.472-0.695-0.6950.0000.0000.0000.000
59A67ALA0-0.032-0.00514.357-0.420-0.4200.0000.0000.0000.000
60A68ALA00.0240.03017.5730.5660.5660.0000.0000.0000.000
61A69ALA00.0210.01219.384-0.464-0.4640.0000.0000.0000.000
62A70ALA0-0.007-0.00619.8260.3650.3650.0000.0000.0000.000
63A71ARG10.9120.96018.25714.41714.4170.0000.0000.0000.000
64A72LEU00.0430.03321.3130.0170.0170.0000.0000.0000.000
65A73PRO00.0150.00224.308-0.324-0.3240.0000.0000.0000.000
66A74VAL0-0.021-0.00925.1770.1410.1410.0000.0000.0000.000
67A75PRO0-0.0100.01927.736-0.024-0.0240.0000.0000.0000.000
68A76ASP-1-0.830-0.93631.483-8.881-8.8810.0000.0000.0000.000
69A77THR0-0.039-0.04433.8630.1590.1590.0000.0000.0000.000
70A78GLY0-0.0020.01037.1490.2010.2010.0000.0000.0000.000
71A79SER0-0.044-0.04138.7030.1980.1980.0000.0000.0000.000
72A80ALA00.022-0.00737.120-0.162-0.1620.0000.0000.0000.000
73A81LEU00.0310.02837.576-0.135-0.1350.0000.0000.0000.000
74A82ASN00.0430.00438.767-0.025-0.0250.0000.0000.0000.000
75A83ASP-1-0.777-0.85933.981-8.735-8.7350.0000.0000.0000.000
76A84ILE00.002-0.01133.345-0.276-0.2760.0000.0000.0000.000
77A85LEU00.0320.04334.761-0.126-0.1260.0000.0000.0000.000
78A86ILE00.0140.01732.007-0.121-0.1210.0000.0000.0000.000
79A87HIS00.0030.02127.698-0.046-0.0460.0000.0000.0000.000
80A88ALA00.0320.02030.775-0.207-0.2070.0000.0000.0000.000
81A89THR0-0.023-0.01833.0490.0620.0620.0000.0000.0000.000
82A90SER0-0.037-0.02229.083-0.209-0.2090.0000.0000.0000.000
83A91LEU0-0.027-0.01427.254-0.241-0.2410.0000.0000.0000.000
84A92ALA00.0300.01129.596-0.073-0.0730.0000.0000.0000.000
85A93ASN0-0.040-0.04631.012-0.102-0.1020.0000.0000.0000.000
86A94PHE0-0.0070.00423.337-0.123-0.1230.0000.0000.0000.000
87A95LEU0-0.0060.00228.049-0.101-0.1010.0000.0000.0000.000
88A96ILE0-0.0170.00629.8440.0810.0810.0000.0000.0000.000
89A97SER0-0.048-0.02727.5580.0070.0070.0000.0000.0000.000
90A98ARG10.8940.92528.0859.2999.2990.0000.0000.0000.000
91A99GLU-1-0.859-0.94923.562-10.755-10.7550.0000.0000.0000.000
92A100GLY00.0050.01025.257-0.152-0.1520.0000.0000.0000.000
93A101THR00.0210.01627.3320.1220.1220.0000.0000.0000.000
94A102ILE00.0270.02523.1980.0900.0900.0000.0000.0000.000
95A103ILE0-0.035-0.01423.892-0.081-0.0810.0000.0000.0000.000
96A104ASN00.013-0.00426.903-0.047-0.0470.0000.0000.0000.000
97A105GLU-1-0.934-0.95527.751-9.428-9.4280.0000.0000.0000.000
98A106LEU0-0.017-0.01722.2570.0390.0390.0000.0000.0000.000
99A107VAL00.008-0.00526.4130.0110.0110.0000.0000.0000.000
100A108GLY00.0410.02528.7770.1790.1790.0000.0000.0000.000
101A109GLU-1-0.795-0.92327.460-9.299-9.2990.0000.0000.0000.000
102A110GLY0-0.055-0.02127.8010.0260.0260.0000.0000.0000.000
103A111GLN0-0.081-0.03928.4500.1960.1960.0000.0000.0000.000
104A112PHE0-0.026-0.01331.0380.2130.2130.0000.0000.0000.000
105A113ASP-1-0.830-0.90825.873-10.407-10.4070.0000.0000.0000.000
106A114SER00.0530.02227.057-0.260-0.2600.0000.0000.0000.000
107A115LYS10.8350.90222.56610.26010.2600.0000.0000.0000.000
108A116LEU00.0070.00022.057-0.403-0.4030.0000.0000.0000.000
109A117ALA00.0200.00723.316-0.197-0.1970.0000.0000.0000.000
110A118GLU-1-0.880-0.91922.334-10.576-10.5760.0000.0000.0000.000
111A119GLU-1-0.746-0.86517.678-14.220-14.2200.0000.0000.0000.000
112A120TYR00.0240.00720.086-0.295-0.2950.0000.0000.0000.000
113A121ARG10.8670.93222.3639.7519.7510.0000.0000.0000.000
114A122VAL00.007-0.00118.653-0.051-0.0510.0000.0000.0000.000
115A123ARG10.7890.86512.73815.31815.3180.0000.0000.0000.000
116A124TYR0-0.005-0.00518.838-0.212-0.2120.0000.0000.0000.000
117A125PHE00.0240.00021.6550.0090.0090.0000.0000.0000.000
118A126GLN0-0.0140.00020.0560.2630.2630.0000.0000.0000.000
119A127PRO0-0.015-0.00619.5540.1850.1850.0000.0000.0000.000
120A128ARG10.8000.91219.47512.47412.4740.0000.0000.0000.000
121A129ARG10.8070.85725.2059.1979.1970.0000.0000.0000.000
122A130LEU00.0060.01122.6180.2460.2460.0000.0000.0000.000
123A131GLN0-0.047-0.03224.2820.1220.1220.0000.0000.0000.000
124A132ALA00.0240.01626.9140.2440.2440.0000.0000.0000.000
125A133LYS10.8720.91528.0979.8779.8770.0000.0000.0000.000
126A134GLN0-0.010-0.01124.8420.1370.1370.0000.0000.0000.000
127A135LEU0-0.049-0.02330.1710.1900.1900.0000.0000.0000.000
128A136LEU00.0180.01132.5910.2750.2750.0000.0000.0000.000
129A137GLU-1-0.815-0.90531.030-9.113-9.1130.0000.0000.0000.000
130A138LYS10.6760.82732.0629.2209.2200.0000.0000.0000.000
131A139GLY00.0480.01935.6880.1820.1820.0000.0000.0000.000
132A140ILE0-0.021-0.00936.9280.2080.2080.0000.0000.0000.000
133A141LYS10.9020.95235.0108.6908.6900.0000.0000.0000.000
134A142ARG10.7990.91636.4608.0418.0410.0000.0000.0000.000
135A143GLY00.0040.01641.4000.1480.1480.0000.0000.0000.000
136A144GLU-1-0.782-0.86640.326-7.342-7.3420.0000.0000.0000.000
137A145LEU0-0.051-0.01638.6350.0150.0150.0000.0000.0000.000
138A146LYS10.9610.97843.1016.8686.8680.0000.0000.0000.000
139A147GLU-1-0.904-0.95043.669-6.221-6.2210.0000.0000.0000.000
140A148ASN0-0.048-0.03942.768-0.094-0.0940.0000.0000.0000.000
141A149LEU0-0.0170.00138.1460.0200.0200.0000.0000.0000.000
142A150ASP-1-0.826-0.90437.464-7.825-7.8250.0000.0000.0000.000
143A151ILE00.0000.01133.1050.0150.0150.0000.0000.0000.000
144A152GLU-1-0.816-0.90230.904-9.256-9.2560.0000.0000.0000.000
145A153LEU00.0330.01634.453-0.006-0.0060.0000.0000.0000.000
146A154SER0-0.052-0.06037.4310.1730.1730.0000.0000.0000.000
147A155ILE0-0.0090.00830.960-0.004-0.0040.0000.0000.0000.000
148A156ASP-1-0.819-0.87334.282-8.330-8.3300.0000.0000.0000.000
149A157LEU0-0.060-0.02935.9860.0990.0990.0000.0000.0000.000
150A158ILE00.0000.00435.2300.1000.1000.0000.0000.0000.000
151A159TYR00.012-0.04928.354-0.133-0.1330.0000.0000.0000.000
152A160GLY00.0210.02634.015-0.047-0.0470.0000.0000.0000.000
153A161PRO00.018-0.00236.4610.0100.0100.0000.0000.0000.000
154A162ILE00.0140.02733.0830.0860.0860.0000.0000.0000.000
155A163PHE0-0.003-0.01728.644-0.046-0.0460.0000.0000.0000.000
156A164TYR00.0190.00834.3260.0320.0320.0000.0000.0000.000
157A165ARG10.8180.90737.8626.9896.9890.0000.0000.0000.000
158A166LEU0-0.035-0.01331.0080.0730.0730.0000.0000.0000.000
159A167LEU0-0.049-0.02831.620-0.083-0.0830.0000.0000.0000.000
160A168VAL0-0.050-0.01235.8190.0600.0600.0000.0000.0000.000
161A169THR0-0.049-0.04039.5750.0700.0700.0000.0000.0000.000
162A170GLY00.0120.01939.3090.1240.1240.0000.0000.0000.000
163A171GLU-1-0.846-0.89640.384-6.536-6.5360.0000.0000.0000.000
164A172LYS10.8780.92040.0396.6016.6010.0000.0000.0000.000
165A173LEU00.0180.02434.0760.1220.1220.0000.0000.0000.000
166A174ASP-1-0.815-0.88537.564-7.122-7.1220.0000.0000.0000.000
167A175ASP-1-0.775-0.89936.761-7.978-7.9780.0000.0000.0000.000
168A176SER0-0.041-0.03438.8340.0590.0590.0000.0000.0000.000
169A177TYR0-0.024-0.02338.8300.1150.1150.0000.0000.0000.000
170A178VAL0-0.004-0.01435.9280.0240.0240.0000.0000.0000.000
171A179HIS00.0130.00239.148-0.135-0.1350.0000.0000.0000.000
172A180ASP-1-0.879-0.93741.452-6.427-6.4270.0000.0000.0000.000
173A181LEU0-0.066-0.01038.2860.0860.0860.0000.0000.0000.000
174A182VAL0-0.015-0.01537.5990.0190.0190.0000.0000.0000.000
175A183ILE00.0230.01140.5840.0470.0470.0000.0000.0000.000
176A184ASN0-0.062-0.04944.1780.1910.1910.0000.0000.0000.000
177A185ALA0-0.043-0.01140.7250.0830.0830.0000.0000.0000.000
178A186PHE0-0.027-0.00838.819-0.043-0.0430.0000.0000.0000.000
179A187GLU-1-0.873-0.94543.793-6.114-6.1140.0000.0000.0000.000
180A188GLY00.0010.00846.7810.1020.1020.0000.0000.0000.000
181A189ILE00.010-0.00848.0040.0910.0910.0000.0000.0000.000
182A190ARG10.8580.92850.6265.6925.6920.0000.0000.0000.000
183A191LEU00.0330.01453.306-0.047-0.0470.0000.0000.0000.000
184A192ARG10.8350.94647.5386.2466.2460.0000.0000.0000.000