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: 9M8Q2

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 OptH
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 -1892535.96503
FMO2-HF: Nuclear repulsion 1821632.005643
FMO2-HF: Total energy -70903.959387
FMO2-MP2: Total energy -71116.681123


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.
21.22424.2070.019-1.182-1.820.002
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 : 1.004 / q_NPA : 0.990
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].
3A11ILE00.0990.0443.8134.2386.240-0.013-0.839-1.1510.000
4A12GLU-1-0.902-0.9475.499-24.939-24.9390.0000.0000.0000.000
5A13THR0-0.024-0.0196.6852.8902.8900.0000.0000.0000.000
6A14GLN0-0.025-0.0044.515-0.206-0.095-0.001-0.013-0.0970.000
7A15LYS11.0051.0017.14522.42522.4250.0000.0000.0000.000
8A16ALA00.0090.01410.0551.7651.7650.0000.0000.0000.000
9A17ILE00.013-0.0038.8861.3401.3400.0000.0000.0000.000
10A18LEU0-0.011-0.0079.3551.0931.0930.0000.0000.0000.000
11A19SER00.0080.00212.7671.0931.0930.0000.0000.0000.000
12A20ALA00.0320.02215.1830.8870.8870.0000.0000.0000.000
13A21SER0-0.082-0.04515.4010.8710.8710.0000.0000.0000.000
14A22TYR00.0330.01517.2140.6500.6500.0000.0000.0000.000
15A23GLU-1-0.865-0.93419.068-13.000-13.0000.0000.0000.0000.000
16A24LEU0-0.012-0.00819.6590.5470.5470.0000.0000.0000.000
17A25LEU0-0.046-0.00921.3490.5040.5040.0000.0000.0000.000
18A26LEU0-0.014-0.01023.0900.4550.4550.0000.0000.0000.000
19A27GLU-1-0.848-0.90424.702-10.797-10.7970.0000.0000.0000.000
20A28SER0-0.107-0.06025.4220.3660.3660.0000.0000.0000.000
21A29GLY00.0870.05026.6650.2930.2930.0000.0000.0000.000
22A30PHE00.0580.01921.549-0.235-0.2350.0000.0000.0000.000
23A31LYS10.9580.98224.8308.4818.4810.0000.0000.0000.000
24A32ALA00.0350.01726.939-0.043-0.0430.0000.0000.0000.000
25A33VAL00.0510.04320.179-0.203-0.2030.0000.0000.0000.000
26A34THR00.003-0.00622.0940.0530.0530.0000.0000.0000.000
27A35VAL00.0510.00816.393-0.236-0.2360.0000.0000.0000.000
28A36ASP-1-0.832-0.90518.299-12.634-12.6340.0000.0000.0000.000
29A37LYS10.9320.96820.41310.05810.0580.0000.0000.0000.000
30A38ILE00.0130.01615.130-0.175-0.1750.0000.0000.0000.000
31A39ALA0-0.037-0.02515.907-0.605-0.6050.0000.0000.0000.000
32A40GLU-1-0.945-0.97216.969-12.065-12.0650.0000.0000.0000.000
33A41ARG10.7650.88718.74312.04212.0420.0000.0000.0000.000
34A42ALA0-0.006-0.01513.770-0.215-0.2150.0000.0000.0000.000
35A43LYS10.9030.97115.04414.07514.0750.0000.0000.0000.000
36A44VAL0-0.0090.00611.516-1.207-1.2070.0000.0000.0000.000
37A45SER00.0270.00913.2550.8250.8250.0000.0000.0000.000
38A46LYS10.9550.93613.69311.91111.9110.0000.0000.0000.000
39A47ALA0-0.0090.00613.508-0.192-0.1920.0000.0000.0000.000
40A48THR0-0.019-0.0188.301-1.320-1.3200.0000.0000.0000.000
41A49ILE00.0310.0309.548-0.896-0.8960.0000.0000.0000.000
42A50TYR0-0.025-0.02710.9360.0300.0300.0000.0000.0000.000
43A51LYS10.8720.9595.54827.73627.7360.0000.0000.0000.000
44A52TRP0-0.062-0.0293.656-2.172-1.3020.033-0.330-0.5720.002
45A53TRP0-0.003-0.0118.255-0.096-0.0960.0000.0000.0000.000
46A54PRO00.0530.02212.1220.2940.2940.0000.0000.0000.000
47A55ASN0-0.013-0.01715.3960.6680.6680.0000.0000.0000.000
48A56LYS10.8590.90716.66410.34410.3440.0000.0000.0000.000
49A57ALA00.0400.03318.221-0.154-0.1540.0000.0000.0000.000
50A58ALA0-0.0020.02314.584-0.179-0.1790.0000.0000.0000.000
51A59VAL0-0.018-0.00812.650-0.364-0.3640.0000.0000.0000.000
52A60VAL00.0270.01414.447-0.245-0.2450.0000.0000.0000.000
53A61MET0-0.0210.00617.4850.2220.2220.0000.0000.0000.000
54A62ASP-1-0.769-0.88311.474-17.320-17.3200.0000.0000.0000.000
55A63GLY0-0.023-0.01113.977-0.533-0.5330.0000.0000.0000.000
56A64PHE0-0.007-0.01315.247-0.006-0.0060.0000.0000.0000.000
57A65LEU0-0.058-0.03915.5140.1880.1880.0000.0000.0000.000
58A66SER0-0.092-0.03712.701-0.172-0.1720.0000.0000.0000.000
59A67ALA0-0.0010.01214.759-0.095-0.0950.0000.0000.0000.000
60A68ALA00.0260.02517.8510.4700.4700.0000.0000.0000.000
61A69ALA0-0.0090.00119.325-0.478-0.4780.0000.0000.0000.000
62A70ALA00.016-0.00120.2100.4530.4530.0000.0000.0000.000
63A71ARG10.9030.95317.85814.54414.5440.0000.0000.0000.000
64A72LEU00.0380.02821.236-0.006-0.0060.0000.0000.0000.000
65A73PRO00.003-0.00224.400-0.296-0.2960.0000.0000.0000.000
66A74VAL0-0.027-0.01325.2130.2000.2000.0000.0000.0000.000
67A75PRO0-0.0310.01227.895-0.010-0.0100.0000.0000.0000.000
68A76ASP-1-0.945-1.00031.599-9.030-9.0300.0000.0000.0000.000
69A77THR0-0.055-0.07533.6020.1640.1640.0000.0000.0000.000
70A78GLY0-0.0110.00136.8450.2000.2000.0000.0000.0000.000
71A79SER00.0000.00638.3230.2010.2010.0000.0000.0000.000
72A80ALA00.0360.00837.489-0.177-0.1770.0000.0000.0000.000
73A81LEU00.0080.01837.681-0.152-0.1520.0000.0000.0000.000
74A82ASN00.0520.00838.828-0.041-0.0410.0000.0000.0000.000
75A83ASP-1-0.804-0.85334.159-8.632-8.6320.0000.0000.0000.000
76A84ILE0-0.008-0.02133.572-0.251-0.2510.0000.0000.0000.000
77A85LEU00.0260.03234.860-0.139-0.1390.0000.0000.0000.000
78A86ILE00.0130.02532.046-0.097-0.0970.0000.0000.0000.000
79A87HIS00.0040.02627.490-0.085-0.0850.0000.0000.0000.000
80A88ALA00.0210.00430.933-0.200-0.2000.0000.0000.0000.000
81A89THR00.012-0.00133.1900.0410.0410.0000.0000.0000.000
82A90SER0-0.042-0.02129.374-0.204-0.2040.0000.0000.0000.000
83A91LEU0-0.030-0.01527.488-0.218-0.2180.0000.0000.0000.000
84A92ALA00.0290.00729.667-0.089-0.0890.0000.0000.0000.000
85A93ASN0-0.053-0.04431.428-0.061-0.0610.0000.0000.0000.000
86A94PHE00.0070.00823.261-0.100-0.1000.0000.0000.0000.000
87A95LEU0-0.0220.00227.947-0.091-0.0910.0000.0000.0000.000
88A96ILE0-0.0050.01429.8720.0690.0690.0000.0000.0000.000
89A97SER0-0.073-0.03927.7950.0100.0100.0000.0000.0000.000
90A98ARG10.9740.96528.5088.8588.8580.0000.0000.0000.000
91A99GLU-1-0.885-0.93023.422-10.715-10.7150.0000.0000.0000.000
92A100GLY00.017-0.00425.548-0.157-0.1570.0000.0000.0000.000
93A101THR0-0.047-0.02927.1590.1410.1410.0000.0000.0000.000
94A102ILE00.0340.02423.1270.0540.0540.0000.0000.0000.000
95A103ILE0-0.041-0.01824.150-0.041-0.0410.0000.0000.0000.000
96A104ASN00.0210.00127.053-0.104-0.1040.0000.0000.0000.000
97A105GLU-1-0.906-0.94828.201-9.084-9.0840.0000.0000.0000.000
98A106LEU0-0.045-0.01822.613-0.002-0.0020.0000.0000.0000.000
99A107VAL00.014-0.00326.6630.0280.0280.0000.0000.0000.000
100A108GLY00.0200.01229.0870.2070.2070.0000.0000.0000.000
101A109GLU-1-0.927-0.98627.696-8.858-8.8580.0000.0000.0000.000
102A110GLY0-0.039-0.02228.0750.0200.0200.0000.0000.0000.000
103A111GLN0-0.108-0.04328.7710.2150.2150.0000.0000.0000.000
104A112PHE0-0.056-0.02231.3640.2220.2220.0000.0000.0000.000
105A113ASP-1-0.896-0.94726.056-10.160-10.1600.0000.0000.0000.000
106A114SER00.0390.00227.316-0.249-0.2490.0000.0000.0000.000
107A115LYS10.9160.95823.0049.9889.9880.0000.0000.0000.000
108A116LEU00.0050.00322.373-0.447-0.4470.0000.0000.0000.000
109A117ALA00.019-0.00423.225-0.213-0.2130.0000.0000.0000.000
110A118GLU-1-0.942-0.97321.364-11.183-11.1830.0000.0000.0000.000
111A119GLU-1-0.803-0.91617.407-13.980-13.9800.0000.0000.0000.000
112A120TYR00.0230.02220.195-0.238-0.2380.0000.0000.0000.000
113A121ARG10.9280.97022.3689.4709.4700.0000.0000.0000.000
114A122VAL00.0230.01818.3810.0050.0050.0000.0000.0000.000
115A123ARG10.8000.88512.65115.05815.0580.0000.0000.0000.000
116A124TYR0-0.030-0.00918.664-0.237-0.2370.0000.0000.0000.000
117A125PHE00.010-0.01321.3660.0090.0090.0000.0000.0000.000
118A126GLN0-0.0060.00819.6220.1420.1420.0000.0000.0000.000
119A127PRO0-0.0050.00419.4180.1880.1880.0000.0000.0000.000
120A128ARG10.8730.94820.17212.05312.0530.0000.0000.0000.000
121A129ARG10.8710.92324.9849.1679.1670.0000.0000.0000.000
122A130LEU0-0.0060.00422.3160.2540.2540.0000.0000.0000.000
123A131GLN0-0.039-0.03023.9080.2680.2680.0000.0000.0000.000
124A132ALA00.0210.01626.7030.2240.2240.0000.0000.0000.000
125A133LYS10.9390.97228.5639.5399.5390.0000.0000.0000.000
126A134GLN0-0.013-0.00724.8340.0790.0790.0000.0000.0000.000
127A135LEU0-0.043-0.01729.9900.1670.1670.0000.0000.0000.000
128A136LEU00.0290.01332.6340.2650.2650.0000.0000.0000.000
129A137GLU-1-0.878-0.95631.036-8.995-8.9950.0000.0000.0000.000
130A138LYS10.8610.94230.5299.5369.5360.0000.0000.0000.000
131A139GLY00.0480.01935.6670.1820.1820.0000.0000.0000.000
132A140ILE0-0.001-0.00436.9570.2020.2020.0000.0000.0000.000
133A141LYS10.9080.95835.8278.5008.5000.0000.0000.0000.000
134A142ARG10.8480.93436.6427.8517.8510.0000.0000.0000.000
135A143GLY0-0.0230.00041.4960.1530.1530.0000.0000.0000.000
136A144GLU-1-0.818-0.90540.821-7.152-7.1520.0000.0000.0000.000
137A145LEU0-0.069-0.02738.7600.0350.0350.0000.0000.0000.000
138A146LYS10.9510.96843.1736.7206.7200.0000.0000.0000.000
139A147GLU-1-0.926-0.96043.637-6.151-6.1510.0000.0000.0000.000
140A148ASN0-0.027-0.02242.767-0.122-0.1220.0000.0000.0000.000
141A149LEU0-0.0220.00037.9960.0430.0430.0000.0000.0000.000
142A150ASP-1-0.838-0.90337.532-7.704-7.7040.0000.0000.0000.000
143A151ILE00.0130.00533.020-0.019-0.0190.0000.0000.0000.000
144A152GLU-1-0.845-0.93530.894-9.179-9.1790.0000.0000.0000.000
145A153LEU00.0480.03134.247-0.014-0.0140.0000.0000.0000.000
146A154SER0-0.048-0.06136.9540.1470.1470.0000.0000.0000.000
147A155ILE0-0.020-0.00730.7510.0100.0100.0000.0000.0000.000
148A156ASP-1-0.860-0.92234.241-8.164-8.1640.0000.0000.0000.000
149A157LEU0-0.050-0.02435.8390.0920.0920.0000.0000.0000.000
150A158ILE0-0.0090.01434.8280.0770.0770.0000.0000.0000.000
151A159TYR0-0.003-0.06828.265-0.125-0.1250.0000.0000.0000.000
152A160GLY00.0040.01933.988-0.047-0.0470.0000.0000.0000.000
153A161PRO0-0.005-0.01436.2950.0230.0230.0000.0000.0000.000
154A162ILE00.0240.02932.9770.0530.0530.0000.0000.0000.000
155A163PHE0-0.003-0.02028.664-0.056-0.0560.0000.0000.0000.000
156A164TYR00.0130.01734.2590.0580.0580.0000.0000.0000.000
157A165ARG10.9180.96437.7476.9536.9530.0000.0000.0000.000
158A166LEU0-0.056-0.02130.9560.0680.0680.0000.0000.0000.000
159A167LEU0-0.050-0.03831.760-0.028-0.0280.0000.0000.0000.000
160A168VAL0-0.048-0.01335.8140.0780.0780.0000.0000.0000.000
161A169THR0-0.029-0.02439.5050.0590.0590.0000.0000.0000.000
162A170GLY00.0360.03639.7060.1210.1210.0000.0000.0000.000
163A171GLU-1-0.977-0.98140.749-6.309-6.3090.0000.0000.0000.000
164A172LYS10.9250.95740.2146.4806.4800.0000.0000.0000.000
165A173LEU00.0110.00934.3450.1030.1030.0000.0000.0000.000
166A174ASP-1-0.850-0.93837.313-7.101-7.1010.0000.0000.0000.000
167A175ASP-1-0.793-0.91737.164-7.859-7.8590.0000.0000.0000.000
168A176SER0-0.038-0.01139.3360.0300.0300.0000.0000.0000.000
169A177TYR00.0060.00939.6930.0370.0370.0000.0000.0000.000
170A178VAL00.008-0.00736.1420.0260.0260.0000.0000.0000.000
171A179HIS00.015-0.00639.402-0.081-0.0810.0000.0000.0000.000
172A180ASP-1-0.881-0.93841.602-6.383-6.3830.0000.0000.0000.000
173A181LEU0-0.095-0.03838.1390.0800.0800.0000.0000.0000.000
174A182VAL0-0.019-0.01237.835-0.002-0.0020.0000.0000.0000.000
175A183ILE00.0250.01240.6990.0320.0320.0000.0000.0000.000
176A184ASN00.0240.01244.2040.1370.1370.0000.0000.0000.000
177A185ALA0-0.058-0.00941.1050.0840.0840.0000.0000.0000.000
178A186PHE0-0.052-0.02839.003-0.043-0.0430.0000.0000.0000.000
179A187GLU-1-0.962-0.98243.961-6.063-6.0630.0000.0000.0000.000
180A188GLY0-0.030-0.01246.8450.1100.1100.0000.0000.0000.000
181A189ILE00.028-0.00348.0980.0680.0680.0000.0000.0000.000
182A190ARG10.8910.95850.8125.6525.6520.0000.0000.0000.000
183A191LEU00.0350.02153.292-0.043-0.0430.0000.0000.0000.000
184A192ARG10.8940.94948.2306.0766.0760.0000.0000.0000.000