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: 8N6GY

Calculation Name: 2ES9-A-Xray540

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

PDB ID: 2ES9

Chain ID: A

ChEMBL ID:

UniProt ID: Q8ZRJ2

Base Structure: X-ray

Registration Date: 2025-07-08

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 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 187
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -733495.983737
FMO2-HF: Nuclear repulsion 694761.508769
FMO2-HF: Total energy -38734.474967
FMO2-MP2: Total energy -38847.287566


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:11:THR)


Summations of interaction energy for fragment #1(A:11:THR)
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.
-4.647-3.7029.794-5.15-5.585-0.047
Interaction energy analysis for fragmet #1(A:11:THR)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.121 / q_NPA : 0.075
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].
4A12ALA0-0.0600.1234.5960.0490.218-0.001-0.075-0.0930.000
5A13ILE00.063-0.0993.5820.5471.671-0.004-0.530-0.5890.002
6A13ILE0-0.0450.1004.359-0.126-0.030-0.001-0.023-0.0720.000
7A14GLU00.025-0.1463.2641.7031.7300.0200.214-0.261-0.001
8A14GLU-1-0.929-0.8161.971-8.129-10.3009.508-4.105-3.231-0.042
9A15LYS00.161-0.0803.9040.5310.793-0.001-0.083-0.1770.000
10A15LYS10.8181.0824.798-1.481-1.448-0.001-0.011-0.0200.000
11A16ALA00.030-0.1275.7270.3370.3370.0000.0000.0000.000
12A16ALA0-0.0720.1078.046-0.041-0.0410.0000.0000.0000.000
13A17LEU00.037-0.1387.6530.3210.3210.0000.0000.0000.000
14A17LEU0-0.0860.0987.7060.0040.0040.0000.0000.0000.000
15A18ASP00.115-0.0768.001-0.002-0.0020.0000.0000.0000.000
16A18ASP-1-0.959-0.8556.6420.4400.4400.0000.0000.0000.000
17A19PHE00.006-0.1169.5580.0640.0640.0000.0000.0000.000
18A19PHE0-0.0370.07110.3620.0520.0520.0000.0000.0000.000
19A20ILE00.011-0.11711.9260.0650.0650.0000.0000.0000.000
20A20ILE0-0.0840.11612.542-0.009-0.0090.0000.0000.0000.000
21A21GLY00.024-0.08412.5570.0120.0120.0000.0000.0000.000
22A22GLY0-0.047-0.00914.0150.0360.0360.0000.0000.0000.000
23A23MET00.0890.02315.7060.0400.0400.0000.0000.0000.000
24A23MET0-0.1760.08216.293-0.008-0.0080.0000.0000.0000.000
25A24ASN00.156-0.04218.383-0.002-0.0020.0000.0000.0000.000
26A24ASN0-0.1550.04223.006-0.005-0.0050.0000.0000.0000.000
27A25THR00.014-0.13419.126-0.008-0.0080.0000.0000.0000.000
28A25THR0-0.0200.11216.9960.0040.0040.0000.0000.0000.000
29A26SER00.117-0.06120.277-0.027-0.0270.0000.0000.0000.000
30A26SER0-0.0180.09822.6990.0060.0060.0000.0000.0000.000
31A27ALA00.091-0.10323.7080.0000.0000.0000.0000.0000.000
32A27ALA0-0.0940.12124.6500.0030.0030.0000.0000.0000.000
33A28SER00.001-0.08724.512-0.018-0.0180.0000.0000.0000.000
34A28SER0-0.0290.06828.4350.0020.0020.0000.0000.0000.000
35A29VAL00.081-0.11426.319-0.019-0.0190.0000.0000.0000.000
36A29VAL0-0.1080.10528.1340.0000.0000.0000.0000.0000.000
37A30PRO0-0.014-0.10022.3760.0160.0160.0000.0000.0000.000
38A31HIS00.1050.00324.301-0.001-0.0010.0000.0000.0000.000
39A31HIS0-0.0480.12024.6360.0080.0080.0000.0000.0000.000
40A32SER00.080-0.03424.323-0.011-0.0110.0000.0000.0000.000
41A32SER0-0.0550.04627.521-0.002-0.0020.0000.0000.0000.000
42A33MET00.107-0.10923.857-0.016-0.0160.0000.0000.0000.000
43A33MET0-0.0560.11523.3310.0060.0060.0000.0000.0000.000
44A34ASP00.180-0.07220.2350.0110.0110.0000.0000.0000.000
45A34ASP-1-0.961-0.83820.622-0.037-0.0370.0000.0000.0000.000
46A35GLU00.146-0.10519.869-0.029-0.0290.0000.0000.0000.000
47A35GLU-1-1.018-0.84923.199-0.127-0.1270.0000.0000.0000.000
48A36SER0-0.038-0.11020.789-0.035-0.0350.0000.0000.0000.000
49A36SER0-0.0440.06922.7490.0040.0040.0000.0000.0000.000
50A37THR00.005-0.10018.616-0.018-0.0180.0000.0000.0000.000
51A37THR0-0.0190.08616.5870.0170.0170.0000.0000.0000.000
52A38ALA00.129-0.07816.146-0.010-0.0100.0000.0000.0000.000
53A38ALA0-0.0510.09917.368-0.004-0.0040.0000.0000.0000.000
54A39LYS00.008-0.12916.183-0.072-0.0720.0000.0000.0000.000
55A39LYS10.7371.00720.1770.1680.1680.0000.0000.0000.000
56A40GLY0-0.018-0.10117.520-0.031-0.0310.0000.0000.0000.000
57A41ILE00.1270.01413.2980.0100.0100.0000.0000.0000.000
58A41ILE0-0.0860.10011.2280.0000.0000.0000.0000.0000.000
59A42LEU00.013-0.11712.774-0.094-0.0940.0000.0000.0000.000
60A42LEU0-0.0860.10613.036-0.001-0.0010.0000.0000.0000.000
61A43LYS00.178-0.04414.248-0.077-0.0770.0000.0000.0000.000
62A43LYS10.7420.98517.8080.1960.1960.0000.0000.0000.000
63A44TYR00.023-0.09414.227-0.020-0.0200.0000.0000.0000.000
64A44TYR0-0.0490.08911.4430.0410.0410.0000.0000.0000.000
65A45LEU00.068-0.10910.4540.1140.1140.0000.0000.0000.000
66A45LEU0-0.0530.1217.910-0.007-0.0070.0000.0000.0000.000
67A46HIS00.104-0.07911.474-0.094-0.0940.0000.0000.0000.000
68A46HIS0-0.0620.09214.614-0.049-0.0490.0000.0000.0000.000
69A47ASP00.071-0.10913.831-0.021-0.0210.0000.0000.0000.000
70A47ASP-1-0.953-0.84115.849-0.233-0.2330.0000.0000.0000.000
71A48LEU0-0.054-0.15311.7100.0660.0660.0000.0000.0000.000
72A48LEU0-0.1010.11110.3250.0080.0080.0000.0000.0000.000
73A49GLY00.004-0.08612.0350.0110.0110.0000.0000.0000.000
74A50VAL0-0.001-0.0388.2850.0050.0050.0000.0000.0000.000
75A50VAL0-0.0850.1076.163-0.097-0.0970.0000.0000.0000.000
76A51PRO00.032-0.0879.521-0.073-0.0730.0000.0000.0000.000
77A52VAL00.081-0.0129.878-0.316-0.3160.0000.0000.0000.000
78A52VAL0-0.0740.1178.8610.0070.0070.0000.0000.0000.000
79A53SER00.040-0.09410.9310.2060.2060.0000.0000.0000.000
80A53SER0-0.0040.08412.853-0.049-0.0490.0000.0000.0000.000
81A54PRO00.043-0.08713.492-0.049-0.0490.0000.0000.0000.000
82A55GLU00.0740.00515.7890.0370.0370.0000.0000.0000.000
83A55GLU-1-0.950-0.83814.882-0.633-0.6330.0000.0000.0000.000
84A56VAL00.080-0.10710.9380.1060.1060.0000.0000.0000.000
85A56VAL0-0.0490.1128.884-0.046-0.0460.0000.0000.0000.000
86A57VAL00.029-0.10112.268-0.063-0.0630.0000.0000.0000.000
87A57VAL0-0.0800.07513.3300.0180.0180.0000.0000.0000.000
88A58VAL00.099-0.09814.0970.0490.0490.0000.0000.0000.000
89A58VAL0-0.0670.09617.6970.0100.0100.0000.0000.0000.000
90A59ALA00.132-0.07514.5890.0950.0950.0000.0000.0000.000
91A59ALA0-0.1120.10413.635-0.024-0.0240.0000.0000.0000.000
92A60ARG00.054-0.12812.4900.0670.0670.0000.0000.0000.000
93A60ARG10.8211.0917.5670.6740.6740.0000.0000.0000.000
94A61GLY0-0.001-0.11913.4730.0800.0800.0000.0000.0000.000
95A62GLU00.051-0.02016.8140.0650.0650.0000.0000.0000.000
96A62GLU-1-1.012-0.86618.177-0.388-0.3880.0000.0000.0000.000
97A63GLN00.084-0.09015.1240.0620.0620.0000.0000.0000.000
98A63GLN0-0.1350.07312.059-0.106-0.1060.0000.0000.0000.000
99A64GLU0-0.003-0.14815.7090.0440.0440.0000.0000.0000.000
100A64GLU-1-0.961-0.83112.690-0.236-0.2360.0000.0000.0000.000
101A65GLY0-0.003-0.09116.6650.0470.0470.0000.0000.0000.000
102A66TRP00.060-0.00618.9840.0420.0420.0000.0000.0000.000
103A66TRP0-0.0910.05813.459-0.025-0.0250.0000.0000.0000.000
104A67ASN00.140-0.05720.104-0.005-0.0050.0000.0000.0000.000
105A67ASN0-0.1930.05923.547-0.015-0.0150.0000.0000.0000.000
106A68PRO00.030-0.09322.444-0.019-0.0190.0000.0000.0000.000
107A69GLU00.123-0.00223.477-0.030-0.0300.0000.0000.0000.000
108A69GLU-1-1.027-0.86526.383-0.158-0.1580.0000.0000.0000.000
109A70PHE00.071-0.12322.014-0.006-0.0060.0000.0000.0000.000
110A70PHE0-0.1040.10617.5610.0040.0040.0000.0000.0000.000
111A71THR00.005-0.12019.076-0.012-0.0120.0000.0000.0000.000
112A71THR00.0140.12317.891-0.007-0.0070.0000.0000.0000.000
113A72LYS00.129-0.07419.958-0.048-0.0480.0000.0000.0000.000
114A72LYS10.8381.07024.1900.1960.1960.0000.0000.0000.000
115A73LYS0-0.067-0.13022.473-0.017-0.0170.0000.0000.0000.000
116A73LYS10.8991.08522.9670.1800.1800.0000.0000.0000.000
117A74VAL00.144-0.11418.0320.0100.0100.0000.0000.0000.000
118A74VAL0-0.0630.13215.953-0.001-0.0010.0000.0000.0000.000
119A75ALA00.071-0.13617.719-0.047-0.0470.0000.0000.0000.000
120A75ALA0-0.0350.14418.6330.0010.0010.0000.0000.0000.000
121A76GLY0-0.018-0.09718.761-0.016-0.0160.0000.0000.0000.000
122A77TRP0-0.005-0.03920.1240.0160.0160.0000.0000.0000.000
123A77TRP0-0.0430.09119.3030.0140.0140.0000.0000.0000.000
124A78ALA00.109-0.10516.2530.0420.0420.0000.0000.0000.000
125A78ALA0-0.0220.14415.516-0.015-0.0150.0000.0000.0000.000
126A79GLU00.087-0.12217.301-0.046-0.0460.0000.0000.0000.000
127A79GLU-1-1.022-0.84220.579-0.320-0.3200.0000.0000.0000.000
128A80LYS00.055-0.06619.9830.0050.0050.0000.0000.0000.000
129A80LYS10.8561.01722.0530.2150.2150.0000.0000.0000.000
130A81VAL00.060-0.08517.9890.0400.0400.0000.0000.0000.000
131A81VAL0-0.0880.10716.3870.0070.0070.0000.0000.0000.000
132A82ALA00.123-0.09617.7660.0200.0200.0000.0000.0000.000
133A82ALA0-0.0590.12916.852-0.011-0.0110.0000.0000.0000.000
134A83SER0-0.081-0.12518.405-0.004-0.0040.0000.0000.0000.000
135A83SER0-0.1050.02422.7650.0190.0190.0000.0000.0000.000
136A84GLY00.005-0.07021.1750.0200.0200.0000.0000.0000.000
137A85ASN00.0650.01822.3610.0260.0260.0000.0000.0000.000
138A85ASN0-0.1270.04825.1130.0130.0130.0000.0000.0000.000
139A86ARG00.102-0.06723.182-0.017-0.0170.0000.0000.0000.000
140A86ARG10.8681.04925.8270.1260.1260.0000.0000.0000.000
141A87ILE00.044-0.12023.0530.0030.0030.0000.0000.0000.000
142A87ILE0-0.0290.13421.1450.0010.0010.0000.0000.0000.000
143A88LEU00.125-0.11624.4320.0090.0090.0000.0000.0000.000
144A88LEU0-0.0950.10827.6660.0000.0000.0000.0000.0000.000
145A89ILE00.021-0.14623.488-0.013-0.0130.0000.0000.0000.000
146A89ILE0-0.0570.15321.535-0.002-0.0020.0000.0000.0000.000
147A90LYS00.112-0.06224.7770.0110.0110.0000.0000.0000.000
148A90LYS10.8291.04527.4660.0370.0370.0000.0000.0000.000
149A91ASN00.043-0.10625.9240.0040.0040.0000.0000.0000.000
150A91ASN0-0.0930.06726.367-0.008-0.0080.0000.0000.0000.000
151A92PRO00.051-0.10722.5750.0010.0010.0000.0000.0000.000
152A93GLU00.0950.00121.579-0.002-0.0020.0000.0000.0000.000
153A93GLU-1-0.896-0.81124.6310.0090.0090.0000.0000.0000.000
154A94TYR00.030-0.07721.9570.0270.0270.0000.0000.0000.000
155A94TYR0-0.0870.06221.825-0.008-0.0080.0000.0000.0000.000
156A95PHE00.063-0.09317.8590.0260.0260.0000.0000.0000.000
157A95PHE0-0.0750.11013.507-0.007-0.0070.0000.0000.0000.000
158A96SER00.103-0.04318.210-0.011-0.0110.0000.0000.0000.000
159A96SER0-0.0590.04717.5340.0170.0170.0000.0000.0000.000
160A97THR00.122-0.06716.7920.0050.0050.0000.0000.0000.000
161A97THR0-0.0290.09018.246-0.010-0.0100.0000.0000.0000.000
162A98TYR00.118-0.05515.9610.0240.0240.0000.0000.0000.000
163A98TYR0-0.1060.07913.8860.0120.0120.0000.0000.0000.000
164A99MET00.068-0.10112.8300.1420.1420.0000.0000.0000.000
165A99MET0-0.1080.08713.293-0.024-0.0240.0000.0000.0000.000
166A100GLN00.138-0.07211.7940.0440.0440.0000.0000.0000.000
167A100GLN0-0.1130.08714.579-0.044-0.0440.0000.0000.0000.000
168A101GLU00.061-0.14712.023-0.021-0.0210.0000.0000.0000.000
169A101GLU-1-1.031-0.85314.3040.3450.3450.0000.0000.0000.000
170A102GLN00.168-0.04610.4860.0610.0610.0000.0000.0000.000
171A102GLN0-0.1050.0788.7060.3420.3420.0000.0000.0000.000
172A103LEU00.073-0.0937.4640.4760.4760.0000.0000.0000.000
173A103LEU0-0.0890.0847.194-0.069-0.0690.0000.0000.0000.000
174A104LYS00.164-0.0897.569-0.065-0.0650.0000.0000.0000.000
175A104LYS10.8111.05211.686-0.347-0.3470.0000.0000.0000.000
176A105GLU00.033-0.1359.249-0.184-0.1840.0000.0000.0000.000
177A105GLU-1-1.021-0.8458.7571.4441.4440.0000.0000.0000.000
178A106LEU00.043-0.1114.658-0.105-0.047-0.002-0.005-0.0520.000
179A106LEU0-0.0900.1003.668-0.330-0.0210.017-0.111-0.2140.000
180A107VAL00.108-0.0804.7970.0040.138-0.002-0.008-0.1240.000
181A107VAL0-0.0910.0766.677-0.099-0.0990.0000.0000.0000.000
182A108LEU00.021-0.1106.501-0.152-0.1520.0000.0000.0000.000
183A108LEU0-0.1150.07110.072-0.023-0.0230.0000.0000.0000.000
184A109GLU00.055-0.0997.442-0.388-0.3880.0000.0000.0000.000
185A109GLU-1-1.026-0.8516.3662.0692.0690.0000.0000.0000.000
186A110HIS0-0.132-0.1485.9200.0860.0860.0000.0000.0000.000
187A110HIS00.0290.0053.229-1.631-0.7270.261-0.413-0.752-0.006