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: 1635Z

Calculation Name: 2ES9-A-Xray540

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

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 OptHSide
Protonation MOE:Protonate 3D
Complement MOE:Structure Preparation
Water No
Procedure Auto-FMO protocol ver. 2.20220422
Remarks
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 -733943.036855
FMO2-HF: Nuclear repulsion 695207.011447
FMO2-HF: Total energy -38736.025408
FMO2-MP2: Total energy -38848.83445


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: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.
-5.725-7.31910.985-3.443-5.948-0.049
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 : 0.112 / q_NPA : 0.084
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].
4A12ALA0-0.0620.1144.544-0.0330.154-0.001-0.086-0.1000.000
5A13ILE00.067-0.1053.6810.5011.747-0.003-0.611-0.6320.002
6A13ILE0-0.0460.1024.567-0.158-0.078-0.001-0.014-0.0650.000
7A14GLU00.063-0.1333.3231.1581.2230.0180.162-0.245-0.001
8A14GLU-1-0.924-0.8021.915-7.544-11.00310.096-3.769-2.868-0.039
9A15LYS00.110-0.0984.0740.2750.533-0.002-0.084-0.1720.000
10A15LYS10.7661.0324.852-2.094-2.052-0.001-0.014-0.0270.000
11A16ALA00.065-0.1075.9120.1260.1260.0000.0000.0000.000
12A16ALA0-0.0670.1017.983-0.059-0.0590.0000.0000.0000.000
13A17LEU00.032-0.1467.7620.2050.2050.0000.0000.0000.000
14A17LEU0-0.0770.0977.499-0.008-0.0080.0000.0000.0000.000
15A18ASP00.099-0.0768.152-0.078-0.0780.0000.0000.0000.000
16A18ASP-1-0.867-0.7857.1491.2801.2800.0000.0000.0000.000
17A19PHE0-0.012-0.0999.717-0.010-0.0100.0000.0000.0000.000
18A19PHE0-0.0520.06810.5160.0340.0340.0000.0000.0000.000
19A20ILE00.040-0.11812.0740.0240.0240.0000.0000.0000.000
20A20ILE0-0.0770.11012.756-0.014-0.0140.0000.0000.0000.000
21A21GLY00.044-0.07512.697-0.020-0.0200.0000.0000.0000.000
22A22GLY0-0.049-0.01014.1880.0160.0160.0000.0000.0000.000
23A23MET00.0700.01715.8780.0220.0220.0000.0000.0000.000
24A23MET0-0.1810.07516.416-0.009-0.0090.0000.0000.0000.000
25A24ASN00.155-0.03618.5480.0010.0010.0000.0000.0000.000
26A24ASN0-0.1490.03523.174-0.003-0.0030.0000.0000.0000.000
27A25THR00.013-0.14519.256-0.019-0.0190.0000.0000.0000.000
28A25THR0-0.0200.11117.135-0.002-0.0020.0000.0000.0000.000
29A26SER00.120-0.06020.398-0.029-0.0290.0000.0000.0000.000
30A26SER0-0.0180.09522.8630.0040.0040.0000.0000.0000.000
31A27ALA00.078-0.09223.824-0.008-0.0080.0000.0000.0000.000
32A27ALA0-0.1000.11124.6880.0020.0020.0000.0000.0000.000
33A28SER00.004-0.08124.617-0.013-0.0130.0000.0000.0000.000
34A28SER0-0.0250.05928.5250.0020.0020.0000.0000.0000.000
35A29VAL00.082-0.10426.409-0.017-0.0170.0000.0000.0000.000
36A29VAL0-0.1160.10128.267-0.001-0.0010.0000.0000.0000.000
37A30PRO00.003-0.09922.4750.0150.0150.0000.0000.0000.000
38A31HIS00.085-0.00124.454-0.007-0.0070.0000.0000.0000.000
39A31HIS0-0.0410.13424.8280.0100.0100.0000.0000.0000.000
40A32SER00.112-0.04424.468-0.007-0.0070.0000.0000.0000.000
41A32SER0-0.0180.06327.6480.0030.0030.0000.0000.0000.000
42A33MET00.049-0.10623.980-0.017-0.0170.0000.0000.0000.000
43A33MET0-0.0550.11623.4240.0050.0050.0000.0000.0000.000
44A34ASP00.136-0.07720.3980.0090.0090.0000.0000.0000.000
45A34ASP-1-0.878-0.82220.6610.0490.0490.0000.0000.0000.000
46A35GLU00.129-0.07019.989-0.017-0.0170.0000.0000.0000.000
47A35GLU-1-0.963-0.83723.015-0.082-0.0820.0000.0000.0000.000
48A36SER0-0.009-0.11420.789-0.032-0.0320.0000.0000.0000.000
49A36SER0-0.0670.05922.8670.0010.0010.0000.0000.0000.000
50A37THR00.014-0.11118.617-0.023-0.0230.0000.0000.0000.000
51A37THR0-0.0380.07016.5140.0150.0150.0000.0000.0000.000
52A38ALA00.095-0.07516.1440.0020.0020.0000.0000.0000.000
53A38ALA0-0.0530.09917.464-0.004-0.0040.0000.0000.0000.000
54A39LYS00.002-0.13316.183-0.062-0.0620.0000.0000.0000.000
55A39LYS10.7300.98120.1830.1100.1100.0000.0000.0000.000
56A40GLY0-0.020-0.09817.520-0.038-0.0380.0000.0000.0000.000
57A41ILE00.1100.03113.299-0.013-0.0130.0000.0000.0000.000
58A41ILE0-0.0950.09011.1730.0060.0060.0000.0000.0000.000
59A42LEU00.056-0.09712.774-0.091-0.0910.0000.0000.0000.000
60A42LEU0-0.1020.08713.114-0.001-0.0010.0000.0000.0000.000
61A43LYS00.159-0.05214.323-0.088-0.0880.0000.0000.0000.000
62A43LYS10.6910.94417.8600.2040.2040.0000.0000.0000.000
63A44TYR00.044-0.08914.290-0.037-0.0370.0000.0000.0000.000
64A44TYR0-0.0510.08411.8490.0310.0310.0000.0000.0000.000
65A45LEU00.069-0.09410.4860.0820.0820.0000.0000.0000.000
66A45LEU0-0.0660.1117.8910.0010.0010.0000.0000.0000.000
67A46HIS00.134-0.08011.503-0.119-0.1190.0000.0000.0000.000
68A46HIS0-0.0700.08914.578-0.046-0.0460.0000.0000.0000.000
69A47ASP00.038-0.12013.858-0.033-0.0330.0000.0000.0000.000
70A47ASP-1-0.899-0.81415.791-0.210-0.2100.0000.0000.0000.000
71A48LEU0-0.034-0.11911.7510.0580.0580.0000.0000.0000.000
72A48LEU0-0.0950.09910.4610.0090.0090.0000.0000.0000.000
73A49GLY00.012-0.08712.098-0.017-0.0170.0000.0000.0000.000
74A50VAL00.004-0.0268.276-0.024-0.0240.0000.0000.0000.000
75A50VAL0-0.0990.1006.126-0.100-0.1000.0000.0000.0000.000
76A51PRO00.042-0.0949.524-0.025-0.0250.0000.0000.0000.000
77A52VAL00.069-0.0129.955-0.315-0.3150.0000.0000.0000.000
78A52VAL0-0.0860.1148.8740.0140.0140.0000.0000.0000.000
79A53SER00.032-0.10111.0500.1910.1910.0000.0000.0000.000
80A53SER0-0.0450.06513.337-0.052-0.0520.0000.0000.0000.000
81A54PRO00.030-0.11813.648-0.022-0.0220.0000.0000.0000.000
82A55GLU00.0720.00115.9480.0420.0420.0000.0000.0000.000
83A55GLU-1-0.846-0.76714.722-0.681-0.6810.0000.0000.0000.000
84A56VAL00.078-0.11611.1600.1000.1000.0000.0000.0000.000
85A56VAL0-0.0730.1139.058-0.042-0.0420.0000.0000.0000.000
86A57VAL00.033-0.09412.378-0.022-0.0220.0000.0000.0000.000
87A57VAL0-0.0890.07713.4090.0160.0160.0000.0000.0000.000
88A58VAL00.110-0.09214.2620.0620.0620.0000.0000.0000.000
89A58VAL0-0.0950.08717.9000.0070.0070.0000.0000.0000.000
90A59ALA00.153-0.07314.5860.0900.0900.0000.0000.0000.000
91A59ALA0-0.1110.09813.676-0.023-0.0230.0000.0000.0000.000
92A60ARG00.054-0.11712.4240.0600.0600.0000.0000.0000.000
93A60ARG10.6840.9877.5950.1120.1120.0000.0000.0000.000
94A61GLY0-0.005-0.12813.4840.0820.0820.0000.0000.0000.000
95A62GLU00.063-0.01416.8490.0610.0610.0000.0000.0000.000
96A62GLU-1-1.013-0.86418.194-0.305-0.3050.0000.0000.0000.000
97A63GLN00.080-0.08115.1110.0500.0500.0000.0000.0000.000
98A63GLN0-0.1440.06411.629-0.093-0.0930.0000.0000.0000.000
99A64GLU00.009-0.15315.7410.0310.0310.0000.0000.0000.000
100A64GLU-1-0.880-0.77012.382-0.005-0.0050.0000.0000.0000.000
101A65GLY0-0.008-0.08916.7200.0400.0400.0000.0000.0000.000
102A66TRP00.042-0.00319.0340.0350.0350.0000.0000.0000.000
103A66TRP0-0.0990.05013.407-0.030-0.0300.0000.0000.0000.000
104A67ASN00.184-0.04820.180-0.012-0.0120.0000.0000.0000.000
105A67ASN0-0.2000.05723.755-0.013-0.0130.0000.0000.0000.000
106A68PRO00.015-0.10522.513-0.014-0.0140.0000.0000.0000.000
107A69GLU00.1340.01823.519-0.027-0.0270.0000.0000.0000.000
108A69GLU-1-0.913-0.80126.628-0.117-0.1170.0000.0000.0000.000
109A70PHE00.089-0.13621.986-0.009-0.0090.0000.0000.0000.000
110A70PHE0-0.0860.10717.5880.0020.0020.0000.0000.0000.000
111A71THR0-0.042-0.11219.131-0.008-0.0080.0000.0000.0000.000
112A71THR00.0120.12317.895-0.002-0.0020.0000.0000.0000.000
113A72LYS00.146-0.06519.999-0.043-0.0430.0000.0000.0000.000
114A72LYS10.6880.99524.1900.1390.1390.0000.0000.0000.000
115A73LYS0-0.042-0.12022.651-0.022-0.0220.0000.0000.0000.000
116A73LYS10.8921.06622.9940.1150.1150.0000.0000.0000.000
117A74VAL00.130-0.10818.0860.0000.0000.0000.0000.0000.000
118A74VAL0-0.0690.12116.0460.0000.0000.0000.0000.0000.000
119A75ALA00.072-0.12217.887-0.043-0.0430.0000.0000.0000.000
120A75ALA0-0.0330.13418.7840.0000.0000.0000.0000.0000.000
121A76GLY0-0.008-0.09718.932-0.023-0.0230.0000.0000.0000.000
122A77TRP0-0.015-0.04220.2740.0060.0060.0000.0000.0000.000
123A77TRP0-0.0470.08919.2860.0110.0110.0000.0000.0000.000
124A78ALA00.116-0.08916.4230.0300.0300.0000.0000.0000.000
125A78ALA0-0.0290.13215.621-0.011-0.0110.0000.0000.0000.000
126A79GLU00.084-0.11417.434-0.052-0.0520.0000.0000.0000.000
127A79GLU-1-1.025-0.84720.706-0.280-0.2800.0000.0000.0000.000
128A80LYS00.112-0.05020.107-0.003-0.0030.0000.0000.0000.000
129A80LYS10.8511.02622.3030.1810.1810.0000.0000.0000.000
130A81VAL00.029-0.09118.1080.0300.0300.0000.0000.0000.000
131A81VAL0-0.0950.09916.3540.0080.0080.0000.0000.0000.000
132A82ALA00.122-0.09717.8340.0120.0120.0000.0000.0000.000
133A82ALA0-0.0520.12016.931-0.010-0.0100.0000.0000.0000.000
134A83SER0-0.080-0.11618.483-0.010-0.0100.0000.0000.0000.000
135A83SER0-0.1080.03922.9110.0190.0190.0000.0000.0000.000
136A84GLY00.011-0.08221.2380.0160.0160.0000.0000.0000.000
137A85ASN00.0380.02322.4060.0220.0220.0000.0000.0000.000
138A85ASN0-0.1240.03325.1720.0170.0170.0000.0000.0000.000
139A86ARG00.126-0.05123.243-0.016-0.0160.0000.0000.0000.000
140A86ARG10.8601.04025.5810.1130.1130.0000.0000.0000.000
141A87ILE00.070-0.11523.1470.0020.0020.0000.0000.0000.000
142A87ILE0-0.0490.13121.0720.0010.0010.0000.0000.0000.000
143A88LEU00.108-0.11524.5180.0080.0080.0000.0000.0000.000
144A88LEU0-0.0940.10527.7010.0000.0000.0000.0000.0000.000
145A89ILE00.012-0.13923.452-0.010-0.0100.0000.0000.0000.000
146A89ILE0-0.0430.14021.4680.0000.0000.0000.0000.0000.000
147A90LYS00.109-0.05024.7770.0080.0080.0000.0000.0000.000
148A90LYS10.8091.01827.4840.0000.0000.0000.0000.0000.000
149A91ASN00.060-0.08925.9370.0000.0000.0000.0000.0000.000
150A91ASN0-0.1330.03826.592-0.008-0.0080.0000.0000.0000.000
151A92PRO00.053-0.10622.5850.0060.0060.0000.0000.0000.000
152A93GLU00.0940.01621.5790.0040.0040.0000.0000.0000.000
153A93GLU-1-0.854-0.78724.7120.0410.0410.0000.0000.0000.000
154A94TYR00.027-0.08921.9570.0270.0270.0000.0000.0000.000
155A94TYR0-0.0740.06721.808-0.010-0.0100.0000.0000.0000.000
156A95PHE00.086-0.07217.8750.0380.0380.0000.0000.0000.000
157A95PHE0-0.0750.10513.400-0.007-0.0070.0000.0000.0000.000
158A96SER00.088-0.04518.192-0.021-0.0210.0000.0000.0000.000
159A96SER0-0.0640.04317.5950.0200.0200.0000.0000.0000.000
160A97THR00.129-0.07816.7290.0110.0110.0000.0000.0000.000
161A97THR0-0.0140.09018.113-0.006-0.0060.0000.0000.0000.000
162A98TYR00.077-0.03815.8920.0180.0180.0000.0000.0000.000
163A98TYR0-0.0870.07514.0730.0050.0050.0000.0000.0000.000
164A99MET00.092-0.10212.8060.1380.1380.0000.0000.0000.000
165A99MET0-0.1140.08613.283-0.020-0.0200.0000.0000.0000.000
166A100GLN00.124-0.07311.7270.0630.0630.0000.0000.0000.000
167A100GLN0-0.1370.07214.383-0.043-0.0430.0000.0000.0000.000
168A101GLU00.064-0.11611.977-0.021-0.0210.0000.0000.0000.000
169A101GLU-1-0.929-0.80614.2920.3140.3140.0000.0000.0000.000
170A102GLN00.154-0.04710.4060.0180.0180.0000.0000.0000.000
171A102GLN0-0.1050.0688.6420.2660.2660.0000.0000.0000.000
172A103LEU00.090-0.0847.4090.4630.4630.0000.0000.0000.000
173A103LEU0-0.0940.0817.047-0.062-0.0620.0000.0000.0000.000
174A104LYS00.135-0.0887.544-0.112-0.1120.0000.0000.0000.000
175A104LYS10.7370.99011.682-0.333-0.3330.0000.0000.0000.000
176A105GLU00.039-0.1229.203-0.220-0.2200.0000.0000.0000.000
177A105GLU-1-1.025-0.8528.8461.2641.2640.0000.0000.0000.000
178A106LEU00.068-0.1014.619-0.189-0.134-0.002-0.004-0.0490.000
179A106LEU0-0.1030.0893.530-0.2590.0880.024-0.117-0.2540.000
180A107VAL00.115-0.0894.802-0.212-0.090-0.002-0.007-0.1140.000
181A107VAL0-0.0960.0866.672-0.086-0.0860.0000.0000.0000.000
182A108LEU00.034-0.1136.528-0.240-0.2400.0000.0000.0000.000
183A108LEU0-0.1120.08010.002-0.009-0.0090.0000.0000.0000.000
184A109GLU00.049-0.1007.490-0.347-0.3470.0000.0000.0000.000
185A109GLU-1-1.024-0.8556.4161.9801.9800.0000.0000.0000.000
186A110HIS0-0.138-0.1475.9980.1100.1100.0000.0000.0000.000
187A110HIS00.0320.0152.840-0.772-1.3090.8591.101-1.422-0.011