FMODB

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

Last updated: 2025-10-06

All entries: 70436

Number of unique PDB entries: 28101

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FMODB ID: GV4M1

Calculation Name: 3IEB-A-Xray547

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

PDB ID: 3IEB

Chain ID: A

ChEMBL ID:

UniProt ID: Q9KMS8

Base Structure: X-ray

Registration Date: 2025-10-05

Reference: Sci Data 11, 1164 (2024).

DOI: https://doi.org/10.1038/s41597-024-03999-2

Apendix: None


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptAll
Protonation MOE:Protonate 3D
Complement MOE:Homology Modeling
Water No
Procedure Manual calculation
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 213
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2404365.185162
FMO2-HF: Nuclear repulsion 2323307.762055
FMO2-HF: Total energy -81057.423107
FMO2-MP2: Total energy -81292.514548


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:2:THR)


Summations of interaction energy for fragment #1(A:2: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.
-279.995-273.3882.002-4.004-4.605-0.044
Interaction energy analysis for fragmet #1(A:2:THR)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.804 / q_NPA : 0.894
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].
3A4PRO0-0.0400.0012.882-9.760-7.5070.404-0.992-1.666-0.009
4A5MET0-0.023-0.0034.5985.4115.623-0.001-0.016-0.1950.000
164A165GLU-1-0.902-0.9572.419-100.052-96.8021.590-2.537-2.302-0.032
184A185THR00.0180.0004.1596.2106.327-0.001-0.010-0.1060.000
185A186LYS10.8400.9293.34340.09940.8500.011-0.446-0.316-0.003
186A187THR0-0.022-0.0194.895-1.083-1.059-0.001-0.003-0.0200.000
5A6ILE0-0.008-0.0137.1161.5691.5690.0000.0000.0000.000
6A7GLN00.0380.00510.940-2.119-2.1190.0000.0000.0000.000
7A8ILE0-0.014-0.01012.8211.0261.0260.0000.0000.0000.000
8A9ALA00.0080.00816.6130.1130.1130.0000.0000.0000.000
9A10LEU0-0.045-0.02718.7720.8030.8030.0000.0000.0000.000
10A11ASP-1-0.804-0.88321.984-12.736-12.7360.0000.0000.0000.000
11A12GLN0-0.004-0.01723.9830.3830.3830.0000.0000.0000.000
12A13THR0-0.008-0.01627.665-0.124-0.1240.0000.0000.0000.000
13A14ASN0-0.027-0.02430.0920.2990.2990.0000.0000.0000.000
14A15LEU00.0190.00426.666-0.338-0.3380.0000.0000.0000.000
15A16THR0-0.028-0.00528.650-0.260-0.2600.0000.0000.0000.000
16A17ASP-1-0.834-0.91029.450-10.176-10.1760.0000.0000.0000.000
17A18ALA0-0.021-0.00424.945-0.327-0.3270.0000.0000.0000.000
18A19VAL0-0.011-0.00224.529-0.512-0.5120.0000.0000.0000.000
19A20ALA0-0.0070.00025.585-0.216-0.2160.0000.0000.0000.000
20A21VAL0-0.025-0.01222.360-0.127-0.1270.0000.0000.0000.000
21A22ALA00.0280.01021.014-0.375-0.3750.0000.0000.0000.000
22A23SER0-0.033-0.02521.129-0.528-0.5280.0000.0000.0000.000
23A24ASN0-0.099-0.05423.1070.1110.1110.0000.0000.0000.000
24A25VAL00.0010.00518.488-0.104-0.1040.0000.0000.0000.000
25A26ALA00.0130.01417.320-0.913-0.9130.0000.0000.0000.000
26A27SER0-0.038-0.01916.679-0.807-0.8070.0000.0000.0000.000
27A28TYR0-0.008-0.01715.110-0.190-0.1900.0000.0000.0000.000
28A29VAL0-0.0180.00513.522-1.099-1.0990.0000.0000.0000.000
29A30ASP-1-0.794-0.8658.866-27.982-27.9820.0000.0000.0000.000
30A31VAL0-0.034-0.0169.193-0.054-0.0540.0000.0000.0000.000
31A32ILE00.0050.00312.0051.0421.0420.0000.0000.0000.000
32A33GLU-1-0.837-0.90915.578-19.959-19.9590.0000.0000.0000.000
33A34VAL0-0.001-0.00917.3550.9160.9160.0000.0000.0000.000
34A35GLY00.0650.03320.949-0.119-0.1190.0000.0000.0000.000
35A36THR0-0.020-0.00821.8060.7510.7510.0000.0000.0000.000
36A37ILE0-0.032-0.02324.4380.5150.5150.0000.0000.0000.000
37A38LEU00.0210.02323.8310.4730.4730.0000.0000.0000.000
38A39ALA0-0.002-0.00724.3170.3850.3850.0000.0000.0000.000
39A40PHE0-0.043-0.03326.4190.3290.3290.0000.0000.0000.000
40A41ALA0-0.051-0.00429.5750.3970.3970.0000.0000.0000.000
41A42GLU-1-0.851-0.93129.074-9.602-9.6020.0000.0000.0000.000
42A43GLY0-0.0130.01029.2490.1430.1430.0000.0000.0000.000
43A44MET00.011-0.01624.983-0.456-0.4560.0000.0000.0000.000
44A45LYS10.9671.00126.6769.3509.3500.0000.0000.0000.000
45A46ALA00.0400.00725.447-0.083-0.0830.0000.0000.0000.000
46A47VAL00.0180.00820.949-0.252-0.2520.0000.0000.0000.000
47A48SER00.0290.01522.824-0.208-0.2080.0000.0000.0000.000
48A49THR0-0.060-0.03825.060-0.132-0.1320.0000.0000.0000.000
49A50LEU00.0180.01521.025-0.019-0.0190.0000.0000.0000.000
50A51ARG10.8120.89915.84417.04617.0460.0000.0000.0000.000
51A52HIS0-0.086-0.05421.3290.1310.1310.0000.0000.0000.000
52A53ASN0-0.024-0.01523.4820.3400.3400.0000.0000.0000.000
53A54HIS0-0.015-0.00218.1540.3550.3550.0000.0000.0000.000
54A55PRO00.0060.00918.160-0.815-0.8150.0000.0000.0000.000
55A56ASN0-0.035-0.02915.426-0.252-0.2520.0000.0000.0000.000
56A57HIS0-0.0160.00913.380-0.559-0.5590.0000.0000.0000.000
57A58ILE00.0160.0267.9120.5710.5710.0000.0000.0000.000
58A59LEU0-0.033-0.01212.3730.4240.4240.0000.0000.0000.000
59A60VAL00.0290.01113.406-0.021-0.0210.0000.0000.0000.000
60A61CYS0-0.043-0.01316.1051.3581.3580.0000.0000.0000.000
61A62ASP-1-0.738-0.84718.741-15.958-15.9580.0000.0000.0000.000
62A63MET0-0.008-0.01219.9991.0591.0590.0000.0000.0000.000
63A64LYS10.7660.88019.79516.23716.2370.0000.0000.0000.000
64A65THR0-0.0030.00421.8150.7940.7940.0000.0000.0000.000
65A66THR00.006-0.00623.701-0.336-0.3360.0000.0000.0000.000
66A67ASP-1-0.847-0.93626.425-10.404-10.4040.0000.0000.0000.000
67A68GLY0-0.015-0.00928.359-0.130-0.1300.0000.0000.0000.000
68A69GLY00.022-0.01125.650-0.058-0.0580.0000.0000.0000.000
69A70ALA00.0130.01425.296-0.379-0.3790.0000.0000.0000.000
70A71ILE0-0.022-0.00627.132-0.034-0.0340.0000.0000.0000.000
71A72LEU00.0350.00325.570-0.102-0.1020.0000.0000.0000.000
72A73SER00.031-0.00621.967-0.510-0.5100.0000.0000.0000.000
73A74ARG10.8740.94722.88411.62611.6260.0000.0000.0000.000
74A75MET0-0.017-0.01025.106-0.003-0.0030.0000.0000.0000.000
75A76ALA00.0370.00621.4340.0360.0360.0000.0000.0000.000
76A77PHE0-0.008-0.00116.901-0.168-0.1680.0000.0000.0000.000
77A78GLU-1-0.986-0.98421.463-11.199-11.1990.0000.0000.0000.000
78A79ALA0-0.061-0.03024.3840.2560.2560.0000.0000.0000.000
79A80GLY00.0240.00921.2720.0300.0300.0000.0000.0000.000
80A81ALA0-0.030-0.01318.095-0.597-0.5970.0000.0000.0000.000
81A82ASP-1-0.758-0.86713.511-19.905-19.9050.0000.0000.0000.000
82A83TRP0-0.061-0.0367.283-1.572-1.5720.0000.0000.0000.000
83A84ILE00.0190.01314.5411.2521.2520.0000.0000.0000.000
84A85THR0-0.001-0.00516.102-0.448-0.4480.0000.0000.0000.000
85A86VAL0-0.018-0.00817.9951.1981.1980.0000.0000.0000.000
86A87SER0-0.0030.00919.385-0.798-0.7980.0000.0000.0000.000
87A88ALA00.018-0.00119.8490.1240.1240.0000.0000.0000.000
88A89ALA0-0.039-0.01421.4170.3630.3630.0000.0000.0000.000
89A90ALA0-0.0070.00823.7030.6120.6120.0000.0000.0000.000
90A91HIS00.0250.01925.335-0.383-0.3830.0000.0000.0000.000
91A92ILE00.0580.02121.885-0.230-0.2300.0000.0000.0000.000
92A93ALA00.004-0.00224.417-0.352-0.3520.0000.0000.0000.000
93A94THR0-0.006-0.00125.396-0.008-0.0080.0000.0000.0000.000
94A95ILE00.0280.02419.896-0.316-0.3160.0000.0000.0000.000
95A96ALA00.0120.00621.337-0.583-0.5830.0000.0000.0000.000
96A97ALA0-0.059-0.02422.823-0.154-0.1540.0000.0000.0000.000
97A98CYS0-0.061-0.02621.0120.1620.1620.0000.0000.0000.000
98A99LYS10.8580.91415.09918.60918.6090.0000.0000.0000.000
99A100LYS10.9480.98519.48611.49011.4900.0000.0000.0000.000
100A101VAL0-0.051-0.03122.0880.0830.0830.0000.0000.0000.000
101A102ALA00.0310.01317.0880.0500.0500.0000.0000.0000.000
102A103ASP-1-0.858-0.90817.129-18.330-18.3300.0000.0000.0000.000
103A104GLU-1-0.946-0.97818.983-12.160-12.1600.0000.0000.0000.000
104A105LEU0-0.067-0.03320.7350.5800.5800.0000.0000.0000.000
105A106ASN0-0.074-0.01915.126-0.621-0.6210.0000.0000.0000.000
106A107GLY00.0730.04415.040-0.448-0.4480.0000.0000.0000.000
107A108GLU-1-0.903-0.9409.593-33.645-33.6450.0000.0000.0000.000
108A109ILE0-0.034-0.02213.9091.1851.1850.0000.0000.0000.000
109A110GLN00.012-0.00610.1250.4980.4980.0000.0000.0000.000
110A111ILE00.002-0.01113.9661.6051.6050.0000.0000.0000.000
111A112GLU-1-0.756-0.88015.604-18.430-18.4300.0000.0000.0000.000
112A113ILE0-0.039-0.00814.9321.1961.1960.0000.0000.0000.000
113A114TYR0-0.015-0.01818.8000.2890.2890.0000.0000.0000.000
114A115GLY00.0090.00522.5500.0970.0970.0000.0000.0000.000
115A116ASN0-0.034-0.02124.888-0.405-0.4050.0000.0000.0000.000
116A117TRP00.0360.02318.557-0.019-0.0190.0000.0000.0000.000
117A118THR0-0.018-0.03523.1480.0130.0130.0000.0000.0000.000
118A119MET0-0.018-0.01217.811-0.737-0.7370.0000.0000.0000.000
119A120GLN0-0.053-0.02820.720-0.214-0.2140.0000.0000.0000.000
120A121ASP-1-0.796-0.88221.624-13.355-13.3550.0000.0000.0000.000
121A122ALA00.0300.00516.675-0.422-0.4220.0000.0000.0000.000
122A123LYS10.8990.96417.07713.64313.6430.0000.0000.0000.000
123A124ALA00.0690.04018.733-0.361-0.3610.0000.0000.0000.000
124A125TRP00.005-0.00716.086-0.221-0.2210.0000.0000.0000.000
125A126VAL00.0300.02313.316-0.444-0.4440.0000.0000.0000.000
126A127ASP-1-0.931-0.96415.647-15.687-15.6870.0000.0000.0000.000
127A128LEU0-0.094-0.04018.5290.5740.5740.0000.0000.0000.000
128A129GLY0-0.004-0.00814.856-0.001-0.0010.0000.0000.0000.000
129A130ILE0-0.068-0.03513.573-1.138-1.1380.0000.0000.0000.000
130A131THR00.0340.0108.4061.1791.1790.0000.0000.0000.000
131A132GLN00.0100.0048.044-3.961-3.9610.0000.0000.0000.000
132A133ALA0-0.004-0.00410.3383.0053.0050.0000.0000.0000.000
133A134ILE0-0.0110.00611.372-2.210-2.2100.0000.0000.0000.000
134A135TYR0-0.028-0.04813.0541.5861.5860.0000.0000.0000.000
135A136HIS10.8020.88114.78016.78916.7890.0000.0000.0000.000
136A137ARG10.8640.93617.79414.87414.8740.0000.0000.0000.000
137A138SER00.0050.00619.5920.6340.6340.0000.0000.0000.000
138A139ARG10.9790.97822.57811.82711.8270.0000.0000.0000.000
139A140ASP-1-0.889-0.94625.417-10.745-10.7450.0000.0000.0000.000
140A141ALA0-0.010-0.01424.2610.4000.4000.0000.0000.0000.000
141A142GLU-1-0.887-0.92823.102-13.445-13.4450.0000.0000.0000.000
142A143LEU0-0.071-0.04326.1540.3450.3450.0000.0000.0000.000
143A144ALA0-0.031-0.01029.4810.3830.3830.0000.0000.0000.000
144A145GLY0-0.016-0.00228.7470.2280.2280.0000.0000.0000.000
145A146ILE0-0.061-0.02226.591-0.053-0.0530.0000.0000.0000.000
146A147GLY0-0.0040.00824.005-0.247-0.2470.0000.0000.0000.000
147A148TRP00.0340.00616.042-0.147-0.1470.0000.0000.0000.000
148A149THR00.0110.00921.0730.3220.3220.0000.0000.0000.000
149A150THR00.033-0.00320.513-0.666-0.6660.0000.0000.0000.000
150A151ASP-1-0.903-0.94420.669-13.803-13.8030.0000.0000.0000.000
151A152ASP-1-0.752-0.86518.267-15.822-15.8220.0000.0000.0000.000
152A153LEU00.0170.00615.574-1.018-1.0180.0000.0000.0000.000
153A154ASP-1-0.821-0.90415.891-16.711-16.7110.0000.0000.0000.000
154A155LYS10.8470.94617.57613.95113.9510.0000.0000.0000.000
155A156MET0-0.0150.00512.385-0.305-0.3050.0000.0000.0000.000
156A157ARG10.9190.94512.61316.80216.8020.0000.0000.0000.000
157A158GLN0-0.055-0.04013.721-0.270-0.2700.0000.0000.0000.000
158A159LEU00.0170.00313.118-0.159-0.1590.0000.0000.0000.000
159A160SER00.0550.0488.419-1.300-1.3000.0000.0000.0000.000
160A161ALA0-0.052-0.02710.660-1.431-1.4310.0000.0000.0000.000
161A162LEU0-0.072-0.04213.3410.4050.4050.0000.0000.0000.000
162A163GLY0-0.034-0.01310.2090.5060.5060.0000.0000.0000.000
163A164ILE0-0.040-0.0089.263-2.047-2.0470.0000.0000.0000.000
165A166LEU0-0.015-0.0136.4723.1853.1850.0000.0000.0000.000
166A167SER00.006-0.0087.613-4.836-4.8360.0000.0000.0000.000
167A168ILE0-0.028-0.0029.6503.3283.3280.0000.0000.0000.000
168A169THR0-0.008-0.03012.0430.7990.7990.0000.0000.0000.000
169A170GLY00.0230.00615.5990.4320.4320.0000.0000.0000.000
170A171GLY0-0.058-0.04519.2630.0660.0660.0000.0000.0000.000
171A172ILE0-0.0380.00614.4100.3260.3260.0000.0000.0000.000
172A173VAL0-0.0140.01017.7500.1540.1540.0000.0000.0000.000
173A174PRO00.000-0.01916.884-0.734-0.7340.0000.0000.0000.000
174A175GLU-1-0.875-0.94917.431-15.227-15.2270.0000.0000.0000.000
175A176ASP-1-0.832-0.92916.957-16.232-16.2320.0000.0000.0000.000
176A177ILE0-0.060-0.02311.962-0.633-0.6330.0000.0000.0000.000
177A178TYR00.0290.01213.079-1.253-1.2530.0000.0000.0000.000
178A179LEU0-0.057-0.01815.066-0.068-0.0680.0000.0000.0000.000
179A180PHE00.000-0.02810.9360.1390.1390.0000.0000.0000.000
180A181GLU-1-0.871-0.92810.430-24.028-24.0280.0000.0000.0000.000
181A182GLY0-0.042-0.02010.1621.4121.4120.0000.0000.0000.000
182A183ILE0-0.057-0.0198.6060.0780.0780.0000.0000.0000.000
183A184LYS10.8540.9335.07228.10728.1070.0000.0000.0000.000
187A188PHE00.0610.0367.8441.3941.3940.0000.0000.0000.000
188A189ILE0-0.0110.00711.1600.6220.6220.0000.0000.0000.000
189A190ALA00.0110.02014.0351.1131.1130.0000.0000.0000.000
190A191GLY00.0710.04317.502-0.100-0.1000.0000.0000.0000.000
191A192ARG10.8430.86720.53811.61311.6130.0000.0000.0000.000
192A193ALA00.0230.02821.0630.3380.3380.0000.0000.0000.000
193A194LEU00.0460.04415.614-0.066-0.0660.0000.0000.0000.000
194A195ALA0-0.0120.00019.659-0.059-0.0590.0000.0000.0000.000
195A196GLY0-0.001-0.00222.6910.2880.2880.0000.0000.0000.000
196A197ALA0-0.025-0.02224.357-0.320-0.3200.0000.0000.0000.000
197A198GLU-1-0.895-0.94824.566-11.468-11.4680.0000.0000.0000.000
198A199GLY0-0.0030.01621.178-0.467-0.4670.0000.0000.0000.000
199A200GLN00.0200.00718.955-1.060-1.0600.0000.0000.0000.000
200A201GLN0-0.023-0.01318.700-0.409-0.4090.0000.0000.0000.000
201A202THR00.001-0.01519.356-0.575-0.5750.0000.0000.0000.000
202A203ALA00.0370.01714.995-0.921-0.9210.0000.0000.0000.000
203A204ALA0-0.045-0.01514.326-1.351-1.3510.0000.0000.0000.000
204A205ALA00.0450.02115.294-0.733-0.7330.0000.0000.0000.000
205A206LEU00.001-0.00913.385-0.553-0.5530.0000.0000.0000.000
206A207ARG10.8030.8729.57222.84322.8430.0000.0000.0000.000
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