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: J4MJ9

Calculation Name: 3JTG-A-Xray540

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 3JTG

Chain ID: A

ChEMBL ID:

UniProt ID: Q3UPW2

Base Structure: X-ray

Registration Date: 2025-07-11

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 OptAll
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 182
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -798425.823153
FMO2-HF: Nuclear repulsion 758116.220844
FMO2-HF: Total energy -40309.602309
FMO2-MP2: Total energy -40427.796936


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:272:GLY)


Summations of interaction energy for fragment #1(A:272:GLY)
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.
-1.8421.7855.621-4.813-4.437-0.028
Interaction energy analysis for fragmet #1(A:272:GLY)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.057 / q_NPA : 0.019
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].
3A273THR0-0.0280.0733.756-0.494-0.0100.010-0.193-0.3010.001
4A274HIS00.134-0.0943.789-0.1381.369-0.010-0.830-0.6680.002
5A274HIS0-0.0970.1024.421-0.0450.003-0.001-0.009-0.0380.000
6A275LEU00.122-0.0865.355-0.618-0.6180.0000.0000.0000.000
7A275LEU0-0.1120.0969.4080.0380.0380.0000.0000.0000.000
8A276TRP00.096-0.1027.692-0.098-0.0980.0000.0000.0000.000
9A276TRP0-0.0230.1026.943-0.041-0.0410.0000.0000.0000.000
10A277GLU00.074-0.1143.1840.8720.4370.1030.474-0.142-0.001
11A277GLU-1-0.846-0.7942.358-1.926-0.9455.139-3.613-2.507-0.026
12A278PHE00.155-0.0204.440-0.222-0.164-0.001-0.011-0.0460.000
13A278PHE0-0.1300.0635.8270.0540.0540.0000.0000.0000.000
14A279ILE00.030-0.1095.7250.1740.1740.0000.0000.0000.000
15A279ILE0-0.1030.0749.1820.0270.0270.0000.0000.0000.000
16A280ARG00.169-0.0817.2300.1250.1250.0000.0000.0000.000
17A280ARG10.6590.9402.483-0.4420.0740.371-0.436-0.452-0.003
18A281ASP00.102-0.0935.9050.2890.2890.0000.0000.0000.000
19A281ASP-1-0.938-0.7913.636-2.604-2.1360.010-0.195-0.283-0.001
20A282ILE00.111-0.0857.0920.1180.1180.0000.0000.0000.000
21A282ILE0-0.1000.0739.1760.0250.0250.0000.0000.0000.000
22A283LEU00.014-0.12010.2730.0960.0960.0000.0000.0000.000
23A283LEU0-0.0890.09911.2380.0120.0120.0000.0000.0000.000
24A284ILE00.026-0.09410.3910.0860.0860.0000.0000.0000.000
25A284ILE0-0.0990.0937.9680.0040.0040.0000.0000.0000.000
26A285HIS00.076-0.06611.5030.0440.0440.0000.0000.0000.000
27A285HIS10.7140.9698.7300.5000.5000.0000.0000.0000.000
28A286PRO00.082-0.10312.644-0.007-0.0070.0000.0000.0000.000
29A287GLU00.044-0.00316.0300.0090.0090.0000.0000.0000.000
30A287GLU-1-0.823-0.75913.666-0.306-0.3060.0000.0000.0000.000
31A288LEU00.032-0.12013.3300.0430.0430.0000.0000.0000.000
32A288LEU0-0.0730.09311.276-0.017-0.0170.0000.0000.0000.000
33A289ASN00.144-0.07514.442-0.040-0.0400.0000.0000.0000.000
34A289ASN0-0.1730.05814.3460.0200.0200.0000.0000.0000.000
35A290GLU00.121-0.07515.7470.0310.0310.0000.0000.0000.000
36A290GLU-1-0.952-0.80617.340-0.192-0.1920.0000.0000.0000.000
37A291GLY00.037-0.09118.4070.0060.0060.0000.0000.0000.000
38A292LEU00.056-0.01315.8350.0310.0310.0000.0000.0000.000
39A292LEU0-0.0770.10213.943-0.013-0.0130.0000.0000.0000.000
40A293MET00.051-0.14315.3930.0180.0180.0000.0000.0000.000
41A293MET0-0.0580.11811.3680.0010.0010.0000.0000.0000.000
42A294LYS00.044-0.04016.744-0.011-0.0110.0000.0000.0000.000
43A294LYS10.7960.99519.3870.1800.1800.0000.0000.0000.000
44A295TRP00.127-0.10517.784-0.011-0.0110.0000.0000.0000.000
45A295TRP0-0.0660.12412.8360.0090.0090.0000.0000.0000.000
46A296GLU0-0.022-0.12518.4130.0130.0130.0000.0000.0000.000
47A296GLU-1-0.847-0.78520.724-0.158-0.1580.0000.0000.0000.000
48A297ASN00.138-0.06320.3960.0120.0120.0000.0000.0000.000
49A297ASN0-0.1270.04722.130-0.002-0.0020.0000.0000.0000.000
50A298ARG00.100-0.09717.954-0.010-0.0100.0000.0000.0000.000
51A298ARG10.8071.06014.4260.2200.2200.0000.0000.0000.000
52A299HIS00.157-0.06217.986-0.015-0.0150.0000.0000.0000.000
53A299HIS0-0.0640.11022.113-0.002-0.0020.0000.0000.0000.000
54A300GLU00.005-0.14319.8640.0040.0040.0000.0000.0000.000
55A300GLU-1-0.965-0.83421.197-0.119-0.1190.0000.0000.0000.000
56A301GLY00.054-0.07716.241-0.002-0.0020.0000.0000.0000.000
57A302VAL00.109-0.01316.159-0.032-0.0320.0000.0000.0000.000
58A302VAL0-0.0890.11220.1740.0020.0020.0000.0000.0000.000
59A303PHE00.050-0.09815.9490.0180.0180.0000.0000.0000.000
60A303PHE0-0.0390.11413.359-0.020-0.0200.0000.0000.0000.000
61A304LYS00.101-0.09417.4520.0050.0050.0000.0000.0000.000
62A304LYS10.7791.00920.3700.1680.1680.0000.0000.0000.000
63A305PHE00.046-0.08617.416-0.016-0.0160.0000.0000.0000.000
64A305PHE0-0.0870.06214.030-0.002-0.0020.0000.0000.0000.000
65A306LEU00.039-0.12318.2620.0240.0240.0000.0000.0000.000
66A306LEU0-0.0770.11719.8050.0040.0040.0000.0000.0000.000
67A307ARG00.115-0.08419.1120.0240.0240.0000.0000.0000.000
68A307ARG10.7200.99319.5850.1990.1990.0000.0000.0000.000
69A308SER00.081-0.04618.134-0.031-0.0310.0000.0000.0000.000
70A308SER0-0.0460.04219.8540.0070.0070.0000.0000.0000.000
71A309GLU00.091-0.13017.732-0.041-0.0410.0000.0000.0000.000
72A309GLU-1-0.841-0.77920.848-0.205-0.2050.0000.0000.0000.000
73A310ALA00.117-0.07718.536-0.003-0.0030.0000.0000.0000.000
74A310ALA0-0.0360.11918.7980.0040.0040.0000.0000.0000.000
75A311VAL00.032-0.11914.438-0.015-0.0150.0000.0000.0000.000
76A311VAL0-0.0820.10812.692-0.007-0.0070.0000.0000.0000.000
77A312ALA00.109-0.09013.695-0.092-0.0920.0000.0000.0000.000
78A312ALA0-0.0820.09717.0980.0080.0080.0000.0000.0000.000
79A313GLN00.012-0.12215.315-0.030-0.0300.0000.0000.0000.000
80A313GLN0-0.0570.08817.8110.0120.0120.0000.0000.0000.000
81A314LEU00.095-0.08513.1920.0360.0360.0000.0000.0000.000
82A314LEU0-0.0740.11812.173-0.012-0.0120.0000.0000.0000.000
83A315TRP00.091-0.09310.700-0.085-0.0850.0000.0000.0000.000
84A315TRP0-0.0560.0966.8760.0360.0360.0000.0000.0000.000
85A316GLY00.013-0.11611.746-0.007-0.0070.0000.0000.0000.000
86A317GLN00.1030.01013.7430.0420.0420.0000.0000.0000.000
87A317GLN0-0.0990.10013.067-0.038-0.0380.0000.0000.0000.000
88A318LYS00.046-0.1049.1010.1320.1320.0000.0000.0000.000
89A318LYS10.8531.0785.0291.2341.2340.0000.0000.0000.000
90A319LYS00.009-0.0999.6750.0610.0610.0000.0000.0000.000
91A319LYS10.7501.0147.3810.7600.7600.0000.0000.0000.000
92A320LYS00.062-0.07711.9290.0440.0440.0000.0000.0000.000
93A320LYS10.8721.06213.326-0.060-0.0600.0000.0000.0000.000
94A321ASN00.187-0.07315.0640.0410.0410.0000.0000.0000.000
95A321ASN0-0.1230.06416.0270.0110.0110.0000.0000.0000.000
96A322SER00.068-0.08717.304-0.040-0.0400.0000.0000.0000.000
97A322SER0-0.0210.09520.0840.0060.0060.0000.0000.0000.000
98A323ASN00.087-0.05119.5600.0050.0050.0000.0000.0000.000
99A323ASN0-0.1100.06621.1730.0070.0070.0000.0000.0000.000
100A324MET00.098-0.11116.8710.0210.0210.0000.0000.0000.000
101A324MET0-0.1080.12014.3670.0010.0010.0000.0000.0000.000
102A325THR0-0.012-0.07718.3400.0050.0050.0000.0000.0000.000
103A325THR0-0.0190.06721.3340.0010.0010.0000.0000.0000.000
104A326TYR00.167-0.08018.057-0.026-0.0260.0000.0000.0000.000
105A326TYR0-0.0640.11816.9180.0130.0130.0000.0000.0000.000
106A327GLU00.103-0.08318.845-0.021-0.0210.0000.0000.0000.000
107A327GLU-1-0.914-0.80122.496-0.158-0.1580.0000.0000.0000.000
108A328LYS00.094-0.10118.954-0.002-0.0020.0000.0000.0000.000
109A328LYS10.8031.04818.4210.1660.1660.0000.0000.0000.000
110A329LEU00.113-0.08014.906-0.003-0.0030.0000.0000.0000.000
111A329LEU0-0.0900.10212.828-0.002-0.0020.0000.0000.0000.000
112A330SER00.014-0.11715.299-0.035-0.0350.0000.0000.0000.000
113A330SER0-0.0430.08718.7890.0140.0140.0000.0000.0000.000
114A331ARG00.059-0.11417.6450.0040.0040.0000.0000.0000.000
115A331ARG10.8041.05719.1510.1540.1540.0000.0000.0000.000
116A332ALA00.094-0.09914.3690.0460.0460.0000.0000.0000.000
117A332ALA0-0.0710.10913.534-0.012-0.0120.0000.0000.0000.000
118A333MET00.061-0.11214.272-0.002-0.0020.0000.0000.0000.000
119A333MET0-0.0780.09712.667-0.026-0.0260.0000.0000.0000.000
120A334ARG00.093-0.06715.1870.0080.0080.0000.0000.0000.000
121A334ARG10.7710.98519.7620.1750.1750.0000.0000.0000.000
122A335TYR00.002-0.12516.9660.0280.0280.0000.0000.0000.000
123A335TYR0-0.0620.09016.1510.0050.0050.0000.0000.0000.000
124A336TYR00.055-0.10414.0950.0340.0340.0000.0000.0000.000
125A336TYR0-0.0520.1089.502-0.062-0.0620.0000.0000.0000.000
126A337TYR00.101-0.06415.2850.0080.0080.0000.0000.0000.000
127A337TYR0-0.0400.08918.4300.0070.0070.0000.0000.0000.000
128A338LYS00.076-0.07018.6640.0120.0120.0000.0000.0000.000
129A338LYS10.8761.07619.3010.0710.0710.0000.0000.0000.000
130A339ARG00.062-0.08115.6870.0220.0220.0000.0000.0000.000
131A339ARG10.8561.03411.1270.1470.1470.0000.0000.0000.000
132A340GLU00.089-0.05916.1670.0010.0010.0000.0000.0000.000
133A340GLU-1-0.876-0.78318.131-0.073-0.0730.0000.0000.0000.000
134A341ILE00.169-0.05212.6920.0170.0170.0000.0000.0000.000
135A341ILE0-0.1480.05310.646-0.006-0.0060.0000.0000.0000.000
136A342LEU00.024-0.11913.167-0.033-0.0330.0000.0000.0000.000
137A342LEU0-0.0820.08212.417-0.007-0.0070.0000.0000.0000.000
138A343GLU00.078-0.11615.3800.0190.0190.0000.0000.0000.000
139A343GLU-1-0.859-0.75918.692-0.127-0.1270.0000.0000.0000.000
140A344ARG00.069-0.11718.977-0.022-0.0220.0000.0000.0000.000
141A344ARG10.8021.05121.9050.1240.1240.0000.0000.0000.000
142A345VAL00.048-0.09921.3360.0100.0100.0000.0000.0000.000
143A345VAL0-0.1090.09920.5730.0000.0000.0000.0000.0000.000
144A346ASP00.126-0.11123.200-0.008-0.0080.0000.0000.0000.000
145A346ASP-1-0.898-0.82325.961-0.111-0.1110.0000.0000.0000.000
146A347GLY0-0.012-0.10526.3360.0020.0020.0000.0000.0000.000
147A348ARG00.005-0.01925.2250.0070.0070.0000.0000.0000.000
148A348ARG10.8411.06324.2830.1340.1340.0000.0000.0000.000
149A349ARG00.170-0.07623.832-0.014-0.0140.0000.0000.0000.000
150A349ARG10.8881.06325.7240.1210.1210.0000.0000.0000.000
151A350LEU0-0.022-0.09120.8460.0030.0030.0000.0000.0000.000
152A350LEU0-0.0550.09120.508-0.001-0.0010.0000.0000.0000.000
153A351VAL00.160-0.09919.585-0.030-0.0300.0000.0000.0000.000
154A351VAL0-0.1100.09020.7310.0040.0040.0000.0000.0000.000
155A352TYR00.005-0.09816.8830.0180.0180.0000.0000.0000.000
156A352TYR0-0.0860.06116.230-0.008-0.0080.0000.0000.0000.000
157A353LYS00.179-0.06517.131-0.007-0.0070.0000.0000.0000.000
158A353LYS10.7621.02818.0140.1380.1380.0000.0000.0000.000
159A354PHE00.056-0.11913.629-0.004-0.0040.0000.0000.0000.000
160A354PHE0-0.1130.1039.625-0.007-0.0070.0000.0000.0000.000
161A355GLY00.003-0.10014.4480.0260.0260.0000.0000.0000.000
162A356LYS00.1380.06014.992-0.015-0.0150.0000.0000.0000.000
163A356LYS10.7881.00218.4370.0690.0690.0000.0000.0000.000
164A357ASN00.061-0.07214.6870.0130.0130.0000.0000.0000.000
165A357ASN0-0.1840.02614.2500.0130.0130.0000.0000.0000.000
166A358SER00.039-0.10410.9620.0080.0080.0000.0000.0000.000
167A358SER0-0.0520.05810.576-0.023-0.0230.0000.0000.0000.000
168A359SER00.012-0.0829.8280.0070.0070.0000.0000.0000.000
169A359SER0-0.0230.06910.1220.0010.0010.0000.0000.0000.000
170A360GLY00.035-0.0808.691-0.053-0.0530.0000.0000.0000.000
171A361TRP00.0770.0059.494-0.081-0.0810.0000.0000.0000.000
172A361TRP0-0.1050.08710.435-0.004-0.0040.0000.0000.0000.000
173A362LYS00.110-0.08111.760-0.015-0.0150.0000.0000.0000.000
174A362LYS10.7881.02014.0650.1460.1460.0000.0000.0000.000
175A363GLU00.036-0.12115.188-0.013-0.0130.0000.0000.0000.000
176A363GLU-1-0.961-0.84617.997-0.138-0.1380.0000.0000.0000.000
177A364GLU00.033-0.12717.717-0.005-0.0050.0000.0000.0000.000
178A364GLU-1-0.985-0.83519.585-0.062-0.0620.0000.0000.0000.000
179A365GLU00.097-0.10014.4400.0250.0250.0000.0000.0000.000
180A365GLU-1-0.886-0.79712.642-0.149-0.1490.0000.0000.0000.000
181A366VAL0-0.099-0.14311.9710.0040.0040.0000.0000.0000.000
182A366VAL00.0380.02711.204-0.011-0.0110.0000.0000.0000.000