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: NZ35Q

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 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 182
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -796422.151997
FMO2-HF: Nuclear repulsion 756112.764671
FMO2-HF: Total energy -40309.387326
FMO2-MP2: Total energy -40427.603142


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.
-1.7251.3965.458-4.405-4.175-0.023
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 : 0.066 / q_NPA : 0.020
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].
3A273THR0-0.0270.0934.1420.0730.5230.001-0.189-0.2620.000
4A274HIS00.067-0.1153.152-0.3741.3860.010-0.953-0.8170.004
5A274HIS0-0.0940.1084.172-0.109-0.023-0.001-0.020-0.0650.000
6A275LEU00.133-0.0705.029-0.649-0.632-0.002-0.005-0.0110.000
7A275LEU0-0.1130.0919.3100.0470.0470.0000.0000.0000.000
8A276TRP00.113-0.0937.351-0.123-0.1230.0000.0000.0000.000
9A276TRP0-0.0430.0956.735-0.041-0.0410.0000.0000.0000.000
10A277GLU00.091-0.1083.0501.2070.3750.1950.808-0.171-0.001
11A277GLU-1-0.875-0.8052.340-2.519-1.5555.189-3.757-2.396-0.025
12A278PHE00.144-0.0224.335-0.199-0.147-0.001-0.012-0.0380.000
13A278PHE0-0.1160.0645.6250.1020.1020.0000.0000.0000.000
14A279ILE00.017-0.1175.6000.1800.1800.0000.0000.0000.000
15A279ILE0-0.1130.0679.0520.0280.0280.0000.0000.0000.000
16A280ARG00.176-0.0877.4780.1310.1310.0000.0000.0000.000
17A280ARG10.6790.9782.8790.2410.6140.066-0.192-0.248-0.001
18A281ASP00.105-0.0956.0710.2760.2760.0000.0000.0000.000
19A281ASP-1-0.961-0.8023.991-2.507-2.2560.001-0.085-0.1670.000
20A282ILE00.111-0.0857.2120.1220.1220.0000.0000.0000.000
21A282ILE0-0.1140.0669.2340.0280.0280.0000.0000.0000.000
22A283LEU00.014-0.12310.4050.0860.0860.0000.0000.0000.000
23A283LEU0-0.0900.09311.3820.0090.0090.0000.0000.0000.000
24A284ILE00.028-0.09810.5710.0860.0860.0000.0000.0000.000
25A284ILE0-0.1060.0918.1290.0050.0050.0000.0000.0000.000
26A285HIS00.049-0.07111.9580.0430.0430.0000.0000.0000.000
27A285HIS10.7200.9709.0890.5150.5150.0000.0000.0000.000
28A286PRO00.087-0.09812.909-0.002-0.0020.0000.0000.0000.000
29A287GLU00.048-0.00216.2090.0120.0120.0000.0000.0000.000
30A287GLU-1-0.818-0.75914.275-0.317-0.3170.0000.0000.0000.000
31A288LEU00.031-0.11814.1740.0410.0410.0000.0000.0000.000
32A288LEU0-0.0740.09612.223-0.012-0.0120.0000.0000.0000.000
33A289ASN00.163-0.06915.101-0.032-0.0320.0000.0000.0000.000
34A289ASN0-0.1690.06814.8050.0130.0130.0000.0000.0000.000
35A290GLU00.134-0.04316.1640.0270.0270.0000.0000.0000.000
36A290GLU-1-0.994-0.84017.898-0.180-0.1800.0000.0000.0000.000
37A291GLY00.050-0.10618.9780.0140.0140.0000.0000.0000.000
38A292LEU00.048-0.01316.0430.0290.0290.0000.0000.0000.000
39A292LEU0-0.0730.10014.258-0.009-0.0090.0000.0000.0000.000
40A293MET00.058-0.12415.4850.0200.0200.0000.0000.0000.000
41A293MET0-0.0870.09611.4380.0010.0010.0000.0000.0000.000
42A294LYS00.070-0.05116.847-0.005-0.0050.0000.0000.0000.000
43A294LYS10.8201.01719.6110.1800.1800.0000.0000.0000.000
44A295TRP00.079-0.11317.869-0.008-0.0080.0000.0000.0000.000
45A295TRP0-0.0490.12412.7640.0080.0080.0000.0000.0000.000
46A296GLU00.011-0.12618.5310.0140.0140.0000.0000.0000.000
47A296GLU-1-0.855-0.79020.804-0.157-0.1570.0000.0000.0000.000
48A297ASN00.131-0.06020.2610.0130.0130.0000.0000.0000.000
49A297ASN0-0.1180.05121.964-0.003-0.0030.0000.0000.0000.000
50A298ARG00.080-0.11618.051-0.009-0.0090.0000.0000.0000.000
51A298ARG10.8201.06114.4130.2470.2470.0000.0000.0000.000
52A299HIS00.135-0.07418.098-0.016-0.0160.0000.0000.0000.000
53A299HIS0-0.0510.12022.156-0.003-0.0030.0000.0000.0000.000
54A300GLU00.005-0.14220.1260.0030.0030.0000.0000.0000.000
55A300GLU-1-0.963-0.83621.290-0.124-0.1240.0000.0000.0000.000
56A301GLY00.022-0.07616.312-0.003-0.0030.0000.0000.0000.000
57A302VAL00.116-0.01516.398-0.028-0.0280.0000.0000.0000.000
58A302VAL0-0.0870.11920.2610.0020.0020.0000.0000.0000.000
59A303PHE00.056-0.09015.8950.0150.0150.0000.0000.0000.000
60A303PHE0-0.0580.11013.255-0.020-0.0200.0000.0000.0000.000
61A304LYS00.104-0.09017.3960.0070.0070.0000.0000.0000.000
62A304LYS10.7891.00920.3110.1670.1670.0000.0000.0000.000
63A305PHE00.052-0.09017.403-0.019-0.0190.0000.0000.0000.000
64A305PHE0-0.0990.05613.978-0.004-0.0040.0000.0000.0000.000
65A306LEU00.061-0.11618.2490.0230.0230.0000.0000.0000.000
66A306LEU0-0.0950.11819.9020.0040.0040.0000.0000.0000.000
67A307ARG00.104-0.08419.1600.0240.0240.0000.0000.0000.000
68A307ARG10.7210.99019.4570.1900.1900.0000.0000.0000.000
69A308SER00.044-0.05818.425-0.032-0.0320.0000.0000.0000.000
70A308SER0-0.0280.05120.1450.0060.0060.0000.0000.0000.000
71A309GLU00.125-0.11518.027-0.035-0.0350.0000.0000.0000.000
72A309GLU-1-0.866-0.77621.003-0.183-0.1830.0000.0000.0000.000
73A310ALA00.117-0.07818.743-0.006-0.0060.0000.0000.0000.000
74A310ALA0-0.0440.11118.9260.0030.0030.0000.0000.0000.000
75A311VAL00.036-0.11614.774-0.008-0.0080.0000.0000.0000.000
76A311VAL0-0.0690.10912.841-0.007-0.0070.0000.0000.0000.000
77A312ALA00.086-0.09413.902-0.079-0.0790.0000.0000.0000.000
78A312ALA0-0.0650.10317.0670.0080.0080.0000.0000.0000.000
79A313GLN00.052-0.10515.204-0.025-0.0250.0000.0000.0000.000
80A313GLN0-0.1180.08617.7990.0150.0150.0000.0000.0000.000
81A314LEU00.129-0.09013.4610.0330.0330.0000.0000.0000.000
82A314LEU0-0.0660.11912.573-0.011-0.0110.0000.0000.0000.000
83A315TRP00.098-0.08810.753-0.045-0.0450.0000.0000.0000.000
84A315TRP0-0.0520.0976.8790.0480.0480.0000.0000.0000.000
85A316GLY00.005-0.11711.768-0.001-0.0010.0000.0000.0000.000
86A317GLN00.1000.01514.2520.0460.0460.0000.0000.0000.000
87A317GLN0-0.0880.09513.796-0.030-0.0300.0000.0000.0000.000
88A318LYS00.057-0.0999.5840.1150.1150.0000.0000.0000.000
89A318LYS10.8521.0735.9620.8610.8610.0000.0000.0000.000
90A319LYS00.014-0.10110.4290.0940.0940.0000.0000.0000.000
91A319LYS10.7781.0317.7180.4780.4780.0000.0000.0000.000
92A320LYS00.041-0.08911.9770.0430.0430.0000.0000.0000.000
93A320LYS10.8581.06013.684-0.087-0.0870.0000.0000.0000.000
94A321ASN00.202-0.08015.3030.0370.0370.0000.0000.0000.000
95A321ASN0-0.1450.06315.8940.0080.0080.0000.0000.0000.000
96A322SER00.079-0.08717.354-0.037-0.0370.0000.0000.0000.000
97A322SER0-0.0180.09920.7180.0060.0060.0000.0000.0000.000
98A323ASN00.061-0.04119.811-0.002-0.0020.0000.0000.0000.000
99A323ASN0-0.1230.05721.2480.0030.0030.0000.0000.0000.000
100A324MET00.118-0.10216.8470.0190.0190.0000.0000.0000.000
101A324MET0-0.0980.11214.1950.0010.0010.0000.0000.0000.000
102A325THR0-0.001-0.05718.309-0.001-0.0010.0000.0000.0000.000
103A325THR0-0.0120.06521.2680.0000.0000.0000.0000.0000.000
104A326TYR00.180-0.08918.052-0.026-0.0260.0000.0000.0000.000
105A326TYR0-0.0370.12717.2670.0110.0110.0000.0000.0000.000
106A327GLU00.068-0.09818.853-0.021-0.0210.0000.0000.0000.000
107A327GLU-1-0.931-0.82022.604-0.138-0.1380.0000.0000.0000.000
108A328LYS00.091-0.10519.0990.0010.0010.0000.0000.0000.000
109A328LYS10.7961.03818.5500.1380.1380.0000.0000.0000.000
110A329LEU00.100-0.09015.1200.0000.0000.0000.0000.0000.000
111A329LEU0-0.0780.11212.794-0.003-0.0030.0000.0000.0000.000
112A330SER00.008-0.11215.361-0.036-0.0360.0000.0000.0000.000
113A330SER0-0.0520.08518.9960.0120.0120.0000.0000.0000.000
114A331ARG00.060-0.11017.7550.0010.0010.0000.0000.0000.000
115A331ARG10.8181.06118.9500.1330.1330.0000.0000.0000.000
116A332ALA00.097-0.10714.2790.0400.0400.0000.0000.0000.000
117A332ALA0-0.0590.11513.327-0.010-0.0100.0000.0000.0000.000
118A333MET00.072-0.10514.087-0.013-0.0130.0000.0000.0000.000
119A333MET0-0.0880.10512.792-0.025-0.0250.0000.0000.0000.000
120A334ARG00.097-0.06615.0740.0020.0020.0000.0000.0000.000
121A334ARG10.8020.99919.5890.1610.1610.0000.0000.0000.000
122A335TYR0-0.011-0.12116.4760.0220.0220.0000.0000.0000.000
123A335TYR0-0.0640.09315.7350.0040.0040.0000.0000.0000.000
124A336TYR00.008-0.11714.0500.0320.0320.0000.0000.0000.000
125A336TYR0-0.0340.1099.337-0.065-0.0650.0000.0000.0000.000
126A337TYR00.119-0.05015.1030.0010.0010.0000.0000.0000.000
127A337TYR0-0.0590.08318.3400.0080.0080.0000.0000.0000.000
128A338LYS00.131-0.05518.4760.0070.0070.0000.0000.0000.000
129A338LYS10.8631.06118.9290.0610.0610.0000.0000.0000.000
130A339ARG00.116-0.07115.1260.0190.0190.0000.0000.0000.000
131A339ARG10.8531.04010.3210.1300.1300.0000.0000.0000.000
132A340GLU00.055-0.06515.7550.0020.0020.0000.0000.0000.000
133A340GLU-1-0.884-0.77817.662-0.077-0.0770.0000.0000.0000.000
134A341ILE00.188-0.05612.3170.0150.0150.0000.0000.0000.000
135A341ILE0-0.1420.06110.024-0.003-0.0030.0000.0000.0000.000
136A342LEU0-0.006-0.12713.164-0.037-0.0370.0000.0000.0000.000
137A342LEU0-0.0850.06912.441-0.006-0.0060.0000.0000.0000.000
138A343GLU00.074-0.12415.4160.0180.0180.0000.0000.0000.000
139A343GLU-1-0.876-0.75718.521-0.133-0.1330.0000.0000.0000.000
140A344ARG00.093-0.11319.069-0.017-0.0170.0000.0000.0000.000
141A344ARG10.8331.04721.6280.1190.1190.0000.0000.0000.000
142A345VAL00.063-0.09621.1620.0110.0110.0000.0000.0000.000
143A345VAL0-0.1050.11220.4090.0000.0000.0000.0000.0000.000
144A346ASP00.041-0.14122.963-0.009-0.0090.0000.0000.0000.000
145A346ASP-1-0.940-0.82426.489-0.104-0.1040.0000.0000.0000.000
146A347GLY00.010-0.09526.3280.0020.0020.0000.0000.0000.000
147A348ARG0-0.016-0.03425.0770.0070.0070.0000.0000.0000.000
148A348ARG10.8591.06924.3450.1340.1340.0000.0000.0000.000
149A349ARG00.207-0.05923.680-0.013-0.0130.0000.0000.0000.000
150A349ARG10.8891.06025.3600.1150.1150.0000.0000.0000.000
151A350LEU0-0.016-0.09720.5350.0010.0010.0000.0000.0000.000
152A350LEU0-0.0620.09520.3910.0000.0000.0000.0000.0000.000
153A351VAL00.155-0.10719.520-0.028-0.0280.0000.0000.0000.000
154A351VAL0-0.0950.10420.7480.0040.0040.0000.0000.0000.000
155A352TYR00.032-0.07016.7540.0210.0210.0000.0000.0000.000
156A352TYR0-0.1250.04416.130-0.006-0.0060.0000.0000.0000.000
157A353LYS00.168-0.09716.947-0.008-0.0080.0000.0000.0000.000
158A353LYS10.7831.03318.0420.1470.1470.0000.0000.0000.000
159A354PHE00.033-0.09513.7710.0060.0060.0000.0000.0000.000
160A354PHE0-0.1020.0979.703-0.011-0.0110.0000.0000.0000.000
161A355GLY00.034-0.09214.2310.0250.0250.0000.0000.0000.000
162A356LYS00.1230.04314.691-0.022-0.0220.0000.0000.0000.000
163A356LYS10.7991.00617.8640.0760.0760.0000.0000.0000.000
164A357ASN00.107-0.04913.9630.0110.0110.0000.0000.0000.000
165A357ASN0-0.2020.01513.4460.0140.0140.0000.0000.0000.000
166A358SER0-0.007-0.10210.3580.0180.0180.0000.0000.0000.000
167A358SER0-0.0660.04410.265-0.021-0.0210.0000.0000.0000.000
168A359SER0-0.003-0.0989.3070.0220.0220.0000.0000.0000.000
169A359SER0-0.0200.0799.428-0.008-0.0080.0000.0000.0000.000
170A360GLY00.056-0.0818.663-0.073-0.0730.0000.0000.0000.000
171A361TRP00.1070.0259.669-0.075-0.0750.0000.0000.0000.000
172A361TRP0-0.0870.08810.567-0.001-0.0010.0000.0000.0000.000
173A362LYS00.082-0.08511.787-0.008-0.0080.0000.0000.0000.000
174A362LYS10.8141.03214.9820.1530.1530.0000.0000.0000.000
175A363GLU00.038-0.13315.254-0.019-0.0190.0000.0000.0000.000
176A363GLU-1-0.943-0.83618.283-0.150-0.1500.0000.0000.0000.000
177A364GLU00.004-0.13317.610-0.002-0.0020.0000.0000.0000.000
178A364GLU-1-0.972-0.83219.515-0.085-0.0850.0000.0000.0000.000
179A365GLU00.133-0.09514.4970.0230.0230.0000.0000.0000.000
180A365GLU-1-0.939-0.81612.697-0.189-0.1890.0000.0000.0000.000
181A366VAL0-0.114-0.14512.0360.0040.0040.0000.0000.0000.000
182A366VAL00.0290.02511.137-0.010-0.0100.0000.0000.0000.000