FMODB

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

Last updated: 2025-04-23

All entries: 37539

Number of unique PDB entries: 7791

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FMODB ID: 228NR

Calculation Name: 1J6R-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1J6R

Chain ID: A

ChEMBL ID:

UniProt ID: Q9WYA6

Base Structure: X-ray

Registration Date: 2023-06-19

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
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 197
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2188657.847151
FMO2-HF: Nuclear repulsion 2111401.673055
FMO2-HF: Total energy -77256.174096
FMO2-MP2: Total energy -77484.546628


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:1:HIS)


Summations of interaction energy for fragment #1(A:1:HIS)
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.
-13.377-10.1220.359-1.131-2.484-0.002
Interaction energy analysis for fragmet #1(A:1:HIS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.004 / q_NPA : -0.012
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].
3A3MET0-0.030-0.0022.501-1.1631.5920.359-0.981-2.133-0.001
4A4PRO0-0.0170.0095.616-0.074-0.0740.0000.0000.0000.000
5A5LYS10.8760.9087.7413.5843.5840.0000.0000.0000.000
6A6VAL0-0.043-0.01811.2990.1240.1240.0000.0000.0000.000
7A7GLU-1-0.916-0.95214.685-1.350-1.3500.0000.0000.0000.000
8A8ILE0-0.071-0.03917.2260.0960.0960.0000.0000.0000.000
9A9ALA00.0430.02120.705-0.012-0.0120.0000.0000.0000.000
10A10PRO00.0560.01023.7520.0330.0330.0000.0000.0000.000
11A11SER0-0.006-0.01125.6900.0170.0170.0000.0000.0000.000
12A12GLU-1-0.926-0.94225.328-0.277-0.2770.0000.0000.0000.000
13A13ILE0-0.073-0.02522.9270.0210.0210.0000.0000.0000.000
14A14LYS10.8400.92326.9160.1760.1760.0000.0000.0000.000
15A15ILE00.0300.01829.0910.0100.0100.0000.0000.0000.000
16A16PRO0-0.015-0.01131.1950.0080.0080.0000.0000.0000.000
17A17ASP-1-0.756-0.88934.404-0.151-0.1510.0000.0000.0000.000
18A18ASN00.013-0.00937.562-0.005-0.0050.0000.0000.0000.000
19A19VAL0-0.0330.00231.7030.0060.0060.0000.0000.0000.000
20A20LEU00.0340.02033.661-0.005-0.0050.0000.0000.0000.000
21A21LYS10.8400.90635.3470.1110.1110.0000.0000.0000.000
22A22ALA0-0.024-0.01637.0770.0020.0020.0000.0000.0000.000
23A23LYS10.8100.91230.2880.2060.2060.0000.0000.0000.000
24A24LEU0-0.055-0.02534.836-0.007-0.0070.0000.0000.0000.000
25A25GLY00.0220.01538.0460.0020.0020.0000.0000.0000.000
26A26PHE0-0.011-0.00641.0340.0080.0080.0000.0000.0000.000
27A27GLY00.0210.00141.3930.0020.0020.0000.0000.0000.000
28A28GLY0-0.040-0.01342.2460.0060.0060.0000.0000.0000.000
29A29ALA00.0190.02144.5280.0040.0040.0000.0000.0000.000
30A30GLU-1-0.906-0.95144.892-0.080-0.0800.0000.0000.0000.000
31A31GLU-1-0.896-0.95744.413-0.127-0.1270.0000.0000.0000.000
32A32ILE0-0.078-0.02441.2830.0010.0010.0000.0000.0000.000
33A33PRO00.0130.01044.5660.0010.0010.0000.0000.0000.000
34A34GLU-1-0.911-0.96946.700-0.111-0.1110.0000.0000.0000.000
35A35GLU-1-0.992-0.99248.257-0.119-0.1190.0000.0000.0000.000
36A36PHE00.016-0.00443.520-0.008-0.0080.0000.0000.0000.000
37A37ARG10.9460.97843.0380.1410.1410.0000.0000.0000.000
38A38LYS10.9840.97442.3050.1520.1520.0000.0000.0000.000
39A39THR00.0210.01640.907-0.010-0.0100.0000.0000.0000.000
40A40VAL00.0460.04137.614-0.014-0.0140.0000.0000.0000.000
41A41ASN0-0.007-0.00537.515-0.003-0.0030.0000.0000.0000.000
42A42ARG10.8540.92337.1800.2250.2250.0000.0000.0000.000
43A43ALA00.0370.00835.290-0.017-0.0170.0000.0000.0000.000
44A44TYR0-0.019-0.01631.349-0.021-0.0210.0000.0000.0000.000
45A45GLU-1-0.905-0.97332.402-0.286-0.2860.0000.0000.0000.000
46A46GLU-1-0.849-0.89232.692-0.319-0.3190.0000.0000.0000.000
47A47LEU0-0.026-0.01827.106-0.028-0.0280.0000.0000.0000.000
48A48LEU0-0.050-0.02127.962-0.039-0.0390.0000.0000.0000.000
49A49ASP-1-0.902-0.93627.920-0.438-0.4380.0000.0000.0000.000
50A50ALA0-0.029-0.01026.951-0.034-0.0340.0000.0000.0000.000
51A51ALA0-0.062-0.03124.002-0.054-0.0540.0000.0000.0000.000
52A52LYS10.9040.93019.7330.7440.7440.0000.0000.0000.000
53A53PRO0-0.022-0.01119.094-0.073-0.0730.0000.0000.0000.000
54A54VAL00.0390.03213.224-0.031-0.0310.0000.0000.0000.000
55A55VAL0-0.058-0.03014.8090.0620.0620.0000.0000.0000.000
56A56LEU00.0300.0208.718-0.079-0.0790.0000.0000.0000.000
57A57TRP0-0.036-0.0289.8730.1930.1930.0000.0000.0000.000
58A58ARG10.9090.9414.463-2.391-2.156-0.001-0.027-0.2080.000
59A59ASP-1-0.815-0.8577.6030.5450.5450.0000.0000.0000.000
60A60PHE00.0050.0027.2350.5450.5450.0000.0000.0000.000
61A61GLU-1-0.845-0.9249.4081.3531.3530.0000.0000.0000.000
62A62VAL0-0.054-0.04311.6900.0960.0960.0000.0000.0000.000
63A63ASP-1-0.933-0.97214.5170.6840.6840.0000.0000.0000.000
64A64GLY0-0.0270.00817.889-0.024-0.0240.0000.0000.0000.000
65A65SER0-0.055-0.02417.249-0.101-0.1010.0000.0000.0000.000
66A66LEU00.0290.00817.9860.0090.0090.0000.0000.0000.000
67A67SER0-0.051-0.03516.312-0.099-0.0990.0000.0000.0000.000
68A68PHE00.0190.00110.9150.0790.0790.0000.0000.0000.000
69A69ASP-1-0.845-0.9056.3521.9391.9390.0000.0000.0000.000
70A70ASP-1-0.791-0.87210.0030.1140.1140.0000.0000.0000.000
71A71MET0-0.0040.01811.337-0.211-0.2110.0000.0000.0000.000
72A72ARG10.9480.95314.991-0.362-0.3620.0000.0000.0000.000
73A73LEU0-0.036-0.01016.473-0.073-0.0730.0000.0000.0000.000
74A74THR0-0.038-0.02919.9940.0200.0200.0000.0000.0000.000
75A75GLY00.0110.01623.6540.0020.0020.0000.0000.0000.000
76A76GLU-1-0.897-0.95326.2050.1420.1420.0000.0000.0000.000
77A77LEU0-0.052-0.03325.0910.0140.0140.0000.0000.0000.000
78A78ALA00.010-0.00522.1000.0080.0080.0000.0000.0000.000
79A79THR00.0390.02423.3650.0360.0360.0000.0000.0000.000
80A80LYS10.9300.99125.436-0.112-0.1120.0000.0000.0000.000
81A81HIS0-0.029-0.02723.7730.0160.0160.0000.0000.0000.000
82A82LEU00.0190.00418.4910.0130.0130.0000.0000.0000.000
83A83SER0-0.0410.00120.4380.0590.0590.0000.0000.0000.000
84A84GLY00.0130.01122.247-0.020-0.0200.0000.0000.0000.000
85A85SER0-0.028-0.03218.678-0.004-0.0040.0000.0000.0000.000
86A86LYS10.9330.97214.812-1.050-1.0500.0000.0000.0000.000
87A87ILE00.014-0.00612.0730.1350.1350.0000.0000.0000.000
88A88ILE0-0.015-0.00113.119-0.151-0.1510.0000.0000.0000.000
89A89THR0-0.040-0.02811.6320.1190.1190.0000.0000.0000.000
90A90VAL0-0.010-0.0029.672-0.029-0.0290.0000.0000.0000.000
91A91PHE0-0.005-0.02811.211-0.123-0.1230.0000.0000.0000.000
92A92LEU00.0230.01011.6450.0700.0700.0000.0000.0000.000
93A93ALA0-0.0010.00813.893-0.092-0.0920.0000.0000.0000.000
94A94THR00.018-0.01615.5480.0490.0490.0000.0000.0000.000
95A95LEU00.0300.01118.084-0.003-0.0030.0000.0000.0000.000
96A96GLY00.0640.04219.022-0.001-0.0010.0000.0000.0000.000
97A97LYS10.8550.88619.9580.7630.7630.0000.0000.0000.000
98A98LYN00.0600.04322.1740.0270.0270.0000.0000.0000.000
99A99VAL00.0030.01324.1080.0520.0520.0000.0000.0000.000
100A100ASP-1-0.773-0.88324.119-0.458-0.4580.0000.0000.0000.000
101A101GLU-1-0.848-0.90725.652-0.565-0.5650.0000.0000.0000.000
102A102LYS10.8610.93228.5560.4010.4010.0000.0000.0000.000
103A103ILE0-0.039-0.02028.4140.0280.0280.0000.0000.0000.000
104A104GLU-1-0.792-0.87930.929-0.284-0.2840.0000.0000.0000.000
105A105GLU-1-0.914-0.94432.537-0.309-0.3090.0000.0000.0000.000
106A106TYR0-0.063-0.07134.5100.0230.0230.0000.0000.0000.000
107A107PHE00.0380.02133.5240.0160.0160.0000.0000.0000.000
108A108ARG10.7820.88132.5940.3360.3360.0000.0000.0000.000
109A109LYS10.7830.89737.3170.2860.2860.0000.0000.0000.000
110A110GLY00.0230.02140.5580.0110.0110.0000.0000.0000.000
111A111GLU-1-0.918-0.94939.840-0.207-0.2070.0000.0000.0000.000
112A112ASP-1-0.834-0.94239.092-0.209-0.2090.0000.0000.0000.000
113A113LEU0-0.039-0.01638.903-0.003-0.0030.0000.0000.0000.000
114A114LEU00.0080.01136.639-0.003-0.0030.0000.0000.0000.000
115A115ALA00.0560.02735.054-0.012-0.0120.0000.0000.0000.000
116A116PHE0-0.033-0.00534.244-0.014-0.0140.0000.0000.0000.000
117A117PHE00.012-0.01735.107-0.002-0.0020.0000.0000.0000.000
118A118ILE00.0050.01530.771-0.006-0.0060.0000.0000.0000.000
119A119ASP-1-0.753-0.85830.069-0.324-0.3240.0000.0000.0000.000
120A120GLY00.0330.02030.111-0.010-0.0100.0000.0000.0000.000
121A121ILE00.002-0.01930.3740.0040.0040.0000.0000.0000.000
122A122ALA00.0060.01726.821-0.012-0.0120.0000.0000.0000.000
123A123SER0-0.038-0.03826.150-0.026-0.0260.0000.0000.0000.000
124A124GLU-1-0.849-0.92126.502-0.207-0.2070.0000.0000.0000.000
125A125MET0-0.0100.00924.624-0.009-0.0090.0000.0000.0000.000
126A126VAL00.0250.00720.492-0.015-0.0150.0000.0000.0000.000
127A127GLU-1-0.747-0.83321.887-0.224-0.2240.0000.0000.0000.000
128A128TYR0-0.018-0.04123.3410.0310.0310.0000.0000.0000.000
129A129ALA00.0140.02720.4380.0100.0100.0000.0000.0000.000
130A130LEU00.0280.01317.300-0.005-0.0050.0000.0000.0000.000
131A131ARG10.7610.85519.9450.2020.2020.0000.0000.0000.000
132A132LYS10.9050.95521.9370.3330.3330.0000.0000.0000.000
133A133VAL00.0310.01815.8020.0310.0310.0000.0000.0000.000
134A134ASP-1-0.797-0.86618.749-0.002-0.0020.0000.0000.0000.000
135A135ALA00.0340.00519.6690.0580.0580.0000.0000.0000.000
136A136GLU-1-0.922-0.95819.520-0.091-0.0910.0000.0000.0000.000
137A137LEU0-0.058-0.03014.5100.0740.0740.0000.0000.0000.000
138A138ARG10.7280.82518.2720.0370.0370.0000.0000.0000.000
139A139MET0-0.034-0.00521.2950.0370.0370.0000.0000.0000.000
140A140LYS10.9220.96216.452-0.134-0.1340.0000.0000.0000.000
141A141ARG10.7880.88612.155-0.352-0.3520.0000.0000.0000.000
142A142SER00.0660.02719.9140.0030.0030.0000.0000.0000.000
143A143ASN0-0.083-0.03318.696-0.038-0.0380.0000.0000.0000.000
144A144LEU0-0.042-0.02117.2380.0460.0460.0000.0000.0000.000
145A145GLU-1-0.890-0.92921.6850.1860.1860.0000.0000.0000.000
146A146GLY0-0.018-0.00720.6700.0320.0320.0000.0000.0000.000
147A147SER0-0.025-0.03220.974-0.016-0.0160.0000.0000.0000.000
148A148PHE00.0240.00822.779-0.029-0.0290.0000.0000.0000.000
149A149ARG10.8540.94719.7310.1630.1630.0000.0000.0000.000
150A150ILE0-0.023-0.01520.675-0.012-0.0120.0000.0000.0000.000
151A151SER00.0460.00419.9110.0040.0040.0000.0000.0000.000
152A152PRO0-0.022-0.02718.0990.0350.0350.0000.0000.0000.000
153A153GLY0-0.0020.00421.182-0.034-0.0340.0000.0000.0000.000
154A154TYR0-0.036-0.00324.467-0.001-0.0010.0000.0000.0000.000
155A155GLY00.016-0.00126.0490.0210.0210.0000.0000.0000.000
156A156ASP-1-0.817-0.91227.6600.0610.0610.0000.0000.0000.000
157A157LEU0-0.071-0.01520.1600.0260.0260.0000.0000.0000.000
158A158PRO00.0410.01121.779-0.032-0.0320.0000.0000.0000.000
159A159LEU00.0820.03121.405-0.003-0.0030.0000.0000.0000.000
160A160SER0-0.024-0.01120.840-0.032-0.0320.0000.0000.0000.000
161A161LEU0-0.007-0.01116.670-0.013-0.0130.0000.0000.0000.000
162A162ASN00.0280.01515.807-0.034-0.0340.0000.0000.0000.000
163A163LYS10.9270.96015.5390.1970.1970.0000.0000.0000.000
164A164LYS10.7710.88013.224-0.261-0.2610.0000.0000.0000.000
165A165ILE00.008-0.01011.173-0.033-0.0330.0000.0000.0000.000
166A166ALA00.0180.00910.707-0.202-0.2020.0000.0000.0000.000
167A167GLU-1-0.812-0.89010.668-1.066-1.0660.0000.0000.0000.000
168A168ILE0-0.063-0.0285.650-0.175-0.1750.0000.0000.0000.000
169A169PHE0-0.029-0.0226.004-0.704-0.7040.0000.0000.0000.000
170A170LYS10.8440.9197.9730.7710.7710.0000.0000.0000.000
171A171GLU-1-0.918-0.9555.525-3.209-3.2090.0000.0000.0000.000
172A172GLU-1-0.949-0.9513.904-9.624-9.3590.001-0.123-0.143-0.001
173A173VAL0-0.017-0.0297.6050.5770.5770.0000.0000.0000.000
174A174ASP-1-0.917-0.93811.222-1.456-1.4560.0000.0000.0000.000
175A175VAL0-0.040-0.02713.2410.2080.2080.0000.0000.0000.000
176A176ASN0-0.048-0.02314.185-0.070-0.0700.0000.0000.0000.000
177A177VAL00.004-0.00316.6540.0510.0510.0000.0000.0000.000
178A178ILE0-0.021-0.00419.2750.0470.0470.0000.0000.0000.000
179A179GLU-1-0.856-0.90821.518-0.386-0.3860.0000.0000.0000.000
180A180ASP-1-0.869-0.95223.080-0.254-0.2540.0000.0000.0000.000
181A181SER0-0.065-0.03324.9520.0320.0320.0000.0000.0000.000
182A182TYR0-0.050-0.04720.6860.0260.0260.0000.0000.0000.000
183A183VAL00.0010.00621.6140.0000.0000.0000.0000.0000.000
184A184LEU0-0.017-0.00516.618-0.025-0.0250.0000.0000.0000.000
185A185VAL0-0.0080.02419.2900.0300.0300.0000.0000.0000.000
186A186PRO00.070-0.00318.021-0.075-0.0750.0000.0000.0000.000
187A187ARG10.8420.91820.6420.3640.3640.0000.0000.0000.000
188A188LYS10.7340.87322.9780.3740.3740.0000.0000.0000.000
189A189THR00.029-0.00516.804-0.084-0.0840.0000.0000.0000.000
190A190ILE0-0.045-0.00618.5490.0680.0680.0000.0000.0000.000
191A191THR00.0440.02415.115-0.100-0.1000.0000.0000.0000.000
192A192ALA0-0.032-0.01215.9560.0610.0610.0000.0000.0000.000
193A193PHE00.0170.02014.182-0.032-0.0320.0000.0000.0000.000
194A194VAL0-0.010-0.01116.178-0.027-0.0270.0000.0000.0000.000
195A195GLY00.0300.02416.3320.0660.0660.0000.0000.0000.000
196A196TRP00.0150.00215.336-0.061-0.0610.0000.0000.0000.000
197A197ARG10.9220.95718.770-0.216-0.2160.0000.0000.0000.000