FMODB

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

Last updated: 2025-07-23

All entries: 44592

Number of unique PDB entries: 7794

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FMODB ID: J2Z69

Calculation Name: 4H6J-A-Xray540

Preferred Name: Aryl hydrocarbon receptor nuclear translocator

Target Type: SINGLE PROTEIN

Ligand Name:

ligand 3-letter code:

PDB ID: 4H6J

Chain ID: A

ChEMBL ID: CHEMBL5618

UniProt ID: P27540

Base Structure: X-ray

Registration Date: 2025-07-10

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
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 204
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -874087.967418
FMO2-HF: Nuclear repulsion 829654.475415
FMO2-HF: Total energy -44433.492003
FMO2-MP2: Total energy -44558.921434


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:238:ASP)


Summations of interaction energy for fragment #1(A:238:ASP)
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.
-18.473-24.01916.982-6.624-4.8090.053
Interaction energy analysis for fragmet #1(A:238:ASP)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.100 / q_NPA : 0.087
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].
4A239SER0-0.0730.0443.7071.0701.421-0.001-0.188-0.1620.000
5A240LYS00.074-0.0923.3280.9402.1330.004-0.560-0.6370.001
6A240LYS10.8671.0663.7700.6910.7920.000-0.018-0.0830.000
7A241THR00.061-0.0693.522-2.030-3.0490.1031.518-0.6010.006
8A241THR0-0.1020.0101.830-14.580-21.28916.836-7.078-3.0490.045
9A242PHE00.086-0.0774.541-1.272-1.1790.001-0.082-0.0110.000
10A242PHE0-0.0810.0958.468-0.226-0.2260.0000.0000.0000.000
11A243LEU00.096-0.0917.817-0.046-0.0460.0000.0000.0000.000
12A243LEU0-0.0710.0948.2320.0040.0040.0000.0000.0000.000
13A244SER0-0.007-0.07910.170-0.195-0.1950.0000.0000.0000.000
14A244SER0-0.0060.06313.9370.0590.0590.0000.0000.0000.000
15A245GLU00.064-0.11813.9200.0990.0990.0000.0000.0000.000
16A245GLU-1-0.908-0.75817.0560.6590.6590.0000.0000.0000.000
17A246HIS00.067-0.08817.279-0.030-0.0300.0000.0000.0000.000
18A246HIS0-0.0730.10416.9070.1280.1280.0000.0000.0000.000
19A247SER00.110-0.02520.4210.0060.0060.0000.0000.0000.000
20A247SER0-0.0540.03925.256-0.005-0.0050.0000.0000.0000.000
21A248LEU00.021-0.11423.3970.0400.0400.0000.0000.0000.000
22A248LEU0-0.0640.09524.782-0.008-0.0080.0000.0000.0000.000
23A249ASP00.034-0.10025.598-0.002-0.0020.0000.0000.0000.000
24A249ASP-1-0.831-0.78226.2480.3910.3910.0000.0000.0000.000
25A250MET00.097-0.08521.824-0.023-0.0230.0000.0000.0000.000
26A250MET0-0.1020.09618.581-0.004-0.0040.0000.0000.0000.000
27A251LYS00.092-0.11421.6300.0470.0470.0000.0000.0000.000
28A251LYS10.8251.02824.755-0.353-0.3530.0000.0000.0000.000
29A252PHE00.004-0.11619.8440.0120.0120.0000.0000.0000.000
30A252PHE0-0.0520.11215.7460.0250.0250.0000.0000.0000.000
31A253SER00.060-0.07420.246-0.070-0.0700.0000.0000.0000.000
32A253SER0-0.0620.02720.9410.0080.0080.0000.0000.0000.000
33A254TYR00.053-0.11117.388-0.076-0.0760.0000.0000.0000.000
34A254TYR0-0.0580.09412.8760.0490.0490.0000.0000.0000.000
35A255CYS00.128-0.12214.5090.0830.0830.0000.0000.0000.000
36A255CYS0-0.1340.13113.4970.0140.0140.0000.0000.0000.000
37A256ASP00.132-0.07410.432-0.248-0.2480.0000.0000.0000.000
38A256ASP-1-0.919-0.7838.2162.8072.8070.0000.0000.0000.000
39A257GLU00.127-0.11611.7390.0790.0790.0000.0000.0000.000
40A257GLU-1-0.997-0.83111.9320.4800.4800.0000.0000.0000.000
41A258ARG00.061-0.0987.960-0.383-0.3830.0000.0000.0000.000
42A258ARG10.7581.0023.368-5.973-5.5290.039-0.216-0.2660.001
43A259ILE00.055-0.1129.430-0.064-0.0640.0000.0000.0000.000
44A259ILE0-0.0690.08712.2940.0110.0110.0000.0000.0000.000
45A260THR00.002-0.12412.032-0.105-0.1050.0000.0000.0000.000
46A260THR0-0.0260.07614.0810.0160.0160.0000.0000.0000.000
47A261GLU00.028-0.10411.092-0.068-0.0680.0000.0000.0000.000
48A261GLU-1-1.036-0.8699.315-0.573-0.5730.0000.0000.0000.000
49A262LEU00.010-0.12810.284-0.245-0.2450.0000.0000.0000.000
50A262LEU0-0.1100.0917.0010.0490.0490.0000.0000.0000.000
51A263MET0-0.004-0.14511.452-0.059-0.0590.0000.0000.0000.000
52A263MET0-0.0650.09912.2320.0060.0060.0000.0000.0000.000
53A264GLY00.014-0.09714.945-0.048-0.0480.0000.0000.0000.000
54A265TYR00.050-0.01116.596-0.069-0.0690.0000.0000.0000.000
55A265TYR0-0.1060.06116.767-0.014-0.0140.0000.0000.0000.000
56A266GLU00.129-0.05716.5170.0760.0760.0000.0000.0000.000
57A266GLU-1-0.959-0.84119.1430.2630.2630.0000.0000.0000.000
58A267PRO00.030-0.10215.291-0.003-0.0030.0000.0000.0000.000
59A268GLU00.090-0.02417.9740.0280.0280.0000.0000.0000.000
60A268GLU-1-0.997-0.84221.0770.3020.3020.0000.0000.0000.000
61A269GLU0-0.003-0.13321.225-0.026-0.0260.0000.0000.0000.000
62A269GLU-1-0.844-0.78321.1170.3070.3070.0000.0000.0000.000
63A270LEU0-0.007-0.13919.728-0.049-0.0490.0000.0000.0000.000
64A270LEU0-0.0540.11717.1950.0160.0160.0000.0000.0000.000
65A271LEU00.079-0.10421.2560.0280.0280.0000.0000.0000.000
66A271LEU0-0.0820.12119.773-0.004-0.0040.0000.0000.0000.000
67A272GLY0-0.039-0.11922.636-0.046-0.0460.0000.0000.0000.000
68A273ARG00.054-0.04623.723-0.036-0.0360.0000.0000.0000.000
69A273ARG10.8221.06822.909-0.333-0.3330.0000.0000.0000.000
70A274SER00.080-0.05822.7140.0560.0560.0000.0000.0000.000
71A274SER0-0.0620.06424.6310.0000.0000.0000.0000.0000.000
72A275ILE00.053-0.08319.470-0.049-0.0490.0000.0000.0000.000
73A275ILE0-0.0790.11016.2240.0100.0100.0000.0000.0000.000
74A276TYR00.076-0.11920.7140.0120.0120.0000.0000.0000.000
75A276TYR0-0.1160.04823.049-0.012-0.0120.0000.0000.0000.000
76A277GLU00.009-0.13223.446-0.029-0.0290.0000.0000.0000.000
77A277GLU-1-0.900-0.80423.9240.3560.3560.0000.0000.0000.000
78A278TYR00.043-0.09120.466-0.050-0.0500.0000.0000.0000.000
79A278TYR0-0.0760.08619.7860.0150.0150.0000.0000.0000.000
80A279TYR00.062-0.08420.3320.0130.0130.0000.0000.0000.000
81A279TYR0-0.0090.11117.656-0.014-0.0140.0000.0000.0000.000
82A280HIS00.152-0.06121.212-0.036-0.0360.0000.0000.0000.000
83A280HIS0-0.1090.08321.8240.0030.0030.0000.0000.0000.000
84A281ALA00.132-0.07123.1800.0250.0250.0000.0000.0000.000
85A281ALA0-0.0980.09227.957-0.006-0.0060.0000.0000.0000.000
86A282LEU00.015-0.11126.0670.0040.0040.0000.0000.0000.000
87A282LEU0-0.0790.06825.528-0.004-0.0040.0000.0000.0000.000
88A283ASP00.051-0.08521.892-0.024-0.0240.0000.0000.0000.000
89A283ASP-1-0.832-0.79721.0900.3510.3510.0000.0000.0000.000
90A284SER00.075-0.08323.0550.0380.0380.0000.0000.0000.000
91A284SER0-0.0370.08724.7590.0000.0000.0000.0000.0000.000
92A285ASP00.084-0.09424.7870.0310.0310.0000.0000.0000.000
93A285ASP-1-0.960-0.84327.7330.2420.2420.0000.0000.0000.000
94A286HIS00.051-0.08123.970-0.001-0.0010.0000.0000.0000.000
95A286HIS0-0.0860.08619.6690.0050.0050.0000.0000.0000.000
96A287LEU00.053-0.10321.4020.0110.0110.0000.0000.0000.000
97A287LEU0-0.0640.12418.5270.0110.0110.0000.0000.0000.000
98A288THR00.087-0.07422.1770.0360.0360.0000.0000.0000.000
99A288THR0-0.0710.05026.106-0.007-0.0070.0000.0000.0000.000
100A289LYS00.072-0.10625.5120.0050.0050.0000.0000.0000.000
101A289LYS10.7301.00426.118-0.296-0.2960.0000.0000.0000.000
102A290THR00.017-0.11021.430-0.027-0.0270.0000.0000.0000.000
103A290THR0-0.0320.07119.3220.0160.0160.0000.0000.0000.000
104A291HIS00.101-0.07322.5650.0240.0240.0000.0000.0000.000
105A291HIS0-0.0200.13118.844-0.051-0.0510.0000.0000.0000.000
106A292HIS00.082-0.06723.3250.0040.0040.0000.0000.0000.000
107A292HIS0-0.0540.08527.608-0.005-0.0050.0000.0000.0000.000
108A293ASP00.090-0.11024.911-0.018-0.0180.0000.0000.0000.000
109A293ASP-1-0.912-0.78924.1880.3270.3270.0000.0000.0000.000
110A294MET00.126-0.10022.094-0.022-0.0220.0000.0000.0000.000
111A294MET0-0.1050.11520.2770.0380.0380.0000.0000.0000.000
112A295PHE00.032-0.12722.8450.0160.0160.0000.0000.0000.000
113A295PHE0-0.1080.09825.188-0.002-0.0020.0000.0000.0000.000
114A296THR00.002-0.08725.816-0.014-0.0140.0000.0000.0000.000
115A296THR0-0.0870.04827.319-0.013-0.0130.0000.0000.0000.000
116A297LYS0-0.025-0.10323.831-0.033-0.0330.0000.0000.0000.000
117A297LYS10.8341.02123.159-0.351-0.3510.0000.0000.0000.000
118A298GLY00.035-0.07522.5870.0010.0010.0000.0000.0000.000
119A299GLN00.119-0.00718.3880.0500.0500.0000.0000.0000.000
120A299GLN0-0.1250.06915.060-0.056-0.0560.0000.0000.0000.000
121A300VAL0-0.064-0.12117.832-0.079-0.0790.0000.0000.0000.000
122A300VAL0-0.0370.10318.501-0.008-0.0080.0000.0000.0000.000
123A301THR00.048-0.07515.1610.1190.1190.0000.0000.0000.000
124A301THR0-0.0350.06913.499-0.015-0.0150.0000.0000.0000.000
125A302THR0-0.019-0.10115.601-0.122-0.1220.0000.0000.0000.000
126A302THR0-0.0320.05515.3770.0620.0620.0000.0000.0000.000
127A303GLY00.025-0.04516.010-0.092-0.0920.0000.0000.0000.000
128A304GLN00.1310.03914.9260.1210.1210.0000.0000.0000.000
129A304GLN0-0.0830.07214.042-0.037-0.0370.0000.0000.0000.000
130A305TYR00.039-0.08615.623-0.084-0.0840.0000.0000.0000.000
131A305TYR0-0.1140.06214.122-0.052-0.0520.0000.0000.0000.000
132A306ARG00.096-0.09616.1290.0510.0510.0000.0000.0000.000
133A306ARG10.7461.00118.427-0.279-0.2790.0000.0000.0000.000
134A307MET00.165-0.07616.654-0.037-0.0370.0000.0000.0000.000
135A307MET0-0.0930.10315.7500.0590.0590.0000.0000.0000.000
136A308LEU00.056-0.12117.484-0.006-0.0060.0000.0000.0000.000
137A308LEU0-0.1340.10421.378-0.007-0.0070.0000.0000.0000.000
138A309ALA00.165-0.07417.5960.0630.0630.0000.0000.0000.000
139A309ALA0-0.0860.11116.642-0.006-0.0060.0000.0000.0000.000
140A310LYS00.096-0.08918.387-0.037-0.0370.0000.0000.0000.000
141A310LYS10.6860.99519.813-0.270-0.2700.0000.0000.0000.000
142A311ARG0-0.037-0.12720.229-0.026-0.0260.0000.0000.0000.000
143A311ARG10.8991.04821.525-0.110-0.1100.0000.0000.0000.000
144A312GLY0-0.001-0.08720.0330.0160.0160.0000.0000.0000.000
145A313GLY00.018-0.00320.574-0.028-0.0280.0000.0000.0000.000
146A314TYR00.0700.01619.1620.0330.0330.0000.0000.0000.000
147A314TYR0-0.0800.08419.470-0.024-0.0240.0000.0000.0000.000
148A315VAL00.094-0.10814.610-0.094-0.0940.0000.0000.0000.000
149A315VAL0-0.0720.13512.538-0.003-0.0030.0000.0000.0000.000
150A316TRP00.125-0.08514.7460.0680.0680.0000.0000.0000.000
151A316TRP0-0.1160.06314.508-0.022-0.0220.0000.0000.0000.000
152A317VAL00.049-0.11811.418-0.014-0.0140.0000.0000.0000.000
153A317VAL0-0.0420.11110.8240.0100.0100.0000.0000.0000.000
154A318GLU00.089-0.07910.826-0.231-0.2310.0000.0000.0000.000
155A318GLU-1-0.931-0.80711.0730.8270.8270.0000.0000.0000.000
156A319THR00.007-0.10810.6280.4340.4340.0000.0000.0000.000
157A319THR0-0.0600.06112.793-0.069-0.0690.0000.0000.0000.000
158A320GLN00.173-0.05811.405-0.316-0.3160.0000.0000.0000.000
159A320GLN0-0.1200.09611.3840.1320.1320.0000.0000.0000.000
160A321ALA00.073-0.11413.0330.2410.2410.0000.0000.0000.000
161A321ALA0-0.0400.10616.170-0.025-0.0250.0000.0000.0000.000
162A322THR0-0.029-0.11215.787-0.107-0.1070.0000.0000.0000.000
163A322THR0-0.0260.08015.107-0.008-0.0080.0000.0000.0000.000
164A323VAL00.097-0.08617.6400.0530.0530.0000.0000.0000.000
165A323VAL0-0.0790.10821.830-0.009-0.0090.0000.0000.0000.000
166A324ILE00.049-0.12021.119-0.007-0.0070.0000.0000.0000.000
167A324ILE0-0.0670.12117.972-0.005-0.0050.0000.0000.0000.000
168A325TYR00.090-0.10721.918-0.016-0.0160.0000.0000.0000.000
169A325TYR0-0.0440.11223.3920.0040.0040.0000.0000.0000.000
170A326ASN00.142-0.06725.6590.0090.0090.0000.0000.0000.000
171A326ASN0-0.1010.08728.749-0.015-0.0150.0000.0000.0000.000
172A327THR0-0.001-0.08428.376-0.013-0.0130.0000.0000.0000.000
173A327THR0-0.0190.05727.339-0.002-0.0020.0000.0000.0000.000
174A328LYS00.047-0.09429.763-0.010-0.0100.0000.0000.0000.000
175A328LYS10.8271.01930.146-0.276-0.2760.0000.0000.0000.000
176A329ASN00.071-0.03732.413-0.016-0.0160.0000.0000.0000.000
177A329ASN0-0.0570.05232.2930.0090.0090.0000.0000.0000.000
178A330SER0-0.016-0.06429.780-0.004-0.0040.0000.0000.0000.000
179A330SER0-0.0020.06930.452-0.005-0.0050.0000.0000.0000.000
180A331GLN00.077-0.09929.7340.0110.0110.0000.0000.0000.000
181A331GLN0-0.0590.11331.150-0.011-0.0110.0000.0000.0000.000
182A332PRO00.006-0.10425.8640.0090.0090.0000.0000.0000.000
183A333GLN00.0790.01325.237-0.032-0.0320.0000.0000.0000.000
184A333GLN0-0.1310.07225.092-0.030-0.0300.0000.0000.0000.000
185A334CYS00.022-0.09922.279-0.038-0.0380.0000.0000.0000.000
186A334CYS0-0.1230.06121.0640.0020.0020.0000.0000.0000.000
187A335ILE00.041-0.11819.815-0.027-0.0270.0000.0000.0000.000
188A335ILE0-0.0430.11618.098-0.004-0.0040.0000.0000.0000.000
189A336VAL00.188-0.05416.0350.0030.0030.0000.0000.0000.000
190A336VAL0-0.0900.09213.9570.0010.0010.0000.0000.0000.000
191A337CYS00.047-0.13113.533-0.072-0.0720.0000.0000.0000.000
192A337CYS0-0.1180.09513.412-0.076-0.0760.0000.0000.0000.000
193A338VAL00.096-0.0859.3960.1060.1060.0000.0000.0000.000
194A338VAL0-0.0940.0967.4760.1020.1020.0000.0000.0000.000
195A339ASN00.086-0.0879.274-0.190-0.1900.0000.0000.0000.000
196A339ASN0-0.0580.0829.864-0.374-0.3740.0000.0000.0000.000
197A340TYR00.108-0.0726.4321.2981.2980.0000.0000.0000.000
198A340TYR0-0.1500.0445.6670.0380.0380.0000.0000.0000.000
199A341VAL00.086-0.1107.271-0.585-0.5850.0000.0000.0000.000
200A341VAL0-0.0780.1187.557-0.074-0.0740.0000.0000.0000.000
201A342VAL0-0.020-0.1517.866-0.083-0.0830.0000.0000.0000.000
202A342VAL0-0.0500.1339.457-0.027-0.0270.0000.0000.0000.000
203A343SER0-0.105-0.17410.444-0.281-0.2810.0000.0000.0000.000
204A343SER00.0660.06113.5290.0290.0290.0000.0000.0000.000