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: N2MVQ

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 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 204
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -872511.141372
FMO2-HF: Nuclear repulsion 828077.680669
FMO2-HF: Total energy -44433.460703
FMO2-MP2: Total energy -44558.869009


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.
-16.398-10.7752.047-3.883-3.7870.042
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 : 0.054 / q_NPA : 0.037
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].
4A239SER0-0.0500.0643.7930.9721.317-0.001-0.169-0.1740.000
5A240LYS00.049-0.0943.010-1.8860.3200.031-1.154-1.0830.005
6A240LYS10.8621.0674.104-0.313-0.213-0.001-0.019-0.0800.000
7A241THR00.086-0.0664.127-1.911-1.5540.012-0.107-0.2620.001
8A241THR0-0.1000.0382.408-10.308-8.0771.963-2.235-1.9600.035
9A242PHE00.067-0.0685.107-0.903-0.899-0.002-0.0090.0070.000
10A242PHE0-0.0620.0958.725-0.184-0.1840.0000.0000.0000.000
11A243LEU00.099-0.1058.1000.0900.0900.0000.0000.0000.000
12A243LEU0-0.0700.1008.163-0.002-0.0020.0000.0000.0000.000
13A244SER00.015-0.06110.310-0.170-0.1700.0000.0000.0000.000
14A244SER0-0.0140.06014.0520.0650.0650.0000.0000.0000.000
15A245GLU00.070-0.13314.0340.0860.0860.0000.0000.0000.000
16A245GLU-1-0.924-0.76116.8930.5530.5530.0000.0000.0000.000
17A246HIS00.064-0.08417.283-0.028-0.0280.0000.0000.0000.000
18A246HIS0-0.0930.10617.2710.1170.1170.0000.0000.0000.000
19A247SER00.132-0.02720.5170.0000.0000.0000.0000.0000.000
20A247SER0-0.0570.03525.251-0.005-0.0050.0000.0000.0000.000
21A248LEU00.053-0.11123.6970.0380.0380.0000.0000.0000.000
22A248LEU0-0.0660.10024.948-0.006-0.0060.0000.0000.0000.000
23A249ASP00.019-0.09825.8150.0030.0030.0000.0000.0000.000
24A249ASP-1-0.841-0.78226.5470.3630.3630.0000.0000.0000.000
25A250MET00.064-0.09522.297-0.016-0.0160.0000.0000.0000.000
26A250MET0-0.1130.09018.8480.0020.0020.0000.0000.0000.000
27A251LYS00.109-0.11122.1010.0450.0450.0000.0000.0000.000
28A251LYS10.8361.02524.815-0.328-0.3280.0000.0000.0000.000
29A252PHE0-0.006-0.11020.0080.0160.0160.0000.0000.0000.000
30A252PHE0-0.0610.11316.0930.0220.0220.0000.0000.0000.000
31A253SER00.053-0.08820.104-0.061-0.0610.0000.0000.0000.000
32A253SER0-0.0570.03920.8620.0050.0050.0000.0000.0000.000
33A254TYR00.058-0.12017.394-0.069-0.0690.0000.0000.0000.000
34A254TYR0-0.0610.09812.8590.0360.0360.0000.0000.0000.000
35A255CYS00.101-0.11914.4660.0890.0890.0000.0000.0000.000
36A255CYS0-0.1420.12213.4800.0250.0250.0000.0000.0000.000
37A256ASP00.181-0.04810.418-0.208-0.2080.0000.0000.0000.000
38A256ASP-1-0.925-0.7928.1482.1622.1620.0000.0000.0000.000
39A257GLU00.128-0.13711.7360.0890.0890.0000.0000.0000.000
40A257GLU-1-0.982-0.82812.0190.3060.3060.0000.0000.0000.000
41A258ARG00.016-0.1197.861-0.294-0.2940.0000.0000.0000.000
42A258ARG10.7831.0133.243-4.567-4.1870.045-0.190-0.2350.001
43A259ILE00.045-0.1129.3330.0610.0610.0000.0000.0000.000
44A259ILE0-0.0770.09012.1730.0110.0110.0000.0000.0000.000
45A260THR00.028-0.11111.774-0.038-0.0380.0000.0000.0000.000
46A260THR0-0.0220.09614.0490.0060.0060.0000.0000.0000.000
47A261GLU00.012-0.12611.181-0.039-0.0390.0000.0000.0000.000
48A261GLU-1-1.020-0.8589.443-0.511-0.5110.0000.0000.0000.000
49A262LEU00.011-0.11610.525-0.205-0.2050.0000.0000.0000.000
50A262LEU0-0.1030.0967.1030.0840.0840.0000.0000.0000.000
51A263MET00.002-0.14911.590-0.058-0.0580.0000.0000.0000.000
52A263MET0-0.0670.10412.2690.0040.0040.0000.0000.0000.000
53A264GLY00.000-0.10415.031-0.055-0.0550.0000.0000.0000.000
54A265TYR00.055-0.02416.841-0.078-0.0780.0000.0000.0000.000
55A265TYR0-0.1000.05917.014-0.020-0.0200.0000.0000.0000.000
56A266GLU00.116-0.07916.4550.0620.0620.0000.0000.0000.000
57A266GLU-1-0.974-0.83818.3960.2470.2470.0000.0000.0000.000
58A267PRO00.010-0.09015.0680.0040.0040.0000.0000.0000.000
59A268GLU00.098-0.04017.7540.0280.0280.0000.0000.0000.000
60A268GLU-1-0.995-0.83420.8880.2410.2410.0000.0000.0000.000
61A269GLU0-0.011-0.12420.952-0.022-0.0220.0000.0000.0000.000
62A269GLU-1-0.855-0.78821.1120.2990.2990.0000.0000.0000.000
63A270LEU00.013-0.12019.684-0.042-0.0420.0000.0000.0000.000
64A270LEU0-0.0660.11217.0540.0130.0130.0000.0000.0000.000
65A271LEU00.067-0.12121.1570.0250.0250.0000.0000.0000.000
66A271LEU0-0.0900.12819.983-0.005-0.0050.0000.0000.0000.000
67A272GLY0-0.041-0.11622.424-0.040-0.0400.0000.0000.0000.000
68A273ARG00.043-0.05923.815-0.033-0.0330.0000.0000.0000.000
69A273ARG10.8501.08623.488-0.315-0.3150.0000.0000.0000.000
70A274SER00.116-0.03423.2070.0480.0480.0000.0000.0000.000
71A274SER0-0.0400.05625.2880.0080.0080.0000.0000.0000.000
72A275ILE00.069-0.08620.106-0.037-0.0370.0000.0000.0000.000
73A275ILE0-0.0810.11716.8490.0090.0090.0000.0000.0000.000
74A276TYR00.083-0.11221.3330.0240.0240.0000.0000.0000.000
75A276TYR0-0.1230.04523.455-0.012-0.0120.0000.0000.0000.000
76A277GLU0-0.013-0.14823.898-0.021-0.0210.0000.0000.0000.000
77A277GLU-1-0.902-0.81924.4170.3400.3400.0000.0000.0000.000
78A278TYR00.032-0.07620.740-0.046-0.0460.0000.0000.0000.000
79A278TYR0-0.0910.08220.0340.0120.0120.0000.0000.0000.000
80A279TYR00.052-0.09420.7680.0220.0220.0000.0000.0000.000
81A279TYR0-0.0090.11118.013-0.018-0.0180.0000.0000.0000.000
82A280HIS00.163-0.05321.568-0.042-0.0420.0000.0000.0000.000
83A280HIS0-0.1170.07622.1310.0020.0020.0000.0000.0000.000
84A281ALA00.127-0.07623.5370.0220.0220.0000.0000.0000.000
85A281ALA0-0.0960.09328.309-0.007-0.0070.0000.0000.0000.000
86A282LEU00.011-0.11326.102-0.006-0.0060.0000.0000.0000.000
87A282LEU0-0.0940.07025.663-0.003-0.0030.0000.0000.0000.000
88A283ASP00.018-0.11322.387-0.025-0.0250.0000.0000.0000.000
89A283ASP-1-0.840-0.79721.5480.4560.4560.0000.0000.0000.000
90A284SER00.090-0.08323.7120.0350.0350.0000.0000.0000.000
91A284SER0-0.0180.10225.489-0.005-0.0050.0000.0000.0000.000
92A285ASP00.085-0.09925.4170.0230.0230.0000.0000.0000.000
93A285ASP-1-0.994-0.84428.3040.2660.2660.0000.0000.0000.000
94A286HIS00.068-0.09524.736-0.008-0.0080.0000.0000.0000.000
95A286HIS0-0.0910.08220.4550.0000.0000.0000.0000.0000.000
96A287LEU00.057-0.11722.0640.0080.0080.0000.0000.0000.000
97A287LEU0-0.0670.13019.1240.0120.0120.0000.0000.0000.000
98A288THR00.077-0.08422.7960.0300.0300.0000.0000.0000.000
99A288THR0-0.0540.06426.623-0.007-0.0070.0000.0000.0000.000
100A289LYS00.074-0.10125.906-0.003-0.0030.0000.0000.0000.000
101A289LYS10.7371.01926.508-0.304-0.3040.0000.0000.0000.000
102A290THR00.005-0.12022.023-0.030-0.0300.0000.0000.0000.000
103A290THR0-0.0290.07919.9600.0140.0140.0000.0000.0000.000
104A291HIS00.102-0.08222.9100.0150.0150.0000.0000.0000.000
105A291HIS0-0.0170.13619.215-0.049-0.0490.0000.0000.0000.000
106A292HIS00.067-0.06323.684-0.001-0.0010.0000.0000.0000.000
107A292HIS0-0.0740.07427.968-0.002-0.0020.0000.0000.0000.000
108A293ASP00.077-0.13125.606-0.020-0.0200.0000.0000.0000.000
109A293ASP-1-0.883-0.77224.8290.3350.3350.0000.0000.0000.000
110A294MET00.111-0.08922.723-0.022-0.0220.0000.0000.0000.000
111A294MET0-0.0810.12620.8660.0370.0370.0000.0000.0000.000
112A295PHE00.030-0.11823.4650.0140.0140.0000.0000.0000.000
113A295PHE0-0.1000.10225.481-0.003-0.0030.0000.0000.0000.000
114A296THR00.017-0.08726.238-0.016-0.0160.0000.0000.0000.000
115A296THR0-0.0700.05027.895-0.011-0.0110.0000.0000.0000.000
116A297LYS0-0.020-0.10424.200-0.029-0.0290.0000.0000.0000.000
117A297LYS10.8011.00223.516-0.368-0.3680.0000.0000.0000.000
118A298GLY00.013-0.08223.070-0.007-0.0070.0000.0000.0000.000
119A299GLN00.134-0.01418.9030.0350.0350.0000.0000.0000.000
120A299GLN0-0.1290.07715.655-0.052-0.0520.0000.0000.0000.000
121A300VAL0-0.069-0.12618.300-0.060-0.0600.0000.0000.0000.000
122A300VAL0-0.0510.11019.045-0.007-0.0070.0000.0000.0000.000
123A301THR00.050-0.07315.8320.0990.0990.0000.0000.0000.000
124A301THR0-0.0430.06014.018-0.004-0.0040.0000.0000.0000.000
125A302THR00.010-0.10115.999-0.116-0.1160.0000.0000.0000.000
126A302THR0-0.0280.05915.9690.0550.0550.0000.0000.0000.000
127A303GLY0-0.002-0.05016.091-0.097-0.0970.0000.0000.0000.000
128A304GLN00.1130.03715.6790.0970.0970.0000.0000.0000.000
129A304GLN0-0.1000.06614.643-0.004-0.0040.0000.0000.0000.000
130A305TYR00.064-0.10316.269-0.096-0.0960.0000.0000.0000.000
131A305TYR0-0.1020.08114.577-0.041-0.0410.0000.0000.0000.000
132A306ARG00.150-0.09016.6530.0930.0930.0000.0000.0000.000
133A306ARG10.7811.03918.742-0.352-0.3520.0000.0000.0000.000
134A307MET00.128-0.08917.024-0.054-0.0540.0000.0000.0000.000
135A307MET0-0.0890.10516.1700.0600.0600.0000.0000.0000.000
136A308LEU00.056-0.12818.1400.0070.0070.0000.0000.0000.000
137A308LEU0-0.1330.10221.730-0.009-0.0090.0000.0000.0000.000
138A309ALA00.147-0.07718.0840.0540.0540.0000.0000.0000.000
139A309ALA0-0.0730.11617.253-0.001-0.0010.0000.0000.0000.000
140A310LYS00.125-0.08218.805-0.038-0.0380.0000.0000.0000.000
141A310LYS10.6960.99319.901-0.268-0.2680.0000.0000.0000.000
142A311ARG0-0.028-0.14320.230-0.033-0.0330.0000.0000.0000.000
143A311ARG10.8961.06521.407-0.143-0.1430.0000.0000.0000.000
144A312GLY00.004-0.09820.0580.0190.0190.0000.0000.0000.000
145A313GLY0-0.0050.00821.192-0.014-0.0140.0000.0000.0000.000
146A314TYR00.0710.02719.3330.0240.0240.0000.0000.0000.000
147A314TYR0-0.0780.07219.479-0.026-0.0260.0000.0000.0000.000
148A315VAL00.080-0.11314.752-0.092-0.0920.0000.0000.0000.000
149A315VAL0-0.0650.13512.6590.0090.0090.0000.0000.0000.000
150A316TRP00.134-0.08614.7060.0240.0240.0000.0000.0000.000
151A316TRP0-0.1270.06914.487-0.028-0.0280.0000.0000.0000.000
152A317VAL00.059-0.11311.9600.1030.1030.0000.0000.0000.000
153A317VAL0-0.0390.11511.3750.0060.0060.0000.0000.0000.000
154A318GLU00.106-0.08311.385-0.255-0.2550.0000.0000.0000.000
155A318GLU-1-0.942-0.79811.5361.0151.0150.0000.0000.0000.000
156A319THR00.000-0.10111.0440.4260.4260.0000.0000.0000.000
157A319THR0-0.0620.05713.211-0.055-0.0550.0000.0000.0000.000
158A320GLN00.152-0.07811.975-0.262-0.2620.0000.0000.0000.000
159A320GLN0-0.1140.10411.8890.0670.0670.0000.0000.0000.000
160A321ALA00.098-0.09913.5330.1770.1770.0000.0000.0000.000
161A321ALA0-0.0490.10416.956-0.022-0.0220.0000.0000.0000.000
162A322THR0-0.023-0.11116.311-0.087-0.0870.0000.0000.0000.000
163A322THR0-0.0200.08515.322-0.012-0.0120.0000.0000.0000.000
164A323VAL00.100-0.08917.8800.0400.0400.0000.0000.0000.000
165A323VAL0-0.0750.11121.924-0.008-0.0080.0000.0000.0000.000
166A324ILE00.066-0.11721.353-0.014-0.0140.0000.0000.0000.000
167A324ILE0-0.0790.12518.178-0.005-0.0050.0000.0000.0000.000
168A325TYR00.081-0.09322.190-0.012-0.0120.0000.0000.0000.000
169A325TYR0-0.0470.10523.7690.0040.0040.0000.0000.0000.000
170A326ASN00.200-0.06825.8900.0030.0030.0000.0000.0000.000
171A326ASN0-0.1640.06828.948-0.015-0.0150.0000.0000.0000.000
172A327THR00.001-0.07528.602-0.003-0.0030.0000.0000.0000.000
173A327THR0-0.0370.04827.833-0.003-0.0030.0000.0000.0000.000
174A328LYS00.096-0.05730.072-0.006-0.0060.0000.0000.0000.000
175A328LYS10.8101.03530.614-0.218-0.2180.0000.0000.0000.000
176A329ASN00.112-0.04832.993-0.011-0.0110.0000.0000.0000.000
177A329ASN0-0.0550.07132.4210.0100.0100.0000.0000.0000.000
178A330SER00.008-0.05730.100-0.002-0.0020.0000.0000.0000.000
179A330SER0-0.0110.06130.686-0.004-0.0040.0000.0000.0000.000
180A331GLN00.045-0.11330.3850.0090.0090.0000.0000.0000.000
181A331GLN0-0.0850.09231.425-0.012-0.0120.0000.0000.0000.000
182A332PRO00.014-0.09826.1290.0060.0060.0000.0000.0000.000
183A333GLN00.1040.02025.550-0.024-0.0240.0000.0000.0000.000
184A333GLN0-0.1310.07224.880-0.025-0.0250.0000.0000.0000.000
185A334CYS00.002-0.12022.335-0.029-0.0290.0000.0000.0000.000
186A334CYS0-0.1260.05620.9300.0010.0010.0000.0000.0000.000
187A335ILE00.047-0.11620.050-0.022-0.0220.0000.0000.0000.000
188A335ILE0-0.0420.11618.323-0.001-0.0010.0000.0000.0000.000
189A336VAL00.167-0.06216.144-0.003-0.0030.0000.0000.0000.000
190A336VAL0-0.0870.09514.0520.0000.0000.0000.0000.0000.000
191A337CYS00.066-0.12813.904-0.038-0.0380.0000.0000.0000.000
192A337CYS0-0.1230.09113.827-0.069-0.0690.0000.0000.0000.000
193A338VAL00.095-0.0839.5720.0460.0460.0000.0000.0000.000
194A338VAL0-0.0830.1017.7250.1020.1020.0000.0000.0000.000
195A339ASN00.072-0.0839.457-0.149-0.1490.0000.0000.0000.000
196A339ASN0-0.0610.08410.220-0.302-0.3020.0000.0000.0000.000
197A340TYR00.116-0.0696.9180.8720.8720.0000.0000.0000.000
198A340TYR0-0.1480.0446.0740.1430.1430.0000.0000.0000.000
199A341VAL00.106-0.1127.548-0.640-0.6400.0000.0000.0000.000
200A341VAL0-0.0950.1137.804-0.084-0.0840.0000.0000.0000.000
201A342VAL0-0.006-0.1508.1290.1370.1370.0000.0000.0000.000
202A342VAL0-0.0400.1389.544-0.031-0.0310.0000.0000.0000.000
203A343SER0-0.084-0.17510.621-0.279-0.2790.0000.0000.0000.000
204A343SER00.0360.06014.5430.0170.0170.0000.0000.0000.000