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: ZN3VN

Calculation Name: 2EPI-A-Xray540

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2EPI

Chain ID: A

ChEMBL ID:

UniProt ID: Q58452

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 190
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -688264.925002
FMO2-HF: Nuclear repulsion 650257.875755
FMO2-HF: Total energy -38007.049247
FMO2-MP2: Total energy -38118.742734


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:2:ILE)


Summations of interaction energy for fragment #1(A:2:ILE)
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.
-3.459-0.4020.071-1.429-1.70.001
Interaction energy analysis for fragmet #1(A:2:ILE)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.083 / q_NPA : 0.028
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].
4A3PHE0-0.0770.0854.764-0.953-0.5830.000-0.123-0.2470.000
5A4MET00.171-0.0782.679-1.7980.4260.070-1.128-1.1660.002
6A4MET0-0.1620.0904.117-0.144-0.065-0.001-0.014-0.0640.000
7A5ARG00.134-0.0893.775-0.1400.2440.002-0.164-0.223-0.001
8A5ARG10.6910.9685.767-0.051-0.0510.0000.0000.0000.000
9A6LYS00.123-0.0816.088-0.174-0.1740.0000.0000.0000.000
10A6LYS10.7390.9908.210-0.832-0.8320.0000.0000.0000.000
11A7VAL0-0.032-0.1208.9080.0010.0010.0000.0000.0000.000
12A7VAL0-0.0170.11210.790-0.017-0.0170.0000.0000.0000.000
13A8VAL00.135-0.05912.4270.0330.0330.0000.0000.0000.000
14A8VAL0-0.1110.07815.274-0.002-0.0020.0000.0000.0000.000
15A9ALA00.087-0.10715.984-0.018-0.0180.0000.0000.0000.000
16A9ALA0-0.0550.09716.860-0.003-0.0030.0000.0000.0000.000
17A10GLU00.121-0.10918.4410.0170.0170.0000.0000.0000.000
18A10GLU-1-0.995-0.81222.6480.0960.0960.0000.0000.0000.000
19A11VAL00.039-0.12222.026-0.012-0.0120.0000.0000.0000.000
20A11VAL0-0.0640.10921.015-0.002-0.0020.0000.0000.0000.000
21A12SER00.059-0.08823.7310.0080.0080.0000.0000.0000.000
22A12SER00.0060.11027.9630.0000.0000.0000.0000.0000.000
23A13ILE00.050-0.10827.463-0.006-0.0060.0000.0000.0000.000
24A13ILE0-0.0740.12425.7350.0000.0000.0000.0000.0000.000
25A14ILE00.083-0.12629.3990.0040.0040.0000.0000.0000.000
26A14ILE0-0.0940.11631.8340.0000.0000.0000.0000.0000.000
27A15PRO00.003-0.09433.062-0.005-0.0050.0000.0000.0000.000
28A16LEU00.0730.00135.1420.0030.0030.0000.0000.0000.000
29A16LEU0-0.1360.08436.606-0.001-0.0010.0000.0000.0000.000
30A17GLY00.095-0.07838.407-0.003-0.0030.0000.0000.0000.000
31A18LYS00.020-0.05340.6930.0010.0010.0000.0000.0000.000
32A18LYS10.9011.10844.692-0.006-0.0060.0000.0000.0000.000
33A19GLY00.007-0.08843.4570.0010.0010.0000.0000.0000.000
34A20ALA00.1170.00843.2000.0000.0000.0000.0000.0000.000
35A20ALA0-0.0890.10945.1700.0000.0000.0000.0000.0000.000
36A21SER00.085-0.08940.7540.0010.0010.0000.0000.0000.000
37A21SER0-0.0060.06040.5550.0010.0010.0000.0000.0000.000
38A22VAL0-0.060-0.11036.987-0.003-0.0030.0000.0000.0000.000
39A22VAL00.0260.15035.7880.0000.0000.0000.0000.0000.000
40A23SER00.111-0.07235.2810.0010.0010.0000.0000.0000.000
41A23SER0-0.0210.08436.411-0.001-0.0010.0000.0000.0000.000
42A24LYS00.093-0.07434.5530.0050.0050.0000.0000.0000.000
43A24LYS10.8791.07336.809-0.023-0.0230.0000.0000.0000.000
44A25TYR00.042-0.12233.4170.0020.0020.0000.0000.0000.000
45A25TYR0-0.0450.10933.2910.0000.0000.0000.0000.0000.000
46A26VAL00.127-0.07130.757-0.001-0.0010.0000.0000.0000.000
47A26VAL0-0.0650.10730.2420.0000.0000.0000.0000.0000.000
48A27LYS00.114-0.07929.6470.0060.0060.0000.0000.0000.000
49A27LYS10.8541.05731.823-0.050-0.0500.0000.0000.0000.000
50A28LYS00.067-0.07829.5810.0080.0080.0000.0000.0000.000
51A28LYS10.6730.93730.476-0.012-0.0120.0000.0000.0000.000
52A29ALA00.138-0.09126.9990.0000.0000.0000.0000.0000.000
53A29ALA0-0.0840.10726.638-0.001-0.0010.0000.0000.0000.000
54A30ILE00.138-0.07025.2680.0030.0030.0000.0000.0000.000
55A30ILE0-0.1390.07025.7430.0010.0010.0000.0000.0000.000
56A31GLU00.033-0.11824.7410.0150.0150.0000.0000.0000.000
57A31GLU-1-0.926-0.81727.6880.0870.0870.0000.0000.0000.000
58A32VAL00.048-0.10424.2080.0080.0080.0000.0000.0000.000
59A32VAL0-0.1140.09522.465-0.002-0.0020.0000.0000.0000.000
60A33PHE00.079-0.08920.640-0.003-0.0030.0000.0000.0000.000
61A33PHE0-0.0070.09520.7080.0000.0000.0000.0000.0000.000
62A34LYS00.027-0.10119.8460.0220.0220.0000.0000.0000.000
63A34LYS10.7750.99623.215-0.110-0.1100.0000.0000.0000.000
64A35LYS00.054-0.08020.9360.0170.0170.0000.0000.0000.000
65A35LYS10.7690.98121.296-0.026-0.0260.0000.0000.0000.000
66A36TYR00.019-0.07316.936-0.016-0.0160.0000.0000.0000.000
67A36TYR0-0.1660.02315.900-0.013-0.0130.0000.0000.0000.000
68A37ASP00.134-0.08613.652-0.023-0.0230.0000.0000.0000.000
69A37ASP-1-1.038-0.85312.1290.5940.5940.0000.0000.0000.000
70A38LEU00.033-0.13413.2850.0870.0870.0000.0000.0000.000
71A38LEU0-0.0920.07813.418-0.011-0.0110.0000.0000.0000.000
72A39LYS00.085-0.08015.595-0.023-0.0230.0000.0000.0000.000
73A39LYS10.8051.00214.747-0.508-0.5080.0000.0000.0000.000
74A40VAL00.047-0.10017.770-0.001-0.0010.0000.0000.0000.000
75A40VAL0-0.1180.08219.993-0.005-0.0050.0000.0000.0000.000
76A41GLU00.115-0.08020.976-0.005-0.0050.0000.0000.0000.000
77A41GLU-1-1.044-0.86321.3700.2050.2050.0000.0000.0000.000
78A42THR00.056-0.07423.551-0.005-0.0050.0000.0000.0000.000
79A42THR0-0.0460.05726.3880.0020.0020.0000.0000.0000.000
80A43ASN00.117-0.01526.5410.0020.0020.0000.0000.0000.000
81A43ASN0-0.0670.06726.325-0.009-0.0090.0000.0000.0000.000
82A44ALA00.125-0.10929.121-0.002-0.0020.0000.0000.0000.000
83A44ALA0-0.0880.09733.5430.0000.0000.0000.0000.0000.000
84A45MET0-0.039-0.14630.569-0.006-0.0060.0000.0000.0000.000
85A45MET0-0.0830.10330.667-0.001-0.0010.0000.0000.0000.000
86A46GLY00.031-0.09927.320-0.007-0.0070.0000.0000.0000.000
87A47THR0-0.043-0.00224.5170.0040.0040.0000.0000.0000.000
88A47THR0-0.0370.06722.520-0.006-0.0060.0000.0000.0000.000
89A48VAL00.128-0.08221.601-0.011-0.0110.0000.0000.0000.000
90A48VAL0-0.0920.09819.9910.0020.0020.0000.0000.0000.000
91A49LEU00.086-0.09918.1480.0070.0070.0000.0000.0000.000
92A49LEU0-0.0610.10117.331-0.003-0.0030.0000.0000.0000.000
93A50GLU00.086-0.10114.881-0.018-0.0180.0000.0000.0000.000
94A50GLU-1-0.840-0.77913.3690.5160.5160.0000.0000.0000.000
95A51GLY00.013-0.09011.3590.0190.0190.0000.0000.0000.000
96A52ASP00.1320.0148.7010.0290.0290.0000.0000.0000.000
97A52ASP-1-0.812-0.7817.0460.0090.0090.0000.0000.0000.000
98A53LEU00.077-0.0919.320-0.049-0.0490.0000.0000.0000.000
99A53LEU0-0.0770.08710.146-0.001-0.0010.0000.0000.0000.000
100A54ASP00.096-0.12410.1050.0370.0370.0000.0000.0000.000
101A54ASP-1-1.002-0.8399.517-0.487-0.4870.0000.0000.0000.000
102A55GLU00.035-0.13111.398-0.042-0.0420.0000.0000.0000.000
103A55GLU-1-0.839-0.77710.901-0.078-0.0780.0000.0000.0000.000
104A56ILE00.113-0.08313.298-0.008-0.0080.0000.0000.0000.000
105A56ILE0-0.0940.09713.475-0.003-0.0030.0000.0000.0000.000
106A57LEU00.065-0.11414.8300.0100.0100.0000.0000.0000.000
107A57LEU0-0.1050.10313.626-0.004-0.0040.0000.0000.0000.000
108A58LYS00.018-0.14815.787-0.003-0.0030.0000.0000.0000.000
109A58LYS10.7811.02211.6690.2450.2450.0000.0000.0000.000
110A59ALA00.085-0.07417.308-0.012-0.0120.0000.0000.0000.000
111A59ALA0-0.0260.12117.8060.0070.0070.0000.0000.0000.000
112A60PHE00.038-0.09819.0180.0040.0040.0000.0000.0000.000
113A60PHE0-0.0960.08919.8560.0000.0000.0000.0000.0000.000
114A61LYS00.102-0.09120.4510.0060.0060.0000.0000.0000.000
115A61LYS10.8641.07120.9100.0950.0950.0000.0000.0000.000
116A62GLU00.093-0.11421.716-0.004-0.0040.0000.0000.0000.000
117A62GLU-1-0.842-0.71922.1070.0010.0010.0000.0000.0000.000
118A63ALA00.100-0.08023.277-0.003-0.0030.0000.0000.0000.000
119A63ALA0-0.0470.11423.7690.0030.0030.0000.0000.0000.000
120A64HIS00.057-0.10525.0210.0040.0040.0000.0000.0000.000
121A64HIS0-0.0310.12525.5390.0050.0050.0000.0000.0000.000
122A65SER0-0.012-0.12426.2760.0030.0030.0000.0000.0000.000
123A65SER0-0.0640.05125.649-0.006-0.0060.0000.0000.0000.000
124A66THR00.040-0.06627.571-0.004-0.0040.0000.0000.0000.000
125A66THR0-0.0730.05326.8160.0010.0010.0000.0000.0000.000
126A67VAL00.074-0.08529.3490.0000.0000.0000.0000.0000.000
127A67VAL0-0.0860.10029.6800.0010.0010.0000.0000.0000.000
128A68LEU00.124-0.10630.9700.0030.0030.0000.0000.0000.000
129A68LEU0-0.1320.09130.957-0.001-0.0010.0000.0000.0000.000
130A69ASN00.097-0.06832.196-0.003-0.0030.0000.0000.0000.000
131A69ASN0-0.1980.02732.077-0.004-0.0040.0000.0000.0000.000
132A70ASP00.068-0.08533.816-0.002-0.0020.0000.0000.0000.000
133A70ASP-1-0.936-0.82735.4780.0090.0090.0000.0000.0000.000
134A71VAL0-0.011-0.07336.0570.0010.0010.0000.0000.0000.000
135A71VAL0-0.0910.05135.3590.0010.0010.0000.0000.0000.000
136A72ASP00.187-0.08136.629-0.002-0.0020.0000.0000.0000.000
137A72ASP-1-0.991-0.84739.871-0.007-0.0070.0000.0000.0000.000
138A73ARG00.108-0.08135.590-0.004-0.0040.0000.0000.0000.000
139A73ARG10.8211.04835.8390.0070.0070.0000.0000.0000.000
140A74VAL00.066-0.13532.2520.0040.0040.0000.0000.0000.000
141A74VAL0-0.0720.14330.6860.0000.0000.0000.0000.0000.000
142A75VAL00.053-0.10531.429-0.006-0.0060.0000.0000.0000.000
143A75VAL0-0.1000.10131.4540.0000.0000.0000.0000.0000.000
144A76SER00.015-0.10727.4070.0070.0070.0000.0000.0000.000
145A76SER0-0.0090.06226.5030.0020.0020.0000.0000.0000.000
146A77SER00.012-0.09326.163-0.009-0.0090.0000.0000.0000.000
147A77SER0-0.0310.07826.5770.0000.0000.0000.0000.0000.000
148A78LEU00.110-0.09721.6120.0110.0110.0000.0000.0000.000
149A78LEU0-0.0850.10818.333-0.002-0.0020.0000.0000.0000.000
150A79LYS00.078-0.09921.484-0.014-0.0140.0000.0000.0000.000
151A79LYS10.7621.01921.760-0.081-0.0810.0000.0000.0000.000
152A80ILE00.046-0.12117.0940.0170.0170.0000.0000.0000.000
153A80ILE0-0.0530.11615.0490.0000.0000.0000.0000.0000.000
154A81ASP00.143-0.06716.980-0.023-0.0230.0000.0000.0000.000
155A81ASP-1-0.982-0.81718.1150.1740.1740.0000.0000.0000.000
156A82GLU00.126-0.11713.6720.0420.0420.0000.0000.0000.000
157A82GLU-1-0.897-0.75310.3950.1570.1570.0000.0000.0000.000
158A83ARG00.006-0.09113.625-0.041-0.0410.0000.0000.0000.000
159A83ARG10.7220.96114.676-0.223-0.2230.0000.0000.0000.000
160A84LYS00.142-0.06411.7150.0600.0600.0000.0000.0000.000
161A84LYS10.8831.05511.961-0.113-0.1130.0000.0000.0000.000
162A85ASP00.056-0.08312.7080.0380.0380.0000.0000.0000.000
163A85ASP-1-0.813-0.78016.8080.2160.2160.0000.0000.0000.000
164A86LYS00.008-0.07414.4230.0010.0010.0000.0000.0000.000
165A86LYS10.8641.02416.339-0.217-0.2170.0000.0000.0000.000
166A87GLU00.132-0.10712.0940.0080.0080.0000.0000.0000.000
167A87GLU-1-0.848-0.74311.6930.6880.6880.0000.0000.0000.000
168A88ASN00.025-0.08711.749-0.084-0.0840.0000.0000.0000.000
169A88ASN0-0.0930.08310.579-0.056-0.0560.0000.0000.0000.000
170A89THR00.085-0.06813.0750.0340.0340.0000.0000.0000.000
171A89THR0-0.0720.03513.212-0.020-0.0200.0000.0000.0000.000
172A90ILE00.128-0.09415.302-0.031-0.0310.0000.0000.0000.000
173A90ILE0-0.0310.13817.7530.0010.0010.0000.0000.0000.000
174A91GLU00.086-0.11418.345-0.036-0.0360.0000.0000.0000.000
175A91GLU-1-0.943-0.79218.4590.3480.3480.0000.0000.0000.000
176A92ARG00.115-0.08418.186-0.033-0.0330.0000.0000.0000.000
177A92ARG10.7621.00916.279-0.310-0.3100.0000.0000.0000.000
178A93LYS00.013-0.11419.309-0.020-0.0200.0000.0000.0000.000
179A93LYS10.7720.98518.545-0.189-0.1890.0000.0000.0000.000
180A94LEU00.068-0.09320.977-0.020-0.0200.0000.0000.0000.000
181A94LEU0-0.0340.11022.9030.0000.0000.0000.0000.0000.000
182A95LYS00.148-0.06722.941-0.019-0.0190.0000.0000.0000.000
183A95LYS10.7750.99321.925-0.264-0.2640.0000.0000.0000.000
184A96ALA00.083-0.06123.293-0.013-0.0130.0000.0000.0000.000
185A96ALA0-0.1490.05322.5920.0020.0020.0000.0000.0000.000
186A97ILE0-0.020-0.11724.564-0.010-0.0100.0000.0000.0000.000
187A97ILE0-0.1040.09325.1710.0000.0000.0000.0000.0000.000
188A98GLY0-0.013-0.12727.213-0.011-0.0110.0000.0000.0000.000
189A99GLU0-0.095-0.04427.338-0.005-0.0050.0000.0000.0000.000
190A99GLU-1-0.917-0.94427.3050.1200.1200.0000.0000.0000.000