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: 8N3JY

Calculation Name: 2A7W-A-Xray540

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2A7W

Chain ID: A

ChEMBL ID:

UniProt ID: Q7P0E6

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 OptH
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 177
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -615848.390154
FMO2-HF: Nuclear repulsion 579550.097315
FMO2-HF: Total energy -36298.292839
FMO2-MP2: Total energy -36403.891434


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:4:ASP)


Summations of interaction energy for fragment #1(A:4: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.
0.9322.6793.756-1.652-3.8520.015
Interaction energy analysis for fragmet #1(A:4:ASP)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.001 / q_NPA : 0.029
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].
4A5VAL0-0.0520.0893.5620.1370.3510.0030.010-0.2260.000
5A6LEU00.051-0.1093.8351.5752.868-0.014-0.633-0.6460.002
6A6LEU0-0.0080.1224.5760.0390.119-0.001-0.012-0.0670.000
7A7LYS00.095-0.0852.7670.561-0.3930.1161.259-0.4220.000
8A7LYS10.8731.0732.204-3.551-2.7203.626-2.086-2.3720.013
9A8ASN00.131-0.0133.941-0.376-0.1800.001-0.047-0.1500.000
10A8ASN0-0.0520.0663.8321.5221.6090.025-0.1430.0310.000
11A9ILE00.109-0.0636.047-0.152-0.1520.0000.0000.0000.000
12A9ILE0-0.0720.0907.612-0.050-0.0500.0000.0000.0000.000
13A10ALA00.118-0.1027.147-0.087-0.0870.0000.0000.0000.000
14A10ALA0-0.0820.1067.395-0.032-0.0320.0000.0000.0000.000
15A11ASP00.126-0.1027.817-0.347-0.3470.0000.0000.0000.000
16A11ASP-1-0.968-0.8297.3143.0483.0480.0000.0000.0000.000
17A12THR00.000-0.0799.662-0.142-0.1420.0000.0000.0000.000
18A12THR0-0.132-0.0069.885-0.061-0.0610.0000.0000.0000.000
19A13LEU0-0.019-0.11711.456-0.081-0.0810.0000.0000.0000.000
20A13LEU0-0.0670.08711.326-0.025-0.0250.0000.0000.0000.000
21A14GLU00.105-0.14112.506-0.114-0.1140.0000.0000.0000.000
22A14GLU-1-0.923-0.79411.8820.7530.7530.0000.0000.0000.000
23A15ALA00.108-0.06413.687-0.070-0.0700.0000.0000.0000.000
24A15ALA0-0.1310.07914.0550.0110.0110.0000.0000.0000.000
25A16ARG0-0.003-0.08615.546-0.039-0.0390.0000.0000.0000.000
26A16ARG10.7881.00915.393-0.313-0.3130.0000.0000.0000.000
27A17ARG00.141-0.11217.374-0.065-0.0650.0000.0000.0000.000
28A17ARG10.8041.08417.144-0.138-0.1380.0000.0000.0000.000
29A18GLU00.032-0.13118.655-0.047-0.0470.0000.0000.0000.000
30A18GLU-1-1.024-0.84521.8110.2120.2120.0000.0000.0000.000
31A19ALA00.102-0.06921.6670.0080.0080.0000.0000.0000.000
32A19ALA0-0.0990.06720.8760.0030.0030.0000.0000.0000.000
33A20ALA00.136-0.11822.745-0.021-0.0210.0000.0000.0000.000
34A20ALA0-0.1270.09825.9490.0000.0000.0000.0000.0000.000
35A21PRO00.026-0.07724.5770.0020.0020.0000.0000.0000.000
36A22GLN00.096-0.00826.046-0.012-0.0120.0000.0000.0000.000
37A22GLN0-0.0900.09728.559-0.002-0.0020.0000.0000.0000.000
38A23SER0-0.041-0.07623.429-0.011-0.0110.0000.0000.0000.000
39A23SER0-0.0290.04922.2380.0130.0130.0000.0000.0000.000
40A24SER00.051-0.05620.4900.0060.0060.0000.0000.0000.000
41A24SER0-0.0310.04719.696-0.002-0.0020.0000.0000.0000.000
42A25TYR00.133-0.06720.9980.0040.0040.0000.0000.0000.000
43A25TYR0-0.1120.05419.3060.0160.0160.0000.0000.0000.000
44A26VAL00.099-0.08617.742-0.023-0.0230.0000.0000.0000.000
45A26VAL0-0.0420.11915.9670.0060.0060.0000.0000.0000.000
46A27ALA00.078-0.07219.178-0.005-0.0050.0000.0000.0000.000
47A27ALA0-0.0340.11421.1290.0050.0050.0000.0000.0000.000
48A28SER00.025-0.07521.5220.0030.0030.0000.0000.0000.000
49A28SER0-0.1160.00923.482-0.011-0.0110.0000.0000.0000.000
50A29LEU0-0.015-0.14021.819-0.001-0.0010.0000.0000.0000.000
51A29LEU0-0.0710.11319.869-0.001-0.0010.0000.0000.0000.000
52A30PHE00.135-0.08521.467-0.021-0.0210.0000.0000.0000.000
53A30PHE0-0.0880.10316.3360.0010.0010.0000.0000.0000.000
54A31HIS00.120-0.05522.396-0.001-0.0010.0000.0000.0000.000
55A31HIS0-0.1170.06125.8210.0080.0080.0000.0000.0000.000
56A32LYS0-0.002-0.09825.8270.0010.0010.0000.0000.0000.000
57A32LYS10.8341.02926.2360.0170.0170.0000.0000.0000.000
58A33GLY00.037-0.07425.424-0.003-0.0030.0000.0000.0000.000
59A34GLU00.135-0.04024.081-0.010-0.0100.0000.0000.0000.000
60A34GLU-1-1.004-0.81824.289-0.058-0.0580.0000.0000.0000.000
61A35ASP00.142-0.11224.854-0.021-0.0210.0000.0000.0000.000
62A35ASP-1-1.014-0.83029.082-0.058-0.0580.0000.0000.0000.000
63A36ALA00.028-0.13226.471-0.020-0.0200.0000.0000.0000.000
64A36ALA0-0.0640.11025.8540.0030.0030.0000.0000.0000.000
65A37ILE00.039-0.13121.989-0.012-0.0120.0000.0000.0000.000
66A37ILE0-0.0420.11620.020-0.001-0.0010.0000.0000.0000.000
67A38LEU00.054-0.12722.461-0.034-0.0340.0000.0000.0000.000
68A38LEU0-0.0700.13222.756-0.003-0.0030.0000.0000.0000.000
69A39LYS00.059-0.10524.332-0.022-0.0220.0000.0000.0000.000
70A39LYS10.8501.04526.6760.0980.0980.0000.0000.0000.000
71A40LYS00.126-0.08322.774-0.008-0.0080.0000.0000.0000.000
72A40LYS10.8481.09521.8190.1300.1300.0000.0000.0000.000
73A41VAL00.115-0.08021.095-0.023-0.0230.0000.0000.0000.000
74A41VAL0-0.0920.09619.591-0.001-0.0010.0000.0000.0000.000
75A42ALA00.125-0.11221.978-0.036-0.0360.0000.0000.0000.000
76A42ALA0-0.1230.10726.4610.0050.0050.0000.0000.0000.000
77A43GLU00.038-0.14125.385-0.011-0.0110.0000.0000.0000.000
78A43GLU-1-1.024-0.84824.971-0.161-0.1610.0000.0000.0000.000
79A44GLU00.141-0.09821.5830.0110.0110.0000.0000.0000.000
80A44GLU-1-0.962-0.81520.425-0.290-0.2900.0000.0000.0000.000
81A45ALA00.093-0.09622.796-0.039-0.0390.0000.0000.0000.000
82A45ALA0-0.1040.09523.2170.0020.0020.0000.0000.0000.000
83A46ALA00.053-0.14423.655-0.018-0.0180.0000.0000.0000.000
84A46ALA0-0.0870.12527.8620.0060.0060.0000.0000.0000.000
85A47GLU00.059-0.17225.4640.0080.0080.0000.0000.0000.000
86A47GLU-1-0.942-0.76924.378-0.223-0.2230.0000.0000.0000.000
87A48THR00.047-0.10022.6910.0030.0030.0000.0000.0000.000
88A48THR0-0.0770.06021.405-0.026-0.0260.0000.0000.0000.000
89A49LEU00.050-0.13123.766-0.016-0.0160.0000.0000.0000.000
90A49LEU0-0.1450.09625.8840.0040.0040.0000.0000.0000.000
91A50MET00.025-0.11726.9650.0010.0010.0000.0000.0000.000
92A50MET0-0.0850.10428.4820.0100.0100.0000.0000.0000.000
93A51ALA00.195-0.09925.2540.0200.0200.0000.0000.0000.000
94A51ALA0-0.0710.15124.594-0.007-0.0070.0000.0000.0000.000
95A52SER0-0.004-0.11525.9720.0000.0000.0000.0000.0000.000
96A52SER0-0.0880.05525.1210.0030.0030.0000.0000.0000.000
97A53LYS0-0.004-0.13926.5600.0010.0010.0000.0000.0000.000
98A53LYS10.8441.09730.5130.2200.2200.0000.0000.0000.000
99A54ASP00.078-0.14829.8000.0100.0100.0000.0000.0000.000
100A54ASP-1-0.979-0.80929.672-0.203-0.2030.0000.0000.0000.000
101A55LYS0-0.055-0.13728.0260.0040.0040.0000.0000.0000.000
102A55LYS10.8151.03829.2080.2330.2330.0000.0000.0000.000
103A56ASP00.188-0.08727.187-0.008-0.0080.0000.0000.0000.000
104A56ASP-1-0.898-0.78926.620-0.271-0.2710.0000.0000.0000.000
105A57LYS00.066-0.08823.619-0.017-0.0170.0000.0000.0000.000
106A57LYS10.8481.03022.9750.3520.3520.0000.0000.0000.000
107A58LEU00.084-0.13921.736-0.054-0.0540.0000.0000.0000.000
108A58LEU0-0.1040.12121.9760.0030.0030.0000.0000.0000.000
109A59HIS00.074-0.11621.399-0.040-0.0400.0000.0000.0000.000
110A59HIS0-0.0230.13724.051-0.001-0.0010.0000.0000.0000.000
111A60LEU00.184-0.07321.942-0.008-0.0080.0000.0000.0000.000
112A60LEU0-0.1690.08820.624-0.002-0.0020.0000.0000.0000.000
113A61VAL00.025-0.09417.875-0.019-0.0190.0000.0000.0000.000
114A61VAL0-0.0910.07215.956-0.010-0.0100.0000.0000.0000.000
115A62ARG00.012-0.10617.126-0.089-0.0890.0000.0000.0000.000
116A62ARG10.8911.05318.6670.3590.3590.0000.0000.0000.000
117A63GLU00.146-0.06818.433-0.028-0.0280.0000.0000.0000.000
118A63GLU-1-0.934-0.81021.553-0.315-0.3150.0000.0000.0000.000
119A64VAL00.153-0.08017.5030.0150.0150.0000.0000.0000.000
120A64VAL0-0.1190.08115.401-0.010-0.0100.0000.0000.0000.000
121A65ALA00.078-0.12714.184-0.066-0.0660.0000.0000.0000.000
122A65ALA0-0.1050.11214.074-0.010-0.0100.0000.0000.0000.000
123A66ASP00.080-0.14114.854-0.066-0.0660.0000.0000.0000.000
124A66ASP-1-0.920-0.77618.667-0.310-0.3100.0000.0000.0000.000
125A67LEU00.158-0.09517.4610.0570.0570.0000.0000.0000.000
126A67LEU0-0.1420.10517.782-0.007-0.0070.0000.0000.0000.000
127A68TRP00.084-0.11713.2990.0910.0910.0000.0000.0000.000
128A68TRP0-0.0960.0899.685-0.107-0.1070.0000.0000.0000.000
129A69PHE00.040-0.11312.945-0.014-0.0140.0000.0000.0000.000
130A69PHE0-0.0950.09412.4680.0380.0380.0000.0000.0000.000
131A70HIS00.088-0.10113.9880.0720.0720.0000.0000.0000.000
132A70HIS0-0.0830.12918.4290.0670.0670.0000.0000.0000.000
133A71THR00.034-0.05315.7920.0910.0910.0000.0000.0000.000
134A71THR0-0.0870.04713.7230.0190.0190.0000.0000.0000.000
135A72MET00.125-0.10211.7630.0640.0640.0000.0000.0000.000
136A72MET0-0.0930.0969.461-0.093-0.0930.0000.0000.0000.000
137A73VAL00.084-0.11513.0600.1100.1100.0000.0000.0000.000
138A73VAL0-0.0850.10415.1100.0070.0070.0000.0000.0000.000
139A74LEU00.121-0.10215.7540.0760.0760.0000.0000.0000.000
140A74LEU0-0.1250.11017.681-0.003-0.0030.0000.0000.0000.000
141A75LEU00.048-0.11314.3660.0550.0550.0000.0000.0000.000
142A75LEU0-0.0780.09212.554-0.013-0.0130.0000.0000.0000.000
143A76THR00.054-0.07514.7300.0300.0300.0000.0000.0000.000
144A76THR0-0.0550.08213.0950.0460.0460.0000.0000.0000.000
145A77TYR00.082-0.10215.2710.0630.0630.0000.0000.0000.000
146A77TYR0-0.0920.09519.5800.0030.0030.0000.0000.0000.000
147A78HIS0-0.054-0.12118.2870.0290.0290.0000.0000.0000.000
148A78HIS0-0.0970.08318.7470.0090.0090.0000.0000.0000.000
149A79GLY00.039-0.10017.245-0.007-0.0070.0000.0000.0000.000
150A80LEU00.0540.01615.0400.0520.0520.0000.0000.0000.000
151A80LEU0-0.1020.07114.978-0.021-0.0210.0000.0000.0000.000
152A81ARG00.038-0.12110.6830.0170.0170.0000.0000.0000.000
153A81ARG10.7370.9866.513-1.222-1.2220.0000.0000.0000.000
154A82PRO00.022-0.0927.029-0.107-0.1070.0000.0000.0000.000
155A83GLU00.064-0.0167.878-0.372-0.3720.0000.0000.0000.000
156A83GLU-1-0.841-0.7645.9860.8920.8920.0000.0000.0000.000
157A84ASP00.094-0.0978.425-0.122-0.1220.0000.0000.0000.000
158A84ASP-1-0.906-0.82312.972-0.053-0.0530.0000.0000.0000.000
159A85VAL00.089-0.11211.5530.0270.0270.0000.0000.0000.000
160A85VAL0-0.0710.11211.4580.0000.0000.0000.0000.0000.000
161A86VAL00.084-0.0938.9450.0830.0830.0000.0000.0000.000
162A86VAL0-0.0810.0957.422-0.089-0.0890.0000.0000.0000.000
163A87MET00.029-0.12610.442-0.061-0.0610.0000.0000.0000.000
164A87MET0-0.1080.09110.3370.0640.0640.0000.0000.0000.000
165A88GLU00.113-0.08012.3970.0540.0540.0000.0000.0000.000
166A88GLU-1-0.992-0.85815.078-0.358-0.3580.0000.0000.0000.000
167A89LEU00.035-0.14713.6140.1110.1110.0000.0000.0000.000
168A89LEU0-0.1220.09812.058-0.020-0.0200.0000.0000.0000.000
169A90HIS00.082-0.08913.4830.0360.0360.0000.0000.0000.000
170A90HIS0-0.1400.06512.4470.0120.0120.0000.0000.0000.000
171A91ARG00.090-0.09214.4130.0440.0440.0000.0000.0000.000
172A91ARG10.8461.06117.1590.2750.2750.0000.0000.0000.000
173A92ARG0-0.050-0.10617.5390.0660.0660.0000.0000.0000.000
174A92ARG10.8121.01818.2640.4480.4480.0000.0000.0000.000
175A93GLU00.109-0.09418.0420.0670.0670.0000.0000.0000.000
176A93GLU-1-1.025-0.85417.229-0.551-0.5510.0000.0000.0000.000
177A94GLY0-0.015-0.09916.886-0.046-0.0460.0000.0000.0000.000