FMODB

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

Last updated: 2025-10-17

All entries: 77277

Number of unique PDB entries: 32023

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FMODB ID: 154YZ

Calculation Name: 4J2C-A-Xray540

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 4J2C

Chain ID: A

ChEMBL ID:

UniProt ID: O43752

Base Structure: X-ray

Registration Date: 2025-07-11

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
Remarks
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 210
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -803146.38236
FMO2-HF: Nuclear repulsion 759236.02843
FMO2-HF: Total energy -43910.353929
FMO2-MP2: Total energy -44037.893901


3D Structure Molmil
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:GLY)


Summations of interaction energy for fragment #1(A:1:GLY)
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.
-0.5460.4720.004-0.452-0.5720.001
Interaction energy analysis for fragmet #1(A:1:GLY)
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 : -0.023
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].
3A2ALA0-0.0610.1134.7580.4380.604-0.001-0.068-0.0990.000
4A3MET00.057-0.1063.814-1.041-0.1890.005-0.384-0.4730.001
5A3MET0-0.0990.0936.0620.1550.1550.0000.0000.0000.000
6A4GLU00.100-0.1196.2690.2990.2990.0000.0000.0000.000
7A4GLU-1-0.991-0.8369.709-0.204-0.2040.0000.0000.0000.000
8A5ASP00.083-0.1329.737-0.114-0.1140.0000.0000.0000.000
9A5ASP-1-0.911-0.79712.733-0.321-0.3210.0000.0000.0000.000
10A6PRO0-0.003-0.09312.4150.0810.0810.0000.0000.0000.000
11A7PHE00.2000.04615.0960.0380.0380.0000.0000.0000.000
12A7PHE0-0.1210.08217.5360.0100.0100.0000.0000.0000.000
13A8PHE00.051-0.10317.9500.0160.0160.0000.0000.0000.000
14A8PHE0-0.0810.08115.6230.0120.0120.0000.0000.0000.000
15A9VAL00.046-0.12718.1850.0320.0320.0000.0000.0000.000
16A9VAL0-0.0690.12016.428-0.002-0.0020.0000.0000.0000.000
17A10VAL00.134-0.08019.4080.0240.0240.0000.0000.0000.000
18A10VAL0-0.0210.13918.946-0.003-0.0030.0000.0000.0000.000
19A11LYS00.102-0.09521.3960.0150.0150.0000.0000.0000.000
20A11LYS10.8261.06322.7040.0860.0860.0000.0000.0000.000
21A12GLY0-0.034-0.11022.9790.0140.0140.0000.0000.0000.000
22A13GLU00.044-0.06423.8650.0180.0180.0000.0000.0000.000
23A13GLU-1-0.986-0.81421.830-0.150-0.1500.0000.0000.0000.000
24A14VAL00.129-0.08125.5080.0090.0090.0000.0000.0000.000
25A14VAL0-0.0840.12525.5220.0010.0010.0000.0000.0000.000
26A15GLN00.085-0.09227.4660.0070.0070.0000.0000.0000.000
27A15GLN0-0.0970.06827.5140.0000.0000.0000.0000.0000.000
28A16LYS00.088-0.09228.4010.0080.0080.0000.0000.0000.000
29A16LYS10.8461.07226.7120.0730.0730.0000.0000.0000.000
30A17ALA00.102-0.12329.6090.0090.0090.0000.0000.0000.000
31A17ALA0-0.0220.14029.938-0.001-0.0010.0000.0000.0000.000
32A18VAL00.046-0.13731.4460.0040.0040.0000.0000.0000.000
33A18VAL0-0.0830.12331.8030.0000.0000.0000.0000.0000.000
34A19ASN00.149-0.07333.1050.0040.0040.0000.0000.0000.000
35A19ASN0-0.1580.05832.180-0.001-0.0010.0000.0000.0000.000
36A20THR00.001-0.09534.2100.0050.0050.0000.0000.0000.000
37A20THR0-0.0540.07833.7150.0010.0010.0000.0000.0000.000
38A21ALA00.092-0.08635.5360.0040.0040.0000.0000.0000.000
39A21ALA0-0.0480.11135.982-0.001-0.0010.0000.0000.0000.000
40A22GLN00.067-0.10237.4060.0020.0020.0000.0000.0000.000
41A22GLN0-0.0860.09937.6320.0010.0010.0000.0000.0000.000
42A23GLY0-0.004-0.11039.0070.0030.0030.0000.0000.0000.000
43A24LEU00.073-0.03240.1160.0030.0030.0000.0000.0000.000
44A24LEU0-0.1140.11638.6150.0000.0000.0000.0000.0000.000
45A25PHE00.159-0.08741.5880.0020.0020.0000.0000.0000.000
46A25PHE0-0.0880.10442.045-0.001-0.0010.0000.0000.0000.000
47A26GLN00.118-0.09843.4470.0010.0010.0000.0000.0000.000
48A26GLN0-0.1280.08944.533-0.001-0.0010.0000.0000.0000.000
49A27ARG00.064-0.12044.8660.0020.0020.0000.0000.0000.000
50A27ARG10.8271.07745.0790.0270.0270.0000.0000.0000.000
51A28TRP00.065-0.09145.7650.0020.0020.0000.0000.0000.000
52A28TRP0-0.0460.09545.6670.0000.0000.0000.0000.0000.000
53A29THR00.011-0.08147.4580.0010.0010.0000.0000.0000.000
54A29THR0-0.0410.06647.3870.0000.0000.0000.0000.0000.000
55A30GLU00.089-0.10349.4710.0010.0010.0000.0000.0000.000
56A30GLU-1-0.980-0.84249.141-0.025-0.0250.0000.0000.0000.000
57A31LEU00.044-0.11050.5410.0020.0020.0000.0000.0000.000
58A31LEU0-0.1290.06548.6720.0000.0000.0000.0000.0000.000
59A32LEU00.032-0.12551.4940.0010.0010.0000.0000.0000.000
60A32LEU0-0.0970.11249.9730.0000.0000.0000.0000.0000.000
61A33GLN00.088-0.07353.2220.0000.0000.0000.0000.0000.000
62A33GLN0-0.1150.07753.8130.0000.0000.0000.0000.0000.000
63A34ASP00.068-0.13355.3970.0010.0010.0000.0000.0000.000
64A34ASP-1-0.972-0.83156.863-0.019-0.0190.0000.0000.0000.000
65A35PRO00.002-0.11156.6810.0000.0000.0000.0000.0000.000
66A36SER0-0.0060.00858.2670.0000.0000.0000.0000.0000.000
67A36SER0-0.0600.06759.5540.0000.0000.0000.0000.0000.000
68A37THR0-0.025-0.09855.9320.0000.0000.0000.0000.0000.000
69A37THR0-0.0240.06653.9120.0000.0000.0000.0000.0000.000
70A38ALA00.124-0.11053.9200.0000.0000.0000.0000.0000.000
71A38ALA0-0.1300.12353.8420.0000.0000.0000.0000.0000.000
72A39THR00.021-0.04554.3580.0000.0000.0000.0000.0000.000
73A39THR0-0.0660.05652.8840.0000.0000.0000.0000.0000.000
74A40ARG00.225-0.06152.967-0.001-0.0010.0000.0000.0000.000
75A40ARG10.8291.05752.6260.0300.0300.0000.0000.0000.000
76A41GLU00.066-0.10750.852-0.002-0.0020.0000.0000.0000.000
77A41GLU-1-1.010-0.86250.693-0.028-0.0280.0000.0000.0000.000
78A42GLU00.153-0.13648.789-0.002-0.0020.0000.0000.0000.000
79A42GLU-1-0.997-0.82048.877-0.027-0.0270.0000.0000.0000.000
80A43ILE00.072-0.10647.923-0.002-0.0020.0000.0000.0000.000
81A43ILE0-0.0580.13249.9000.0000.0000.0000.0000.0000.000
82A44ASP00.111-0.10947.647-0.002-0.0020.0000.0000.0000.000
83A44ASP-1-1.011-0.84948.044-0.035-0.0350.0000.0000.0000.000
84A45TRP00.082-0.11444.848-0.003-0.0030.0000.0000.0000.000
85A45TRP0-0.0740.10440.7500.0000.0000.0000.0000.0000.000
86A46THR0-0.041-0.11843.308-0.003-0.0030.0000.0000.0000.000
87A46THR0-0.0300.08244.0630.0000.0000.0000.0000.0000.000
88A47THR00.054-0.08042.878-0.003-0.0030.0000.0000.0000.000
89A47THR0-0.0600.07344.6850.0000.0000.0000.0000.0000.000
90A48ASN00.057-0.09542.169-0.003-0.0030.0000.0000.0000.000
91A48ASN0-0.1250.07541.910-0.002-0.0020.0000.0000.0000.000
92A49GLU00.109-0.12738.909-0.005-0.0050.0000.0000.0000.000
93A49GLU-1-0.943-0.80037.829-0.056-0.0560.0000.0000.0000.000
94A50LEU00.095-0.11637.930-0.005-0.0050.0000.0000.0000.000
95A50LEU0-0.0820.13839.1120.0000.0000.0000.0000.0000.000
96A51ARG00.080-0.10238.263-0.003-0.0030.0000.0000.0000.000
97A51ARG10.8441.05339.2840.0540.0540.0000.0000.0000.000
98A52ASN00.047-0.11135.834-0.005-0.0050.0000.0000.0000.000
99A52ASN0-0.1220.07234.165-0.005-0.0050.0000.0000.0000.000
100A53ASN00.045-0.07933.487-0.006-0.0060.0000.0000.0000.000
101A53ASN0-0.1300.05133.801-0.002-0.0020.0000.0000.0000.000
102A54LEU00.128-0.10833.103-0.007-0.0070.0000.0000.0000.000
103A54LEU0-0.0840.11036.1160.0010.0010.0000.0000.0000.000
104A55ARG00.145-0.05833.597-0.003-0.0030.0000.0000.0000.000
105A55ARG10.8031.04332.4360.0760.0760.0000.0000.0000.000
106A56SER00.026-0.08629.646-0.006-0.0060.0000.0000.0000.000
107A56SER0-0.0050.08728.2730.0020.0020.0000.0000.0000.000
108A57ILE00.067-0.08728.686-0.011-0.0110.0000.0000.0000.000
109A57ILE0-0.1360.08330.4710.0010.0010.0000.0000.0000.000
110A58GLU00.099-0.09029.512-0.006-0.0060.0000.0000.0000.000
111A58GLU-1-0.988-0.84332.451-0.076-0.0760.0000.0000.0000.000
112A59TRP00.102-0.07128.145-0.002-0.0020.0000.0000.0000.000
113A59TRP0-0.0960.07324.5260.0050.0050.0000.0000.0000.000
114A60ASP00.130-0.10024.975-0.011-0.0110.0000.0000.0000.000
115A60ASP-1-0.987-0.85525.550-0.138-0.1380.0000.0000.0000.000
116A61LEU00.006-0.13424.854-0.016-0.0160.0000.0000.0000.000
117A61LEU0-0.1060.07527.5890.0020.0020.0000.0000.0000.000
118A62GLU00.035-0.14126.538-0.001-0.0010.0000.0000.0000.000
119A62GLU-1-0.971-0.83526.990-0.124-0.1240.0000.0000.0000.000
120A63ASP00.168-0.08422.647-0.001-0.0010.0000.0000.0000.000
121A63ASP-1-1.005-0.82521.559-0.199-0.1990.0000.0000.0000.000
122A64LEU00.013-0.14621.775-0.025-0.0250.0000.0000.0000.000
123A64LEU0-0.0960.10421.0210.0030.0030.0000.0000.0000.000
124A65ASP00.122-0.11622.560-0.012-0.0120.0000.0000.0000.000
125A65ASP-1-0.904-0.78126.523-0.119-0.1190.0000.0000.0000.000
126A66GLU00.046-0.17922.8560.0070.0070.0000.0000.0000.000
127A66GLU-1-0.982-0.78522.151-0.199-0.1990.0000.0000.0000.000
128A67THR0-0.003-0.10919.083-0.010-0.0100.0000.0000.0000.000
129A67THR0-0.0740.04718.074-0.007-0.0070.0000.0000.0000.000
130A68ILE00.007-0.12019.446-0.024-0.0240.0000.0000.0000.000
131A68ILE0-0.0810.10322.4090.0040.0040.0000.0000.0000.000
132A69SER00.070-0.08121.9820.0030.0030.0000.0000.0000.000
133A69SER0-0.0240.09823.3110.0070.0070.0000.0000.0000.000
134A70ILE00.033-0.09118.4630.0170.0170.0000.0000.0000.000
135A70ILE0-0.0990.07916.411-0.013-0.0130.0000.0000.0000.000
136A71VAL00.008-0.15117.546-0.023-0.0230.0000.0000.0000.000
137A71VAL0-0.0520.10816.6060.0010.0010.0000.0000.0000.000
138A72GLU00.035-0.14918.5540.0040.0040.0000.0000.0000.000
139A72GLU-1-0.917-0.77623.123-0.109-0.1090.0000.0000.0000.000
140A73ALA00.095-0.10821.0980.0210.0210.0000.0000.0000.000
141A73ALA0-0.0850.12920.702-0.001-0.0010.0000.0000.0000.000
142A74ASN0-0.009-0.11216.8560.0130.0130.0000.0000.0000.000
143A74ASN0-0.1550.05914.2510.0190.0190.0000.0000.0000.000
144A75PRO00.097-0.05716.169-0.036-0.0360.0000.0000.0000.000
145A76ARG00.071-0.00215.7840.0010.0010.0000.0000.0000.000
146A76ARG10.8541.06414.1130.0320.0320.0000.0000.0000.000
147A77LYS00.080-0.11111.8780.0470.0470.0000.0000.0000.000
148A77LYS10.8371.05810.3000.6900.6900.0000.0000.0000.000
149A78PHE00.047-0.08211.237-0.072-0.0720.0000.0000.0000.000
150A78PHE0-0.0630.09012.622-0.029-0.0290.0000.0000.0000.000
151A79ASN00.097-0.07313.4720.0030.0030.0000.0000.0000.000
152A79ASN0-0.1350.05413.3070.0120.0120.0000.0000.0000.000
153A80LEU00.067-0.10415.0830.0200.0200.0000.0000.0000.000
154A80LEU0-0.0670.11016.261-0.003-0.0030.0000.0000.0000.000
155A81ASP00.137-0.07817.6590.0080.0080.0000.0000.0000.000
156A81ASP-1-0.914-0.82120.430-0.018-0.0180.0000.0000.0000.000
157A82ALA00.143-0.10120.742-0.017-0.0170.0000.0000.0000.000
158A82ALA0-0.0930.11023.9590.0010.0010.0000.0000.0000.000
159A83THR0-0.014-0.11023.769-0.009-0.0090.0000.0000.0000.000
160A83THR0-0.0220.08325.8360.0010.0010.0000.0000.0000.000
161A84GLU00.131-0.11522.0060.0000.0000.0000.0000.0000.000
162A84GLU-1-0.961-0.82118.957-0.095-0.0950.0000.0000.0000.000
163A85LEU00.084-0.11922.546-0.009-0.0090.0000.0000.0000.000
164A85LEU0-0.0940.12221.7900.0000.0000.0000.0000.0000.000
165A86SER00.027-0.10323.229-0.010-0.0100.0000.0000.0000.000
166A86SER0-0.0350.08727.6900.0010.0010.0000.0000.0000.000
167A87ILE00.092-0.08826.1410.0000.0000.0000.0000.0000.000
168A87ILE0-0.1220.08825.4670.0010.0010.0000.0000.0000.000
169A88ARG00.055-0.10723.3650.0050.0050.0000.0000.0000.000
170A88ARG10.7581.02416.6790.1950.1950.0000.0000.0000.000
171A89LYS00.121-0.08724.729-0.005-0.0050.0000.0000.0000.000
172A89LYS10.7631.01625.7900.0970.0970.0000.0000.0000.000
173A90ALA00.105-0.10127.389-0.001-0.0010.0000.0000.0000.000
174A90ALA0-0.0660.11729.9250.0020.0020.0000.0000.0000.000
175A91PHE00.030-0.10327.5130.0070.0070.0000.0000.0000.000
176A91PHE0-0.0760.08526.0780.0010.0010.0000.0000.0000.000
177A92ILE00.116-0.09327.8520.0050.0050.0000.0000.0000.000
178A92ILE0-0.0690.15224.6520.0010.0010.0000.0000.0000.000
179A93THR00.022-0.09028.8610.0010.0010.0000.0000.0000.000
180A93THR0-0.0580.06331.1660.0010.0010.0000.0000.0000.000
181A94SER00.044-0.10032.2670.0020.0020.0000.0000.0000.000
182A94SER0-0.0550.07331.9020.0010.0010.0000.0000.0000.000
183A95THR0-0.026-0.09531.3740.0070.0070.0000.0000.0000.000
184A95THR0-0.0170.08030.4730.0000.0000.0000.0000.0000.000
185A96ARG00.117-0.08732.5790.0020.0020.0000.0000.0000.000
186A96ARG10.7561.00129.6000.1010.1010.0000.0000.0000.000
187A97GLN00.126-0.07934.0440.0010.0010.0000.0000.0000.000
188A97GLN0-0.1290.08037.549-0.002-0.0020.0000.0000.0000.000
189A98VAL00.087-0.09236.3800.0030.0030.0000.0000.0000.000
190A98VAL0-0.0830.09635.5180.0000.0000.0000.0000.0000.000
191A99VAL00.054-0.11135.7860.0040.0040.0000.0000.0000.000
192A99VAL0-0.0670.10833.9570.0000.0000.0000.0000.0000.000
193A100ARG00.101-0.09737.0340.0020.0020.0000.0000.0000.000
194A100ARG10.8231.05438.2150.0580.0580.0000.0000.0000.000
195A101ASP00.115-0.10739.3130.0010.0010.0000.0000.0000.000
196A101ASP-1-0.962-0.81541.067-0.044-0.0440.0000.0000.0000.000
197A102MET00.074-0.09540.5180.0040.0040.0000.0000.0000.000
198A102MET0-0.1110.08437.2890.0000.0000.0000.0000.0000.000
199A103LYS00.079-0.08640.8800.0030.0030.0000.0000.0000.000
200A103LYS10.8151.02337.8440.0660.0660.0000.0000.0000.000
201A104ASP00.122-0.10342.1990.0010.0010.0000.0000.0000.000
202A104ASP-1-0.999-0.83444.260-0.046-0.0460.0000.0000.0000.000
203A105GLN00.014-0.12545.1390.0020.0020.0000.0000.0000.000
204A105GLN0-0.1070.08745.7460.0000.0000.0000.0000.0000.000
205A106MET00.080-0.07945.2580.0030.0030.0000.0000.0000.000
206A106MET0-0.1590.04643.331-0.001-0.0010.0000.0000.0000.000
207A107SER00.000-0.07045.6390.0020.0020.0000.0000.0000.000
208A107SER0-0.0710.04744.428-0.001-0.0010.0000.0000.0000.000
209A108THR0-0.159-0.11847.0470.0010.0010.0000.0000.0000.000
210A108THR00.0620.00149.2890.0010.0010.0000.0000.0000.000