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

tag_button

FMODB ID: 8Q1RY

Calculation Name: 6J4J-A-Xray547

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 6J4J

Chain ID: A

ChEMBL ID:

UniProt ID: Q94IC4

Base Structure: X-ray

Registration Date: 2025-10-06

Reference: Sci Data 11, 1164 (2024).

DOI: https://doi.org/10.1038/s41597-024-03999-2

Apendix: None


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptAll
Protonation MOE:Protonate 3D
Complement MOE:Homology Modeling
Water No
Procedure Manual calculation
Remarks
ac.sh, 23 2024 Oct; Missing atoms/residues were imported from a 100% homology model, which was constructed by MOE.
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 175
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -1850915.678775
FMO2-HF: Nuclear repulsion 1781398.614253
FMO2-HF: Total energy -69517.064522
FMO2-MP2: Total energy -69724.995704


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:33:ASN)


Summations of interaction energy for fragment #1(A:33:ASN)
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.
-72.621-70.883-0.007-0.862-0.869-0.001
Interaction energy analysis for fragmet #1(A:33:ASN)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.865 / q_NPA : 0.922
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].
3A35SER0-0.051-0.0193.699-9.888-8.424-0.006-0.754-0.704-0.001
76A108ARG10.8090.8864.07042.77343.047-0.001-0.108-0.1650.000
4A36LEU0-0.002-0.0165.7922.5662.5660.0000.0000.0000.000
5A37ALA00.0350.0248.1652.7792.7790.0000.0000.0000.000
6A38ARG10.7370.86710.27826.45126.4510.0000.0000.0000.000
7A39GLN00.010-0.00112.0280.1580.1580.0000.0000.0000.000
8A40ASN0-0.046-0.03215.6350.4740.4740.0000.0000.0000.000
9A41TYR00.0290.00514.1861.0931.0930.0000.0000.0000.000
10A42ALA00.0610.03415.384-1.429-1.4290.0000.0000.0000.000
11A43ASP-1-0.817-0.91113.054-21.578-21.5780.0000.0000.0000.000
12A44ASP-1-0.809-0.84615.670-13.195-13.1950.0000.0000.0000.000
13A45SER00.0460.01118.4440.5410.5410.0000.0000.0000.000
14A46GLU-1-0.805-0.87111.470-24.975-24.9750.0000.0000.0000.000
15A47SER0-0.053-0.03916.2670.0380.0380.0000.0000.0000.000
16A48ALA0-0.0050.00017.9150.4640.4640.0000.0000.0000.000
17A49ILE00.0430.02517.9690.5770.5770.0000.0000.0000.000
18A50ASN00.023-0.00114.1640.2320.2320.0000.0000.0000.000
19A51GLU-1-0.879-0.90918.613-11.790-11.7900.0000.0000.0000.000
20A52GLN0-0.026-0.03322.0340.3780.3780.0000.0000.0000.000
21A53ILE0-0.012-0.00718.0250.3160.3160.0000.0000.0000.000
22A54ASN0-0.049-0.03422.0880.6780.6780.0000.0000.0000.000
23A55VAL00.0000.01423.7080.5200.5200.0000.0000.0000.000
24A56GLU-1-0.787-0.89425.514-10.765-10.7650.0000.0000.0000.000
25A57TYR00.021-0.00121.1470.3940.3940.0000.0000.0000.000
26A58ASN0-0.033-0.02726.6110.6390.6390.0000.0000.0000.000
27A59VAL00.0040.01029.2510.3830.3830.0000.0000.0000.000
28A60SER0-0.026-0.01129.1150.2720.2720.0000.0000.0000.000
29A61TYR00.001-0.01329.8470.3270.3270.0000.0000.0000.000
30A62VAL0-0.007-0.01431.8310.3220.3220.0000.0000.0000.000
31A63TYR0-0.025-0.04234.2070.4670.4670.0000.0000.0000.000
32A64HIS0-0.0110.00533.5730.2710.2710.0000.0000.0000.000
33A65ALA0-0.028-0.01235.7240.2000.2000.0000.0000.0000.000
34A66LEU0-0.0140.00137.9310.2520.2520.0000.0000.0000.000
35A67PHE00.0220.00438.1820.1900.1900.0000.0000.0000.000
36A68ALA0-0.010-0.01039.2030.1980.1980.0000.0000.0000.000
37A69TYR0-0.047-0.03541.1470.1320.1320.0000.0000.0000.000
38A70PHE0-0.016-0.03643.8380.1930.1930.0000.0000.0000.000
39A71ASP-1-0.927-0.97043.663-7.002-7.0020.0000.0000.0000.000
40A72ARG10.7950.89143.6397.0227.0220.0000.0000.0000.000
41A73ASP-1-0.911-0.95947.720-6.101-6.1010.0000.0000.0000.000
42A74ASN0-0.030-0.02350.6500.0190.0190.0000.0000.0000.000
43A75ILE0-0.064-0.01848.5550.0710.0710.0000.0000.0000.000
44A76ALA0-0.026-0.01950.4170.0710.0710.0000.0000.0000.000
45A77LEU0-0.047-0.00149.0090.0740.0740.0000.0000.0000.000
46A78LYS10.9640.96646.8486.5426.5420.0000.0000.0000.000
47A79GLY00.0460.02546.121-0.152-0.1520.0000.0000.0000.000
48A80LEU0-0.027-0.02245.150-0.160-0.1600.0000.0000.0000.000
49A81ALA0-0.027-0.00343.110-0.201-0.2010.0000.0000.0000.000
50A82LYS10.7620.88041.5807.1477.1470.0000.0000.0000.000
51A83PHE00.0920.03640.324-0.211-0.2110.0000.0000.0000.000
52A84PHE00.008-0.00439.148-0.179-0.1790.0000.0000.0000.000
53A85LYS10.8650.94436.9197.9637.9630.0000.0000.0000.000
54A86GLU-1-0.829-0.91635.762-8.059-8.0590.0000.0000.0000.000
55A87SER00.000-0.00935.160-0.203-0.2030.0000.0000.0000.000
56A88SER0-0.065-0.04533.265-0.387-0.3870.0000.0000.0000.000
57A89GLU-1-0.943-0.95231.327-9.881-9.8810.0000.0000.0000.000
58A90GLU-1-0.837-0.91930.230-9.679-9.6790.0000.0000.0000.000
59A91GLU-1-0.833-0.91729.693-10.341-10.3410.0000.0000.0000.000
60A92ARG10.7580.86926.26110.48110.4810.0000.0000.0000.000
61A93GLU-1-0.876-0.93725.489-11.134-11.1340.0000.0000.0000.000
62A94HIS10.8090.90225.2129.8319.8310.0000.0000.0000.000
63A95ALA00.0320.01323.242-0.570-0.5700.0000.0000.0000.000
64A96GLU-1-0.908-0.95021.057-13.567-13.5670.0000.0000.0000.000
65A97GLN0-0.058-0.01520.439-0.756-0.7560.0000.0000.0000.000
66A98LEU00.0140.00820.582-0.773-0.7730.0000.0000.0000.000
67A99ILE0-0.033-0.02016.191-1.159-1.1590.0000.0000.0000.000
68A100LYS10.9010.94915.76313.79113.7910.0000.0000.0000.000
69A101TYR00.0260.00515.970-1.340-1.3400.0000.0000.0000.000
70A102GLN00.0210.00913.456-0.919-0.9190.0000.0000.0000.000
71A103ASN0-0.035-0.02011.410-2.399-2.3990.0000.0000.0000.000
72A104ILE0-0.034-0.00511.938-1.577-1.5770.0000.0000.0000.000
73A105ARG10.7720.88014.40416.64616.6460.0000.0000.0000.000
74A106GLY0-0.049-0.02210.219-0.700-0.7000.0000.0000.0000.000
75A107GLY00.0580.0209.562-3.240-3.2400.0000.0000.0000.000
77A109VAL00.0390.02410.5551.5741.5740.0000.0000.0000.000
78A110VAL0-0.051-0.02212.732-0.897-0.8970.0000.0000.0000.000
79A111LEU0-0.009-0.00115.0060.8500.8500.0000.0000.0000.000
80A112HIS00.0170.01317.6230.2790.2790.0000.0000.0000.000
81A113PRO0-0.012-0.00720.2830.2110.2110.0000.0000.0000.000
82A114ILE00.0190.02123.4390.1340.1340.0000.0000.0000.000
83A115THR0-0.040-0.02126.6180.1350.1350.0000.0000.0000.000
84A116SER0-0.025-0.01429.9160.0360.0360.0000.0000.0000.000
85A117PRO0-0.0020.01433.0390.1190.1190.0000.0000.0000.000
86A118PRO0-0.012-0.01735.6050.0920.0920.0000.0000.0000.000
87A119SER0-0.010-0.03539.365-0.100-0.1000.0000.0000.0000.000
88A120GLU-1-0.808-0.84541.148-6.888-6.8880.0000.0000.0000.000
89A121PHE0-0.008-0.02139.550-0.077-0.0770.0000.0000.0000.000
90A122GLU-1-0.923-0.94545.702-5.983-5.9830.0000.0000.0000.000
91A123HIS0-0.033-0.04248.461-0.091-0.0910.0000.0000.0000.000
92A124SER0-0.017-0.00351.2160.0980.0980.0000.0000.0000.000
93A125GLU-1-0.825-0.90353.824-5.783-5.7830.0000.0000.0000.000
94A126LYS10.8240.90249.4236.4136.4130.0000.0000.0000.000
95A127GLY00.0020.00653.2280.0650.0650.0000.0000.0000.000
96A128ASP-1-0.748-0.86548.574-6.352-6.3520.0000.0000.0000.000
97A129ALA00.0260.01347.855-0.139-0.1390.0000.0000.0000.000
98A130LEU0-0.038-0.00647.689-0.114-0.1140.0000.0000.0000.000
99A131TYR0-0.027-0.01044.319-0.109-0.1090.0000.0000.0000.000
100A132ALA00.0580.02743.878-0.141-0.1410.0000.0000.0000.000
101A133MET00.0090.02643.004-0.242-0.2420.0000.0000.0000.000
102A134GLU-1-0.767-0.87043.893-6.528-6.5280.0000.0000.0000.000
103A135LEU0-0.0120.01139.375-0.116-0.1160.0000.0000.0000.000
104A136ALA00.0460.02239.337-0.188-0.1880.0000.0000.0000.000
105A137LEU0-0.023-0.01539.124-0.171-0.1710.0000.0000.0000.000
106A138SER0-0.072-0.05239.974-0.059-0.0590.0000.0000.0000.000
107A139LEU0-0.0010.00934.892-0.176-0.1760.0000.0000.0000.000
108A140GLU-1-0.765-0.82234.852-9.081-9.0810.0000.0000.0000.000
109A141LYS10.9110.94935.2657.3597.3590.0000.0000.0000.000
110A142LEU00.0130.01632.640-0.111-0.1110.0000.0000.0000.000
111A143THR00.0370.01029.970-0.347-0.3470.0000.0000.0000.000
112A144ASN00.002-0.01631.013-0.426-0.4260.0000.0000.0000.000
113A145GLU-1-0.990-0.98332.715-9.062-9.0620.0000.0000.0000.000
114A146LYS10.8280.90927.31310.71010.7100.0000.0000.0000.000
115A147LEU00.0590.03027.176-0.334-0.3340.0000.0000.0000.000
116A148LEU0-0.017-0.01328.890-0.186-0.1860.0000.0000.0000.000
117A149HIS0-0.032-0.00625.0890.2210.2210.0000.0000.0000.000
118A150VAL00.0160.00023.420-0.305-0.3050.0000.0000.0000.000
119A151HIS10.7820.87025.75110.26510.2650.0000.0000.0000.000
120A152SER0-0.019-0.00328.343-0.085-0.0850.0000.0000.0000.000
121A153VAL0-0.048-0.02622.213-0.088-0.0880.0000.0000.0000.000
122A154ALA00.0210.01824.196-0.393-0.3930.0000.0000.0000.000
123A155ASP-1-0.842-0.91625.251-10.830-10.8300.0000.0000.0000.000
124A156ARG10.7790.87223.87212.19112.1910.0000.0000.0000.000
125A157ASN0-0.105-0.07621.717-0.438-0.4380.0000.0000.0000.000
126A158ASN0-0.056-0.02123.478-0.032-0.0320.0000.0000.0000.000
127A159ASP-1-0.783-0.87620.568-15.607-15.6070.0000.0000.0000.000
128A160PRO00.0360.00223.8370.1700.1700.0000.0000.0000.000
129A161GLN00.0290.03321.480-0.439-0.4390.0000.0000.0000.000
130A162LEU00.0150.00621.162-0.003-0.0030.0000.0000.0000.000
131A163ALA0-0.021-0.00923.2880.2930.2930.0000.0000.0000.000
132A164ASP-1-0.836-0.91926.737-11.118-11.1180.0000.0000.0000.000
133A165PHE0-0.027-0.00722.1570.1170.1170.0000.0000.0000.000
134A166ILE00.002-0.00424.5200.2100.2100.0000.0000.0000.000
135A167GLU-1-0.870-0.92427.361-9.879-9.8790.0000.0000.0000.000
136A168SER0-0.066-0.04128.9580.4690.4690.0000.0000.0000.000
137A169GLU-1-0.939-0.96725.808-11.122-11.1220.0000.0000.0000.000
138A170PHE0-0.017-0.00424.5160.0600.0600.0000.0000.0000.000
139A171LEU0-0.029-0.01329.9720.4070.4070.0000.0000.0000.000
140A172TYR00.016-0.00432.8290.4210.4210.0000.0000.0000.000
141A173GLU-1-0.769-0.86932.555-8.592-8.5920.0000.0000.0000.000
142A174GLN00.0630.03332.2650.5160.5160.0000.0000.0000.000
143A175VAL0-0.028-0.02235.0090.2950.2950.0000.0000.0000.000
144A176LYS10.7810.87836.6748.8198.8190.0000.0000.0000.000
145A177SER0-0.009-0.01136.7940.3360.3360.0000.0000.0000.000
146A178ILE00.007-0.00837.1960.2620.2620.0000.0000.0000.000
147A179LYS10.8010.88940.4487.0047.0040.0000.0000.0000.000
148A180LYS10.9921.00839.1798.1178.1170.0000.0000.0000.000
149A181ILE00.0230.01639.4800.2120.2120.0000.0000.0000.000
150A182ALA0-0.018-0.01243.6030.1610.1610.0000.0000.0000.000
151A183GLU-1-0.837-0.90846.100-6.532-6.5320.0000.0000.0000.000
152A184TYR00.0080.01143.2770.1560.1560.0000.0000.0000.000
153A185VAL0-0.0160.00046.1140.1470.1470.0000.0000.0000.000
154A186ALA0-0.043-0.02548.8200.1520.1520.0000.0000.0000.000
155A187GLN0-0.014-0.03049.6070.1940.1940.0000.0000.0000.000
156A188LEU00.0000.00048.5290.1400.1400.0000.0000.0000.000
157A189ARG10.7870.88150.2636.3386.3380.0000.0000.0000.000
158A190LEU0-0.055-0.00754.6700.1170.1170.0000.0000.0000.000
159A191VAL0-0.039-0.01055.0260.1190.1190.0000.0000.0000.000
160A192GLY00.0270.02757.2170.1030.1030.0000.0000.0000.000
161A193LYS10.8340.88255.9235.5355.5350.0000.0000.0000.000
162A194GLY00.0080.00857.0920.1010.1010.0000.0000.0000.000
163A195HIS00.0280.00457.409-0.132-0.1320.0000.0000.0000.000
164A196GLY00.0430.03058.094-0.047-0.0470.0000.0000.0000.000
165A197VAL00.011-0.00652.153-0.085-0.0850.0000.0000.0000.000
166A198TRP00.0350.02053.302-0.071-0.0710.0000.0000.0000.000
167A199HIS0-0.003-0.00354.492-0.097-0.0970.0000.0000.0000.000
168A200PHE00.006-0.00348.160-0.048-0.0480.0000.0000.0000.000
169A201ASP-1-0.793-0.89049.221-6.582-6.5820.0000.0000.0000.000
170A202GLN00.014-0.00450.262-0.074-0.0740.0000.0000.0000.000
171A203LYS10.8020.89748.7916.4626.4620.0000.0000.0000.000
172A204LEU0-0.028-0.01245.168-0.052-0.0520.0000.0000.0000.000
173A205LEU0-0.009-0.01246.474-0.163-0.1630.0000.0000.0000.000
174A206HIS0-0.185-0.08947.544-0.045-0.0450.0000.0000.0000.000
175A207ASP-2-1.718-1.82044.801-13.872-13.8720.0000.0000.0000.000