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: 7YJ8K

Calculation Name: 3MOP-K-Xray540

Preferred Name: Interleukin-1 receptor-associated kinase-like 2

Target Type: SINGLE PROTEIN

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 3MOP

Chain ID: K

ChEMBL ID: CHEMBL4105759

UniProt ID: O43187

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 OptHSide
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 183
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -755199.594219
FMO2-HF: Nuclear repulsion 714973.684783
FMO2-HF: Total energy -40225.909436
FMO2-MP2: Total energy -40339.79565


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(K:2:ALA)


Summations of interaction energy for fragment #1(K:2:ALA)
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.
-0.618-0.7081.1333.289-4.3350.018
Interaction energy analysis for fragmet #1(K:2:ALA)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.178 / q_NPA : 0.031
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].
4K3CYS0-0.1060.1044.398-0.0060.5870.002-0.335-0.2600.000
5K4TYR00.040-0.1063.818-2.5870.465-0.022-1.811-1.2190.005
6K4TYR0-0.0700.0966.3040.0100.0100.0000.0000.0000.000
7K5ILE00.156-0.0654.910-0.172-0.061-0.002-0.002-0.1070.000
8K5ILE0-0.0880.1098.7830.0360.0360.0000.0000.0000.000
9K6TYR00.082-0.0806.7340.1810.1810.0000.0000.0000.000
10K6TYR0-0.0950.0758.1450.0090.0090.0000.0000.0000.000
11K7GLN0-0.008-0.1273.7800.0380.0840.0000.018-0.0630.000
12K7GLN0-0.1060.0843.069-0.935-0.8050.097-0.139-0.0880.000
13K8LEU00.055-0.1333.4301.8952.7520.035-0.433-0.460-0.003
14K8LEU0-0.0930.1313.837-0.280-0.2540.0050.055-0.0860.000
15K9PRO00.030-0.0954.321-0.379-0.337-0.002-0.011-0.0300.000
16K10SER00.1060.0277.407-0.379-0.3790.0000.0000.0000.000
17K10SER0-0.0100.08511.393-0.038-0.0380.0000.0000.0000.000
18K11TRP00.047-0.08210.834-0.188-0.1880.0000.0000.0000.000
19K11TRP0-0.0510.1009.5820.1840.1840.0000.0000.0000.000
20K12VAL00.085-0.0788.273-0.167-0.1670.0000.0000.0000.000
21K12VAL0-0.0770.0946.8070.0020.0020.0000.0000.0000.000
22K13LEU00.174-0.0659.753-0.270-0.2700.0000.0000.0000.000
23K13LEU0-0.1440.0819.3820.0070.0070.0000.0000.0000.000
24K14ASP00.043-0.08810.699-0.116-0.1160.0000.0000.0000.000
25K14ASP-1-0.889-0.83314.5440.2480.2480.0000.0000.0000.000
26K15ASP00.075-0.12913.466-0.066-0.0660.0000.0000.0000.000
27K15ASP-1-0.965-0.84912.7850.2760.2760.0000.0000.0000.000
28K16LEU00.065-0.08812.035-0.023-0.0230.0000.0000.0000.000
29K16LEU0-0.0950.08310.117-0.039-0.0390.0000.0000.0000.000
30K17CYS00.032-0.15213.452-0.078-0.0780.0000.0000.0000.000
31K17CYS0-0.1540.10114.832-0.007-0.0070.0000.0000.0000.000
32K18ARG00.088-0.11415.8690.0090.0090.0000.0000.0000.000
33K18ARG10.7781.01717.056-0.149-0.1490.0000.0000.0000.000
34K19ASN00.0910.02516.9620.0090.0090.0000.0000.0000.000
35K19ASN0-0.201-0.02816.162-0.018-0.0180.0000.0000.0000.000
36K20MET00.088-0.08817.2980.0220.0220.0000.0000.0000.000
37K20MET0-0.0930.08213.917-0.026-0.0260.0000.0000.0000.000
38K21ASP00.158-0.02418.643-0.011-0.0110.0000.0000.0000.000
39K21ASP-1-0.805-0.75718.975-0.036-0.0360.0000.0000.0000.000
40K22ALA00.118-0.10520.475-0.010-0.0100.0000.0000.0000.000
41K22ALA0-0.1350.08523.1960.0050.0050.0000.0000.0000.000
42K23LEU00.041-0.14622.1570.0130.0130.0000.0000.0000.000
43K23LEU0-0.1320.08719.823-0.006-0.0060.0000.0000.0000.000
44K24SER0-0.001-0.08923.543-0.013-0.0130.0000.0000.0000.000
45K24SER0-0.0830.05225.7250.0040.0040.0000.0000.0000.000
46K25GLU00.195-0.07325.646-0.017-0.0170.0000.0000.0000.000
47K25GLU-1-0.954-0.79928.096-0.067-0.0670.0000.0000.0000.000
48K26TRP0-0.005-0.13027.287-0.005-0.0050.0000.0000.0000.000
49K26TRP0-0.0880.07728.5830.0030.0030.0000.0000.0000.000
50K27ASP00.181-0.08124.260-0.011-0.0110.0000.0000.0000.000
51K27ASP-1-0.920-0.82823.535-0.129-0.1290.0000.0000.0000.000
52K28TRP00.066-0.06521.450-0.032-0.0320.0000.0000.0000.000
53K28TRP0-0.0410.10519.4010.0090.0090.0000.0000.0000.000
54K29MET00.107-0.04822.109-0.030-0.0300.0000.0000.0000.000
55K29MET0-0.0790.08425.6700.0080.0080.0000.0000.0000.000
56K30GLU00.020-0.16824.383-0.002-0.0020.0000.0000.0000.000
57K30GLU-1-0.942-0.81223.464-0.197-0.1970.0000.0000.0000.000
58K31PHE00.145-0.06619.673-0.016-0.0160.0000.0000.0000.000
59K31PHE0-0.0990.07014.364-0.006-0.0060.0000.0000.0000.000
60K32ALA00.097-0.10019.739-0.044-0.0440.0000.0000.0000.000
61K32ALA0-0.1120.09321.2980.0070.0070.0000.0000.0000.000
62K33SER0-0.047-0.10321.024-0.021-0.0210.0000.0000.0000.000
63K33SER0-0.0430.06625.0700.0020.0020.0000.0000.0000.000
64K34TYR0-0.006-0.12521.5170.0140.0140.0000.0000.0000.000
65K34TYR0-0.0640.10720.604-0.009-0.0090.0000.0000.0000.000
66K35VAL00.076-0.09318.338-0.040-0.0400.0000.0000.0000.000
67K35VAL0-0.1440.09316.354-0.005-0.0050.0000.0000.0000.000
68K36ILE00.045-0.12019.090-0.007-0.0070.0000.0000.0000.000
69K36ILE0-0.0880.08118.391-0.007-0.0070.0000.0000.0000.000
70K37THR00.040-0.02621.4770.0120.0120.0000.0000.0000.000
71K37THR0-0.0890.01120.754-0.001-0.0010.0000.0000.0000.000
72K38ASP00.055-0.09023.215-0.003-0.0030.0000.0000.0000.000
73K38ASP-1-0.834-0.81727.061-0.144-0.1440.0000.0000.0000.000
74K39LEU00.140-0.08226.959-0.001-0.0010.0000.0000.0000.000
75K39LEU0-0.1200.09230.7050.0010.0010.0000.0000.0000.000
76K40THR00.077-0.06329.3300.0040.0040.0000.0000.0000.000
77K40THR0-0.0480.04930.3760.0020.0020.0000.0000.0000.000
78K41GLN00.039-0.10325.4500.0150.0150.0000.0000.0000.000
79K41GLN0-0.1090.04124.6500.0050.0050.0000.0000.0000.000
80K42LEU00.122-0.07424.8600.0100.0100.0000.0000.0000.000
81K42LEU0-0.0790.11923.9720.0000.0000.0000.0000.0000.000
82K43ARG00.087-0.09625.8610.0050.0050.0000.0000.0000.000
83K43ARG10.8671.07829.5270.0920.0920.0000.0000.0000.000
84K44LYS00.147-0.03026.9600.0100.0100.0000.0000.0000.000
85K44LYS10.8361.02723.3320.0760.0760.0000.0000.0000.000
86K45ILE0-0.002-0.09622.9900.0170.0170.0000.0000.0000.000
87K45ILE0-0.0990.08019.889-0.003-0.0030.0000.0000.0000.000
88K46LYS00.169-0.07523.7900.0000.0000.0000.0000.0000.000
89K46LYS10.6730.94726.4310.0730.0730.0000.0000.0000.000
90K47SER00.108-0.05526.3010.0070.0070.0000.0000.0000.000
91K47SER0-0.0550.05928.811-0.001-0.0010.0000.0000.0000.000
92K48MET0-0.018-0.13024.7620.0100.0100.0000.0000.0000.000
93K48MET0-0.1130.07223.575-0.005-0.0050.0000.0000.0000.000
94K49GLU00.214-0.06825.0440.0140.0140.0000.0000.0000.000
95K49GLU-1-0.941-0.80125.568-0.059-0.0590.0000.0000.0000.000
96K50TRP0-0.035-0.08426.0120.0110.0110.0000.0000.0000.000
97K50TRP0-0.1200.07130.3330.0050.0050.0000.0000.0000.000
98K51VAL00.109-0.08827.7930.0020.0020.0000.0000.0000.000
99K51VAL0-0.0940.07326.6070.0010.0010.0000.0000.0000.000
100K52GLN0-0.014-0.11027.002-0.002-0.0020.0000.0000.0000.000
101K52GLN0-0.0800.05227.4780.0000.0000.0000.0000.0000.000
102K53GLY00.089-0.06925.2220.0080.0080.0000.0000.0000.000
103K54VAL00.056-0.01221.8700.0230.0230.0000.0000.0000.000
104K54VAL0-0.1110.11121.9520.0010.0010.0000.0000.0000.000
105K55SER00.201-0.00718.711-0.019-0.0190.0000.0000.0000.000
106K55SER0-0.0960.02417.910-0.002-0.0020.0000.0000.0000.000
107K56ILE00.035-0.13419.0730.0000.0000.0000.0000.0000.000
108K56ILE0-0.0760.14321.020-0.001-0.0010.0000.0000.0000.000
109K57THR0-0.002-0.14716.836-0.027-0.0270.0000.0000.0000.000
110K57THR0-0.0100.09414.789-0.015-0.0150.0000.0000.0000.000
111K58ARG00.068-0.06614.915-0.067-0.0670.0000.0000.0000.000
112K58ARG10.7811.00313.812-0.120-0.1200.0000.0000.0000.000
113K59GLU00.096-0.09615.380-0.028-0.0280.0000.0000.0000.000
114K59GLU-1-0.920-0.77717.3770.0360.0360.0000.0000.0000.000
115K60LEU00.125-0.15217.513-0.008-0.0080.0000.0000.0000.000
116K60LEU0-0.1140.11517.072-0.001-0.0010.0000.0000.0000.000
117K61LEU00.018-0.13912.775-0.046-0.0460.0000.0000.0000.000
118K61LEU0-0.0890.11410.872-0.021-0.0210.0000.0000.0000.000
119K62TRP00.112-0.09012.602-0.093-0.0930.0000.0000.0000.000
120K62TRP0-0.0710.09712.826-0.005-0.0050.0000.0000.0000.000
121K63TRP00.006-0.09513.643-0.009-0.0090.0000.0000.0000.000
122K63TRP0-0.0610.07617.7720.0050.0050.0000.0000.0000.000
123K64TRP00.081-0.09514.4630.0220.0220.0000.0000.0000.000
124K64TRP0-0.0590.11313.452-0.025-0.0250.0000.0000.0000.000
125K65GLY0-0.026-0.13011.138-0.084-0.0840.0000.0000.0000.000
126K66MET00.094-0.00311.979-0.049-0.0490.0000.0000.0000.000
127K66MET0-0.1010.10615.4060.0240.0240.0000.0000.0000.000
128K67ARG00.035-0.07614.5490.0350.0350.0000.0000.0000.000
129K67ARG10.8121.01615.8240.3390.3390.0000.0000.0000.000
130K68GLN00.040-0.08811.984-0.022-0.0220.0000.0000.0000.000
131K68GLN0-0.0800.10111.415-0.021-0.0210.0000.0000.0000.000
132K69ALA00.124-0.11811.767-0.092-0.0920.0000.0000.0000.000
133K69ALA0-0.0550.10611.5250.0090.0090.0000.0000.0000.000
134K70THR00.049-0.0518.471-0.043-0.0430.0000.0000.0000.000
135K70THR0-0.113-0.0028.512-0.067-0.0670.0000.0000.0000.000
136K71VAL00.161-0.0945.0780.6500.687-0.002-0.002-0.0350.000
137K71VAL0-0.0620.1303.611-0.054-0.0230.0030.050-0.0840.000
138K72GLN00.034-0.1196.6120.2050.2050.0000.0000.0000.000
139K72GLN0-0.0360.0916.1420.1000.1000.0000.0000.0000.000
140K73GLN00.092-0.0829.0160.2410.2410.0000.0000.0000.000
141K73GLN0-0.0120.13411.330-0.073-0.0730.0000.0000.0000.000
142K74LEU00.117-0.0689.7880.2510.2510.0000.0000.0000.000
143K74LEU0-0.0980.1018.988-0.035-0.0350.0000.0000.0000.000
144K75VAL00.049-0.1219.7050.1900.1900.0000.0000.0000.000
145K75VAL0-0.0440.0938.545-0.020-0.0200.0000.0000.0000.000
146K76ASP00.118-0.02611.1170.1500.1500.0000.0000.0000.000
147K76ASP-1-0.929-0.82713.593-0.658-0.6580.0000.0000.0000.000
148K77LEU00.029-0.11913.9830.0940.0940.0000.0000.0000.000
149K77LEU0-0.1050.08415.082-0.008-0.0080.0000.0000.0000.000
150K78LEU00.084-0.08914.2920.0790.0790.0000.0000.0000.000
151K78LEU0-0.0960.08011.961-0.005-0.0050.0000.0000.0000.000
152K79CYS00.096-0.09715.4770.0550.0550.0000.0000.0000.000
153K79CYS0-0.1690.06514.777-0.001-0.0010.0000.0000.0000.000
154K80ARG00.124-0.05017.5930.0580.0580.0000.0000.0000.000
155K80ARG10.7471.00016.9390.5010.5010.0000.0000.0000.000
156K81LEU00.038-0.14519.3710.0220.0220.0000.0000.0000.000
157K81LEU0-0.0810.11619.063-0.007-0.0070.0000.0000.0000.000
158K82GLU00.038-0.12020.4790.0120.0120.0000.0000.0000.000
159K82GLU-1-0.911-0.78922.793-0.252-0.2520.0000.0000.0000.000
160K83LEU00.035-0.11618.6570.0450.0450.0000.0000.0000.000
161K83LEU0-0.0730.09818.035-0.004-0.0040.0000.0000.0000.000
162K84TYR00.174-0.09216.849-0.043-0.0430.0000.0000.0000.000
163K84TYR0-0.1340.05717.521-0.011-0.0110.0000.0000.0000.000
164K85ARG00.078-0.09316.341-0.024-0.0240.0000.0000.0000.000
165K85ARG10.8951.05519.4680.1430.1430.0000.0000.0000.000
166K86ALA00.056-0.07215.1140.0550.0550.0000.0000.0000.000
167K86ALA0-0.0740.09314.282-0.004-0.0040.0000.0000.0000.000
168K87ALA00.144-0.09611.6980.0130.0130.0000.0000.0000.000
169K87ALA0-0.0220.11512.621-0.010-0.0100.0000.0000.0000.000
170K88GLN0-0.035-0.13011.846-0.102-0.1020.0000.0000.0000.000
171K88GLN0-0.0560.08515.6040.0080.0080.0000.0000.0000.000
172K89ILE00.062-0.08311.9280.0210.0210.0000.0000.0000.000
173K89ILE0-0.0850.1139.9830.0140.0140.0000.0000.0000.000
174K90ILE00.014-0.1107.9800.2360.2360.0000.0000.0000.000
175K90ILE0-0.0640.1127.042-0.042-0.0420.0000.0000.0000.000
176K91LEU00.130-0.1167.668-0.537-0.5370.0000.0000.0000.000
177K91LEU0-0.0830.11110.522-0.010-0.0100.0000.0000.0000.000
178K92ASN0-0.100-0.1629.7850.0200.0200.0000.0000.0000.000
179K92ASN0-0.0450.11211.0250.0430.0430.0000.0000.0000.000
180K93TRP00.122-0.0856.1460.3390.3390.0000.0000.0000.000
181K93TRP0-0.0540.1082.4891.242-3.7861.0205.909-1.9010.016
182K94LYS0-0.149-0.1644.467-0.940-0.927-0.001-0.010-0.0020.000
183K94LYS11.0461.0377.5861.2981.2980.0000.0000.0000.000