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: 8NMNY

Calculation Name: 4IOH-A-Xray540

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 4IOH

Chain ID: A

ChEMBL ID:

UniProt ID: Q8DJY4

Base Structure: X-ray

Registration Date: 2025-07-09

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 219
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -895359.070395
FMO2-HF: Nuclear repulsion 848225.513356
FMO2-HF: Total energy -47133.557039
FMO2-MP2: Total energy -47264.146119


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:2:MET)


Summations of interaction energy for fragment #1(A:2:MET)
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.
-0.3950.8910.004-0.633-0.6560.003
Interaction energy analysis for fragmet #1(A:2:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.169 / q_NPA : 0.021
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].
4A3THR0-0.0250.0653.7800.3030.6610.010-0.146-0.2210.000
5A4THR00.026-0.0183.866-1.370-0.442-0.006-0.487-0.4350.003
6A4THR0-0.0320.0505.9650.1530.1530.0000.0000.0000.000
7A5MET00.175-0.0706.2870.6350.6350.0000.0000.0000.000
8A5MET0-0.1020.1077.304-0.030-0.0300.0000.0000.0000.000
9A6ASN00.059-0.0649.197-0.131-0.1310.0000.0000.0000.000
10A6ASN0-0.0350.07313.6600.0410.0410.0000.0000.0000.000
11A7VAL00.047-0.08413.043-0.017-0.0170.0000.0000.0000.000
12A7VAL0-0.0440.08217.1930.0030.0030.0000.0000.0000.000
13A8LEU00.057-0.14815.685-0.002-0.0020.0000.0000.0000.000
14A8LEU0-0.0520.13216.0720.0050.0050.0000.0000.0000.000
15A9GLY0-0.005-0.08112.2090.0620.0620.0000.0000.0000.000
16A10THR0-0.057-0.00911.3940.1070.1070.0000.0000.0000.000
17A10THR0-0.0220.07013.3730.0160.0160.0000.0000.0000.000
18A11PRO00.021-0.1148.982-0.160-0.1600.0000.0000.0000.000
19A12LEU00.140-0.0189.9430.1540.1540.0000.0000.0000.000
20A12LEU0-0.1340.11810.769-0.030-0.0300.0000.0000.0000.000
21A13GLU00.023-0.10411.9070.0280.0280.0000.0000.0000.000
22A13GLU-1-1.024-0.86714.968-0.007-0.0070.0000.0000.0000.000
23A14CYS00.163-0.11014.827-0.094-0.0940.0000.0000.0000.000
24A14CYS0-0.2230.19617.6910.0090.0090.0000.0000.0000.000
25A15CYS00.091-0.10017.2020.0200.0200.0000.0000.0000.000
26A15CYS0-0.1500.10118.7010.0040.0040.0000.0000.0000.000
27A16CYS00.060-0.14419.613-0.012-0.0120.0000.0000.0000.000
28A17GLN00.080-0.07922.128-0.003-0.0030.0000.0000.0000.000
29A17GLN0-0.0600.12025.567-0.004-0.0040.0000.0000.0000.000
30A18ASN00.092-0.07325.8900.0110.0110.0000.0000.0000.000
31A18ASN0-0.1250.06328.1220.0120.0120.0000.0000.0000.000
32A19PRO00.009-0.10128.417-0.006-0.0060.0000.0000.0000.000
33A20LEU00.181-0.00925.129-0.009-0.0090.0000.0000.0000.000
34A20LEU0-0.1400.13321.905-0.001-0.0010.0000.0000.0000.000
35A21THR0-0.040-0.13723.8120.0130.0130.0000.0000.0000.000
36A21THR0-0.0170.13322.5070.0070.0070.0000.0000.0000.000
37A22GLY00.127-0.05122.4700.0060.0060.0000.0000.0000.000
38A23PHE00.1320.00723.542-0.014-0.0140.0000.0000.0000.000
39A23PHE0-0.0760.11224.400-0.001-0.0010.0000.0000.0000.000
40A24TYR0-0.006-0.13321.327-0.008-0.0080.0000.0000.0000.000
41A24TYR0-0.1120.09720.5570.0170.0170.0000.0000.0000.000
42A25ARG00.065-0.08021.3810.0120.0120.0000.0000.0000.000
43A25ARG10.8151.04323.155-0.046-0.0460.0000.0000.0000.000
44A26ASP00.136-0.10318.096-0.029-0.0290.0000.0000.0000.000
45A26ASP-1-0.833-0.75317.1240.2080.2080.0000.0000.0000.000
46A27GLY0-0.022-0.14618.164-0.036-0.0360.0000.0000.0000.000
47A28PHE00.0700.01418.244-0.034-0.0340.0000.0000.0000.000
48A28PHE0-0.1060.08315.0210.0150.0150.0000.0000.0000.000
49A29CYS00.068-0.09319.6910.0260.0260.0000.0000.0000.000
50A29CYS0-0.2290.23222.681-0.009-0.0090.0000.0000.0000.000
51A30ARG00.128-0.10018.9330.0000.0000.0000.0000.0000.000
52A30ARG10.7571.00316.821-0.291-0.2910.0000.0000.0000.000
53A31THR00.054-0.06220.353-0.018-0.0180.0000.0000.0000.000
54A31THR0-0.0070.07822.190-0.002-0.0020.0000.0000.0000.000
55A32GLY0-0.061-0.16920.7950.0420.0420.0000.0000.0000.000
56A33ALA00.1220.02422.609-0.023-0.0230.0000.0000.0000.000
57A33ALA0-0.0870.10023.9600.0040.0040.0000.0000.0000.000
58A34GLY0-0.033-0.11625.042-0.015-0.0150.0000.0000.0000.000
59A35ASP00.1190.00826.264-0.017-0.0170.0000.0000.0000.000
60A35ASP-1-0.838-0.78126.1880.1500.1500.0000.0000.0000.000
61A36VAL00.061-0.11527.9330.0160.0160.0000.0000.0000.000
62A36VAL0-0.0520.14030.616-0.002-0.0020.0000.0000.0000.000
63A37GLY0-0.058-0.15830.341-0.007-0.0070.0000.0000.0000.000
64A38ALA00.1160.01327.275-0.009-0.0090.0000.0000.0000.000
65A38ALA0-0.0420.12927.9400.0010.0010.0000.0000.0000.000
66A39HIS00.004-0.09727.290-0.012-0.0120.0000.0000.0000.000
67A39HIS10.6940.96426.678-0.112-0.1120.0000.0000.0000.000
68A40VAL00.139-0.11624.5000.0000.0000.0000.0000.0000.000
69A40VAL0-0.1080.11823.6800.0020.0020.0000.0000.0000.000
70A41VAL00.172-0.09125.0660.0030.0030.0000.0000.0000.000
71A41VAL0-0.0650.12828.7420.0000.0000.0000.0000.0000.000
72A42CYS00.163-0.08425.2710.0000.0000.0000.0000.0000.000
73A42CYS0-0.1160.09424.394-0.006-0.0060.0000.0000.0000.000
74A43ALA00.092-0.09526.501-0.009-0.0090.0000.0000.0000.000
75A43ALA0-0.0530.11531.0240.0020.0020.0000.0000.0000.000
76A44GLN00.084-0.11229.835-0.002-0.0020.0000.0000.0000.000
77A44GLN0-0.1750.04931.150-0.001-0.0010.0000.0000.0000.000
78A45MET00.094-0.13631.9260.0050.0050.0000.0000.0000.000
79A45MET0-0.1510.11832.1960.0020.0020.0000.0000.0000.000
80A46THR00.065-0.08334.895-0.008-0.0080.0000.0000.0000.000
81A46THR0-0.0150.07336.7980.0010.0010.0000.0000.0000.000
82A47ALA00.167-0.10638.3780.0050.0050.0000.0000.0000.000
83A47ALA0-0.0620.12942.061-0.001-0.0010.0000.0000.0000.000
84A48GLU00.013-0.13741.4350.0030.0030.0000.0000.0000.000
85A48GLU-1-0.872-0.75540.4840.0040.0040.0000.0000.0000.000
86A49PHE00.196-0.08838.6530.0040.0040.0000.0000.0000.000
87A49PHE0-0.0410.13435.5030.0000.0000.0000.0000.0000.000
88A50LEU00.077-0.10039.1610.0060.0060.0000.0000.0000.000
89A50LEU0-0.1130.09536.816-0.001-0.0010.0000.0000.0000.000
90A51THR0-0.001-0.08439.9770.0040.0040.0000.0000.0000.000
91A51THR0-0.1030.05544.1350.0000.0000.0000.0000.0000.000
92A52PHE00.058-0.11842.7980.0020.0020.0000.0000.0000.000
93A52PHE0-0.0680.12340.4750.0000.0000.0000.0000.0000.000
94A53THR0-0.002-0.12839.3060.0020.0020.0000.0000.0000.000
95A53THR0-0.0140.10237.5530.0000.0000.0000.0000.0000.000
96A54ARG00.162-0.06340.8550.0060.0060.0000.0000.0000.000
97A54ARG10.8381.07342.362-0.016-0.0160.0000.0000.0000.000
98A55SER0-0.076-0.14742.6490.0030.0030.0000.0000.0000.000
99A55SER0-0.0290.10345.4080.0000.0000.0000.0000.0000.000
100A56ARG00.064-0.12142.8380.0000.0000.0000.0000.0000.000
101A56ARG10.8551.11141.923-0.039-0.0390.0000.0000.0000.000
102A57GLY0-0.026-0.10342.8460.0050.0050.0000.0000.0000.000
103A58ASN0-0.069-0.01338.8880.0050.0050.0000.0000.0000.000
104A58ASN0-0.0710.04535.7390.0000.0000.0000.0000.0000.000
105A59ASP00.167-0.07138.936-0.002-0.0020.0000.0000.0000.000
106A59ASP-1-0.838-0.77241.2140.0240.0240.0000.0000.0000.000
107A60LEU0-0.014-0.12036.0460.0040.0040.0000.0000.0000.000
108A60LEU0-0.0410.11534.0750.0010.0010.0000.0000.0000.000
109A61SER00.060-0.06836.691-0.004-0.0040.0000.0000.0000.000
110A61SER0-0.0420.04839.534-0.002-0.0020.0000.0000.0000.000
111A62THR0-0.040-0.13539.386-0.006-0.0060.0000.0000.0000.000
112A62THR0-0.0680.05241.492-0.001-0.0010.0000.0000.0000.000
113A63PRO0-0.022-0.11637.9960.0030.0030.0000.0000.0000.000
114A64VAL00.058-0.02837.2890.0000.0000.0000.0000.0000.000
115A64VAL0-0.0700.13536.2420.0010.0010.0000.0000.0000.000
116A65PRO0-0.029-0.11335.8540.0030.0030.0000.0000.0000.000
117A66ALA00.1100.02236.259-0.003-0.0030.0000.0000.0000.000
118A66ALA0-0.0690.10335.8660.0010.0010.0000.0000.0000.000
119A67TYR00.082-0.13731.8980.0010.0010.0000.0000.0000.000
120A67TYR0-0.1050.09429.4810.0010.0010.0000.0000.0000.000
121A68GLN00.086-0.07531.216-0.001-0.0010.0000.0000.0000.000
122A68GLN0-0.0690.11831.754-0.002-0.0020.0000.0000.0000.000
123A69PHE00.065-0.13631.862-0.006-0.0060.0000.0000.0000.000
124A69PHE0-0.0890.11931.7900.0020.0020.0000.0000.0000.000
125A70PRO00.012-0.09432.8960.0030.0030.0000.0000.0000.000
126A71GLY00.0710.02234.4030.0000.0000.0000.0000.0000.000
127A72LEU0-0.005-0.04434.760-0.008-0.0080.0000.0000.0000.000
128A72LEU0-0.0340.14431.7090.0000.0000.0000.0000.0000.000
129A73LYS00.067-0.11935.4950.0050.0050.0000.0000.0000.000
130A73LYS10.8571.08235.6600.0190.0190.0000.0000.0000.000
131A74PRO0-0.013-0.10835.6260.0010.0010.0000.0000.0000.000
132A75GLY0-0.024-0.01434.773-0.005-0.0050.0000.0000.0000.000
133A76ASP00.1590.01631.592-0.010-0.0100.0000.0000.0000.000
134A76ASP-1-0.955-0.81631.640-0.039-0.0390.0000.0000.0000.000
135A77ARG00.075-0.10427.8170.0080.0080.0000.0000.0000.000
136A77ARG10.8511.06426.9490.0700.0700.0000.0000.0000.000
137A78TRP00.041-0.09027.918-0.002-0.0020.0000.0000.0000.000
138A78TRP0-0.0750.08228.6590.0000.0000.0000.0000.0000.000
139A79CYS00.105-0.08725.873-0.005-0.0050.0000.0000.0000.000
140A80LEU00.079-0.17527.2160.0080.0080.0000.0000.0000.000
141A80LEU0-0.0250.16630.524-0.001-0.0010.0000.0000.0000.000
142A81CYS00.037-0.09429.4110.0070.0070.0000.0000.0000.000
143A81CYS0-0.1650.06531.218-0.003-0.0030.0000.0000.0000.000
144A82ALA00.190-0.08230.704-0.013-0.0130.0000.0000.0000.000
145A82ALA0-0.0370.14529.9150.0020.0020.0000.0000.0000.000
146A83SER00.010-0.06331.617-0.011-0.0110.0000.0000.0000.000
147A83SER0-0.0450.05334.2870.0020.0020.0000.0000.0000.000
148A84ARG00.083-0.12934.326-0.004-0.0040.0000.0000.0000.000
149A84ARG10.7971.05734.449-0.059-0.0590.0000.0000.0000.000
150A85TRP00.096-0.08733.686-0.007-0.0070.0000.0000.0000.000
151A85TRP0-0.1150.08333.0650.0040.0040.0000.0000.0000.000
152A86ARG00.129-0.10235.094-0.008-0.0080.0000.0000.0000.000
153A86ARG10.8501.08035.164-0.077-0.0770.0000.0000.0000.000
154A87GLU00.078-0.11436.630-0.002-0.0020.0000.0000.0000.000
155A87GLU-1-1.005-0.84838.7440.0510.0510.0000.0000.0000.000
156A88ALA00.138-0.08738.498-0.002-0.0020.0000.0000.0000.000
157A88ALA0-0.0470.10038.0370.0000.0000.0000.0000.0000.000
158A89LEU00.026-0.10838.175-0.006-0.0060.0000.0000.0000.000
159A89LEU0-0.0690.09836.7120.0010.0010.0000.0000.0000.000
160A90GLU00.039-0.11039.271-0.005-0.0050.0000.0000.0000.000
161A90GLU-1-0.996-0.85040.9880.0540.0540.0000.0000.0000.000
162A91ALA00.014-0.15042.169-0.001-0.0010.0000.0000.0000.000
163A91ALA0-0.1160.10743.0450.0000.0000.0000.0000.0000.000
164A92GLY0-0.038-0.13742.973-0.003-0.0030.0000.0000.0000.000
165A93VAL00.0090.00341.763-0.004-0.0040.0000.0000.0000.000
166A93VAL0-0.1180.07841.4360.0000.0000.0000.0000.0000.000
167A94ALA00.095-0.12337.507-0.001-0.0010.0000.0000.0000.000
168A94ALA0-0.0660.12736.4330.0010.0010.0000.0000.0000.000
169A95PRO0-0.063-0.11533.955-0.004-0.0040.0000.0000.0000.000
170A96PRO00.0380.01833.0910.0050.0050.0000.0000.0000.000
171A97VAL00.067-0.02229.884-0.006-0.0060.0000.0000.0000.000
172A97VAL0-0.0740.11729.0650.0020.0020.0000.0000.0000.000
173A98ILE00.103-0.09926.231-0.006-0.0060.0000.0000.0000.000
174A98ILE0-0.0750.08924.372-0.004-0.0040.0000.0000.0000.000
175A99LEU00.103-0.11325.1690.0070.0070.0000.0000.0000.000
176A99LEU0-0.0790.10825.5690.0000.0000.0000.0000.0000.000
177A100GLU00.060-0.09721.4980.0300.0300.0000.0000.0000.000
178A100GLU-1-0.968-0.83720.438-0.060-0.0600.0000.0000.0000.000
179A101ALA00.048-0.11720.0080.0090.0090.0000.0000.0000.000
180A101ALA0-0.0930.09022.066-0.004-0.0040.0000.0000.0000.000
181A102THR0-0.093-0.11721.8150.0090.0090.0000.0000.0000.000
182A102THR0-0.0740.05224.8630.0000.0000.0000.0000.0000.000
183A103HIS00.135-0.02521.194-0.001-0.0010.0000.0000.0000.000
184A103HIS0-0.0440.08818.884-0.021-0.0210.0000.0000.0000.000
185A104ALA00.157-0.08821.383-0.024-0.0240.0000.0000.0000.000
186A104ALA0-0.0810.10621.2920.0060.0060.0000.0000.0000.000
187A105SER00.012-0.09223.026-0.014-0.0140.0000.0000.0000.000
188A105SER0-0.0360.06723.638-0.003-0.0030.0000.0000.0000.000
189A106ALA00.121-0.10625.388-0.001-0.0010.0000.0000.0000.000
190A106ALA0-0.0550.12426.894-0.003-0.0030.0000.0000.0000.000
191A107LEU00.009-0.11127.061-0.012-0.0120.0000.0000.0000.000
192A107LEU0-0.0650.09926.423-0.001-0.0010.0000.0000.0000.000
193A108GLU00.024-0.11328.551-0.008-0.0080.0000.0000.0000.000
194A108GLU-1-1.017-0.85826.9050.2070.2070.0000.0000.0000.000
195A109TYR0-0.041-0.12430.259-0.001-0.0010.0000.0000.0000.000
196A109TYR0-0.1190.05429.5940.0000.0000.0000.0000.0000.000
197A110VAL00.027-0.12031.541-0.005-0.0050.0000.0000.0000.000
198A110VAL0-0.0710.09131.441-0.001-0.0010.0000.0000.0000.000
199A111SER00.066-0.05031.7100.0110.0110.0000.0000.0000.000
200A111SER0-0.0570.04733.800-0.003-0.0030.0000.0000.0000.000
201A112LEU00.114-0.10529.903-0.002-0.0020.0000.0000.0000.000
202A112LEU0-0.0760.09327.557-0.001-0.0010.0000.0000.0000.000
203A113GLU00.013-0.09730.668-0.009-0.0090.0000.0000.0000.000
204A113GLU-1-0.949-0.83433.7480.0500.0500.0000.0000.0000.000
205A114ASP00.113-0.09334.015-0.010-0.0100.0000.0000.0000.000
206A114ASP-1-0.827-0.77833.9050.0550.0550.0000.0000.0000.000
207A115LEU00.121-0.12330.572-0.007-0.0070.0000.0000.0000.000
208A115LEU0-0.1020.10428.2090.0010.0010.0000.0000.0000.000
209A116LYS00.036-0.09931.076-0.007-0.0070.0000.0000.0000.000
210A116LYS10.8421.03628.878-0.021-0.0210.0000.0000.0000.000
211A117ALA00.078-0.10131.884-0.010-0.0100.0000.0000.0000.000
212A117ALA0-0.0950.09036.0460.0010.0010.0000.0000.0000.000
213A118HIS0-0.037-0.07534.333-0.007-0.0070.0000.0000.0000.000
214A118HIS0-0.1090.06934.566-0.001-0.0010.0000.0000.0000.000
215A119ALA00.288-0.02031.0380.0040.0040.0000.0000.0000.000
216A119ALA0-0.1300.05630.274-0.002-0.0020.0000.0000.0000.000
217A120LEU00.026-0.12930.7170.0020.0020.0000.0000.0000.000
218A120LEU0-0.1010.11729.557-0.002-0.0020.0000.0000.0000.000
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