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: QN4MY

Calculation Name: 2F5U-A-Xray540

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 2F5U

Chain ID: A

ChEMBL ID:

UniProt ID: P10209

Base Structure: X-ray

Registration Date: 2025-07-08

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 791
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -7396613.05119
FMO2-HF: Nuclear repulsion 7234412.174037
FMO2-HF: Total energy -162200.877153
FMO2-MP2: Total energy -162671.322398


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:134:ALA)


Summations of interaction energy for fragment #1(A:134: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.
-3.952-1.3810.006-1.297-1.280.006
Interaction energy analysis for fragmet #1(A:134:ALA)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.123 / q_NPA : 0.014
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].
4A135GLU-1-0.912-0.7973.1460.3891.1090.020-0.248-0.4920.000
5A136MET00.025-0.1173.812-1.4060.445-0.014-1.049-0.7880.006
6A136MET0-0.0520.1156.2820.0580.0580.0000.0000.0000.000
7A137GLU00.118-0.1146.6740.3310.3310.0000.0000.0000.000
8A137GLU-1-0.972-0.8028.161-0.163-0.1630.0000.0000.0000.000
9A138VAL0-0.052-0.1099.300-0.037-0.0370.0000.0000.0000.000
10A138VAL0-0.0390.08611.3730.0040.0040.0000.0000.0000.000
11A139GLN00.120-0.11012.7950.0480.0480.0000.0000.0000.000
12A139GLN0-0.1040.10415.915-0.002-0.0020.0000.0000.0000.000
13A140ILE00.057-0.11816.321-0.005-0.0050.0000.0000.0000.000
14A140ILE0-0.0940.09916.7600.0010.0010.0000.0000.0000.000
15A141VAL00.091-0.10519.2180.0110.0110.0000.0000.0000.000
16A141VAL0-0.0990.09522.3530.0040.0040.0000.0000.0000.000
17A142ARG00.078-0.10021.127-0.005-0.0050.0000.0000.0000.000
18A142ARG10.8691.03623.2540.1760.1760.0000.0000.0000.000
19A143ASN00.072-0.02322.3570.0080.0080.0000.0000.0000.000
20A143ASN0-0.1160.02824.7720.0000.0000.0000.0000.0000.000
21A144ASP00.031-0.10321.2650.0280.0280.0000.0000.0000.000
22A144ASP-1-0.791-0.69520.466-0.189-0.1890.0000.0000.0000.000
23A145PRO00.018-0.08517.540-0.006-0.0060.0000.0000.0000.000
24A146PRO00.0370.00413.145-0.027-0.0270.0000.0000.0000.000
25A147LEU00.0390.00213.5230.0770.0770.0000.0000.0000.000
26A147LEU0-0.1160.06713.892-0.005-0.0050.0000.0000.0000.000
27A148ARG00.187-0.0909.569-0.158-0.1580.0000.0000.0000.000
28A148ARG10.7170.9995.214-0.323-0.3230.0000.0000.0000.000
29A149TYR0-0.023-0.1008.5550.2510.2510.0000.0000.0000.000
30A149TYR0-0.0990.05610.224-0.033-0.0330.0000.0000.0000.000
31A150ASP00.109-0.0626.581-0.559-0.5590.0000.0000.0000.000
32A150ASP-1-1.026-0.8776.642-1.137-1.1370.0000.0000.0000.000
33A151THR00.028-0.0876.801-0.831-0.8310.0000.0000.0000.000
34A151THR0-0.0670.0577.5220.1650.1650.0000.0000.0000.000
35A152ASN00.232-0.0149.195-0.051-0.0510.0000.0000.0000.000
36A152ASN0-0.1610.03513.3130.0130.0130.0000.0000.0000.000
37A153LEU00.086-0.07712.7860.0960.0960.0000.0000.0000.000
38A153LEU0-0.0820.10613.2780.0170.0170.0000.0000.0000.000
39A154PRO00.037-0.10513.9730.0870.0870.0000.0000.0000.000
40A155VAL00.0850.00516.2390.0890.0890.0000.0000.0000.000
41A155VAL0-0.0600.10115.2010.0020.0020.0000.0000.0000.000
42A156ASP00.086-0.11313.2590.1250.1250.0000.0000.0000.000
43A156ASP-1-0.882-0.79511.414-1.091-1.0910.0000.0000.0000.000
44A157LEU00.137-0.10814.6720.0800.0800.0000.0000.0000.000
45A157LEU0-0.1000.10117.2490.0050.0050.0000.0000.0000.000
46A158LEU00.048-0.12917.4190.0640.0640.0000.0000.0000.000
47A158LEU0-0.1070.09719.4430.0110.0110.0000.0000.0000.000
48A159HIS00.057-0.10116.9970.0620.0620.0000.0000.0000.000
49A159HIS0-0.0070.12416.157-0.026-0.0260.0000.0000.0000.000
50A160MET00.061-0.11117.6470.0480.0480.0000.0000.0000.000
51A160MET0-0.0710.10916.0410.0050.0050.0000.0000.0000.000
52A161VAL00.074-0.09318.6820.0380.0380.0000.0000.0000.000
53A161VAL0-0.0990.09821.2100.0010.0010.0000.0000.0000.000
54A162TYR00.083-0.07321.7970.0310.0310.0000.0000.0000.000
55A162TYR0-0.1740.01522.351-0.005-0.0050.0000.0000.0000.000
56A163ALA00.087-0.09920.7730.0180.0180.0000.0000.0000.000
57A163ALA0-0.0560.12420.2370.0000.0000.0000.0000.0000.000
58A164GLY00.004-0.09122.2290.0230.0230.0000.0000.0000.000
59A165ARG00.1250.04724.1590.0000.0000.0000.0000.0000.000
60A165ARG10.8411.03927.0560.0820.0820.0000.0000.0000.000
61A166GLY0-0.018-0.13027.7890.0020.0020.0000.0000.0000.000
62A167ALA00.0960.00226.914-0.001-0.0010.0000.0000.0000.000
63A167ALA0-0.0160.14026.265-0.003-0.0030.0000.0000.0000.000
64A168THR0-0.046-0.10328.372-0.006-0.0060.0000.0000.0000.000
65A168THR0-0.0520.06229.5710.0020.0020.0000.0000.0000.000
66A169GLY00.013-0.08231.1220.0050.0050.0000.0000.0000.000
67A170SER00.0440.02234.768-0.004-0.0040.0000.0000.0000.000
68A170SER0-0.0280.07837.3660.0020.0020.0000.0000.0000.000
69A171SER0-0.031-0.09333.0930.0000.0000.0000.0000.0000.000
70A171SER0-0.0600.03931.6630.0010.0010.0000.0000.0000.000
71A172GLY00.023-0.07231.2200.0010.0010.0000.0000.0000.000
72A173VAL00.070-0.01227.7910.0070.0070.0000.0000.0000.000
73A173VAL0-0.0310.13525.909-0.001-0.0010.0000.0000.0000.000
74A174VAL00.023-0.09629.271-0.004-0.0040.0000.0000.0000.000
75A174VAL0-0.0800.10232.3080.0010.0010.0000.0000.0000.000
76A175PHE00.084-0.12228.944-0.002-0.0020.0000.0000.0000.000
77A175PHE0-0.0530.11224.662-0.001-0.0010.0000.0000.0000.000
78A176GLY00.072-0.06629.885-0.007-0.0070.0000.0000.0000.000
79A177THR00.034-0.00133.189-0.003-0.0030.0000.0000.0000.000
80A177THR0-0.0270.07137.381-0.002-0.0020.0000.0000.0000.000
81A178TRP00.173-0.06634.0030.0070.0070.0000.0000.0000.000
82A178TRP0-0.1060.10230.017-0.004-0.0040.0000.0000.0000.000
83A179TYR00.080-0.10330.9520.0020.0020.0000.0000.0000.000
84A179TYR0-0.1160.06126.1900.0020.0020.0000.0000.0000.000
85A180ARG00.065-0.11332.156-0.004-0.0040.0000.0000.0000.000
86A180ARG10.7240.95034.8500.1230.1230.0000.0000.0000.000
87A181THR0-0.020-0.07734.9680.0040.0040.0000.0000.0000.000
88A181THR0-0.0570.04736.7840.0030.0030.0000.0000.0000.000
89A182ILE00.080-0.08033.0990.0100.0100.0000.0000.0000.000
90A182ILE0-0.0550.11131.6930.0000.0000.0000.0000.0000.000
91A183GLN00.120-0.06933.015-0.001-0.0010.0000.0000.0000.000
92A183GLN0-0.0330.09731.522-0.009-0.0090.0000.0000.0000.000
93A184ASP00.161-0.05533.6900.0010.0010.0000.0000.0000.000
94A184ASP-1-0.922-0.80037.443-0.121-0.1210.0000.0000.0000.000
95A185ARG00.027-0.13237.2190.0080.0080.0000.0000.0000.000
96A185ARG10.7330.99536.9220.1160.1160.0000.0000.0000.000
97A186THR00.012-0.08433.7200.0060.0060.0000.0000.0000.000
98A186THR0-0.0480.03431.843-0.006-0.0060.0000.0000.0000.000
99A187ILE00.056-0.09335.221-0.001-0.0010.0000.0000.0000.000
100A187ILE0-0.0970.09434.8800.0010.0010.0000.0000.0000.000
101A188THR0-0.021-0.11536.8810.0050.0050.0000.0000.0000.000
102A188THR0-0.0760.04340.0920.0030.0030.0000.0000.0000.000
103A189ASP00.074-0.07638.9960.0070.0070.0000.0000.0000.000
104A189ASP-1-0.963-0.82338.350-0.121-0.1210.0000.0000.0000.000
105A190PHE0-0.031-0.11636.0150.0040.0040.0000.0000.0000.000
106A190PHE0-0.0370.11535.386-0.003-0.0030.0000.0000.0000.000
107A191PRO00.170-0.03836.026-0.006-0.0060.0000.0000.0000.000
108A192LEU00.033-0.00736.3450.0030.0030.0000.0000.0000.000
109A192LEU0-0.0280.11435.7350.0000.0000.0000.0000.0000.000
110A193THR00.036-0.09432.4710.0010.0010.0000.0000.0000.000
111A193THR0-0.0290.08131.824-0.001-0.0010.0000.0000.0000.000
112A194THR0-0.024-0.11732.231-0.009-0.0090.0000.0000.0000.000
113A194THR0-0.0500.05736.1480.0030.0030.0000.0000.0000.000
114A195ARG00.025-0.07133.6800.0040.0040.0000.0000.0000.000
115A195ARG10.8561.05034.1010.0890.0890.0000.0000.0000.000
116A196SER00.022-0.08529.5350.0070.0070.0000.0000.0000.000
117A196SER0-0.0170.07128.496-0.002-0.0020.0000.0000.0000.000
118A197ALA00.042-0.10128.110-0.013-0.0130.0000.0000.0000.000
119A197ALA0-0.0900.08228.792-0.003-0.0030.0000.0000.0000.000
120A198ASP00.124-0.07829.5520.0090.0090.0000.0000.0000.000
121A198ASP-1-0.895-0.78630.005-0.102-0.1020.0000.0000.0000.000
122A199PHE0-0.005-0.09031.464-0.007-0.0070.0000.0000.0000.000
123A199PHE0-0.0660.09431.218-0.003-0.0030.0000.0000.0000.000
124A200ARG00.163-0.07934.0300.0030.0030.0000.0000.0000.000
125A200ARG10.8121.01133.0290.0820.0820.0000.0000.0000.000
126A201ASP00.008-0.10535.367-0.006-0.0060.0000.0000.0000.000
127A201ASP-1-0.923-0.81735.990-0.078-0.0780.0000.0000.0000.000
128A202GLY00.050-0.09137.3680.0000.0000.0000.0000.0000.000
129A203ARG00.0550.01333.292-0.002-0.0020.0000.0000.0000.000
130A203ARG10.7901.01031.0270.1030.1030.0000.0000.0000.000
131A204MET00.047-0.12330.5830.0020.0020.0000.0000.0000.000
132A204MET0-0.0900.12229.842-0.004-0.0040.0000.0000.0000.000
133A205SER00.121-0.04228.8650.0000.0000.0000.0000.0000.000
134A205SER0-0.0640.06928.483-0.006-0.0060.0000.0000.0000.000
135A206LYS00.160-0.08824.405-0.012-0.0120.0000.0000.0000.000
136A206LYS10.8331.07319.0430.2920.2920.0000.0000.0000.000
137A207THR0-0.039-0.07423.748-0.034-0.0340.0000.0000.0000.000
138A207THR00.0060.07324.0140.0010.0010.0000.0000.0000.000
139A208PHE00.149-0.03124.806-0.021-0.0210.0000.0000.0000.000
140A208PHE0-0.0840.08628.5310.0030.0030.0000.0000.0000.000
141A209MET00.101-0.12525.203-0.008-0.0080.0000.0000.0000.000
142A209MET0-0.1180.11824.1690.0040.0040.0000.0000.0000.000
143A210THR00.036-0.07521.401-0.022-0.0220.0000.0000.0000.000
144A210THR0-0.0810.03919.418-0.009-0.0090.0000.0000.0000.000
145A211ALA00.135-0.05921.841-0.043-0.0430.0000.0000.0000.000
146A211ALA0-0.0790.10524.8770.0070.0070.0000.0000.0000.000
147A212LEU00.088-0.07924.028-0.013-0.0130.0000.0000.0000.000
148A212LEU0-0.0930.08826.3200.0060.0060.0000.0000.0000.000
149A213VAL00.054-0.13721.9040.0120.0120.0000.0000.0000.000
150A213VAL0-0.0440.13220.152-0.001-0.0010.0000.0000.0000.000
151A214LEU00.080-0.09820.567-0.028-0.0280.0000.0000.0000.000
152A214LEU0-0.0550.11417.682-0.007-0.0070.0000.0000.0000.000
153A215SER00.051-0.09321.429-0.022-0.0220.0000.0000.0000.000
154A215SER0-0.0520.06125.6000.0130.0130.0000.0000.0000.000
155A216LEU00.044-0.12624.6710.0110.0110.0000.0000.0000.000
156A216LEU0-0.1170.10424.0730.0030.0030.0000.0000.0000.000
157A217GLN00.121-0.10120.1960.0260.0260.0000.0000.0000.000
158A217GLN0-0.1190.10316.6250.0050.0050.0000.0000.0000.000
159A218ALA00.074-0.09221.542-0.032-0.0320.0000.0000.0000.000
160A218ALA0-0.0840.10322.8050.0050.0050.0000.0000.0000.000
161A219CYS0-0.002-0.11323.1660.0120.0120.0000.0000.0000.000
162A219CYS0-0.1380.09025.9270.0120.0120.0000.0000.0000.000
163A220GLY00.021-0.12324.4830.0260.0260.0000.0000.0000.000
164A221ARG00.0770.01522.373-0.005-0.0050.0000.0000.0000.000
165A221ARG10.8351.05016.7590.5970.5970.0000.0000.0000.000
166A222LEU00.068-0.11723.1470.0300.0300.0000.0000.0000.000
167A222LEU0-0.1120.11124.4250.0050.0050.0000.0000.0000.000
168A223TYR00.092-0.09323.528-0.022-0.0220.0000.0000.0000.000
169A223TYR0-0.1060.09120.844-0.021-0.0210.0000.0000.0000.000
170A224VAL00.102-0.08924.694-0.003-0.0030.0000.0000.0000.000
171A224VAL0-0.0600.10528.7080.0020.0020.0000.0000.0000.000
172A225GLY0-0.011-0.11127.741-0.002-0.0020.0000.0000.0000.000
173A226GLN00.1160.02025.855-0.025-0.0250.0000.0000.0000.000
174A226GLN0-0.0910.09426.0740.0010.0010.0000.0000.0000.000
175A227ARG00.068-0.13924.6330.0250.0250.0000.0000.0000.000
176A227ARG10.7991.04124.4170.2760.2760.0000.0000.0000.000
177A228HIS00.033-0.06922.212-0.022-0.0220.0000.0000.0000.000
178A228HIS0-0.0740.09722.964-0.014-0.0140.0000.0000.0000.000
179A229TYR00.083-0.09221.755-0.025-0.0250.0000.0000.0000.000
180A229TYR0-0.0900.04322.6550.0000.0000.0000.0000.0000.000
181A230SER00.072-0.05720.5310.0330.0330.0000.0000.0000.000
182A230SER00.0260.10319.3340.0090.0090.0000.0000.0000.000
183A231ALA00.114-0.09321.8800.0240.0240.0000.0000.0000.000
184A231ALA0-0.0670.10324.4810.0040.0040.0000.0000.0000.000
185A232PHE00.060-0.08921.1350.0450.0450.0000.0000.0000.000
186A232PHE0-0.0780.08518.3670.0020.0020.0000.0000.0000.000
187A233GLU00.072-0.14421.7050.0170.0170.0000.0000.0000.000
188A233GLU-1-0.772-0.67718.682-0.488-0.4880.0000.0000.0000.000
189A234CYS00.101-0.09922.3050.0210.0210.0000.0000.0000.000
190A234CYS0-0.1450.08824.8800.0090.0090.0000.0000.0000.000
191A235ALA00.109-0.07725.5980.0310.0310.0000.0000.0000.000
192A235ALA0-0.0710.08725.306-0.001-0.0010.0000.0000.0000.000
193A236VAL00.028-0.12023.8500.0290.0290.0000.0000.0000.000
194A236VAL0-0.0690.11622.046-0.001-0.0010.0000.0000.0000.000
195A237LEU00.080-0.12125.3230.0170.0170.0000.0000.0000.000
196A237LEU0-0.0670.11624.9180.0010.0010.0000.0000.0000.000
197A238CYS00.061-0.10427.2430.0190.0190.0000.0000.0000.000
198A238CYS0-0.1300.06629.3470.0040.0040.0000.0000.0000.000
199A239LEU00.085-0.06629.0820.0210.0210.0000.0000.0000.000
200A239LEU0-0.0850.07927.488-0.001-0.0010.0000.0000.0000.000
201A240TYR00.100-0.08628.7100.0150.0150.0000.0000.0000.000
202A240TYR0-0.0980.08227.857-0.001-0.0010.0000.0000.0000.000
203A241LEU00.108-0.09729.8200.0130.0130.0000.0000.0000.000
204A241LEU0-0.0980.09631.0720.0000.0000.0000.0000.0000.000
205A242LEU00.139-0.07632.7820.0130.0130.0000.0000.0000.000
206A242LEU0-0.1020.09333.781-0.001-0.0010.0000.0000.0000.000
207A243TYR00.083-0.05133.2280.0120.0120.0000.0000.0000.000
208A243TYR0-0.0790.05432.513-0.002-0.0020.0000.0000.0000.000
209A244ARG00.106-0.10333.9090.0090.0090.0000.0000.0000.000
210A244ARG10.6970.96933.6160.1280.1280.0000.0000.0000.000
211A245ASN00.014-0.08735.4350.0080.0080.0000.0000.0000.000
212A245ASN0-0.0840.07337.423-0.001-0.0010.0000.0000.0000.000
213A246THR00.002-0.04737.8380.0070.0070.0000.0000.0000.000
214A246THR0-0.0900.01537.568-0.001-0.0010.0000.0000.0000.000
215A247HIS00.1800.00937.6980.0070.0070.0000.0000.0000.000
216A247HIS0-0.165-0.00336.723-0.003-0.0030.0000.0000.0000.000
217A248GLY0-0.014-0.11936.9020.0050.0050.0000.0000.0000.000
218A249ALA00.1400.03737.8740.0050.0050.0000.0000.0000.000
219A249ALA0-0.0940.09341.1680.0020.0020.0000.0000.0000.000
220A250ALA00.013-0.15337.622-0.003-0.0030.0000.0000.0000.000
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