FMODB

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

Last updated: 2025-04-23

All entries: 37539

Number of unique PDB entries: 7791

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FMODB ID: R98Z8

Calculation Name: 2F6I-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2F6I

Chain ID: A

ChEMBL ID:

UniProt ID: O97252

Base Structure: X-ray

Registration Date: 2023-06-22

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
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 182
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2042280.926185
FMO2-HF: Nuclear repulsion 1968816.519843
FMO2-HF: Total energy -73464.406342
FMO2-MP2: Total energy -73679.740084


3D Structure
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:177:HIS)


Summations of interaction energy for fragment #1(A:177:HIS)
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.
-18.324-12.3623.654-3.859-5.757-0.022
Interaction energy analysis for fragmet #1(A:177:HIS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.016 / q_NPA : -0.012
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].
3A179ASP-1-0.836-0.8952.458-22.159-16.5093.648-3.777-5.521-0.022
4A180ILE0-0.072-0.0444.432-1.226-0.9140.006-0.082-0.2360.000
5A181LYS10.8470.9166.0433.0993.0990.0000.0000.0000.000
6A182ASP-1-0.797-0.90910.640-0.070-0.0700.0000.0000.0000.000
7A183MET00.002-0.00212.8760.0810.0810.0000.0000.0000.000
8A184LYS10.9400.97014.8620.0170.0170.0000.0000.0000.000
9A185LYS10.9380.96814.0660.7310.7310.0000.0000.0000.000
10A186ASP-1-0.787-0.90910.791-1.121-1.1210.0000.0000.0000.000
11A187VAL00.0160.02411.663-0.139-0.1390.0000.0000.0000.000
12A188LYS10.9410.96913.0830.1030.1030.0000.0000.0000.000
13A189LEU00.0260.02611.608-0.063-0.0630.0000.0000.0000.000
14A190PHE00.002-0.0115.843-0.095-0.0950.0000.0000.0000.000
15A191PHE0-0.027-0.02510.351-0.054-0.0540.0000.0000.0000.000
16A192PHE00.0490.04313.172-0.020-0.0200.0000.0000.0000.000
17A193LYS10.9540.9728.8662.2902.2900.0000.0000.0000.000
18A194LYS10.8530.9417.1840.9090.9090.0000.0000.0000.000
19A195ARG10.8070.90512.9420.6110.6110.0000.0000.0000.000
20A196ILE0-0.044-0.01414.0630.0990.0990.0000.0000.0000.000
21A197ILE00.0330.00917.129-0.041-0.0410.0000.0000.0000.000
22A198TYR0-0.050-0.04215.4240.0680.0680.0000.0000.0000.000
23A199LEU00.0330.03521.845-0.012-0.0120.0000.0000.0000.000
24A200THR0-0.087-0.07523.1340.0200.0200.0000.0000.0000.000
25A201ASP-1-0.827-0.90326.028-0.078-0.0780.0000.0000.0000.000
26A202GLU-1-0.863-0.89328.941-0.080-0.0800.0000.0000.0000.000
27A203ILE0-0.041-0.01931.481-0.016-0.0160.0000.0000.0000.000
28A204ASN00.000-0.02332.385-0.007-0.0070.0000.0000.0000.000
29A205LYS10.8630.91033.0890.1410.1410.0000.0000.0000.000
30A206LYS10.8500.91426.3700.2020.2020.0000.0000.0000.000
31A207THR00.0240.00328.185-0.022-0.0220.0000.0000.0000.000
32A208ALA00.0090.00728.182-0.018-0.0180.0000.0000.0000.000
33A209ASP-1-0.915-0.94829.472-0.273-0.2730.0000.0000.0000.000
34A210GLU-1-0.805-0.88624.821-0.281-0.2810.0000.0000.0000.000
35A211LEU0-0.025-0.01624.408-0.036-0.0360.0000.0000.0000.000
36A212ILE00.0340.01025.442-0.021-0.0210.0000.0000.0000.000
37A213SER0-0.006-0.00225.214-0.021-0.0210.0000.0000.0000.000
38A214GLN0-0.084-0.05320.630-0.046-0.0460.0000.0000.0000.000
39A215LEU00.0050.00721.990-0.038-0.0380.0000.0000.0000.000
40A216LEU00.0200.00923.964-0.017-0.0170.0000.0000.0000.000
41A217TYR0-0.018-0.00417.103-0.052-0.0520.0000.0000.0000.000
42A218LEU00.002-0.01117.271-0.045-0.0450.0000.0000.0000.000
43A219ASP-1-0.776-0.84420.547-0.356-0.3560.0000.0000.0000.000
44A220ASN0-0.045-0.01022.846-0.017-0.0170.0000.0000.0000.000
45A221ILE0-0.059-0.01016.685-0.025-0.0250.0000.0000.0000.000
46A222ASN0-0.002-0.01717.2360.0420.0420.0000.0000.0000.000
47A223HIS00.0070.00421.3310.0220.0220.0000.0000.0000.000
48A224ASN0-0.0090.00317.8710.0650.0650.0000.0000.0000.000
49A225ASP-1-0.773-0.86621.450-0.208-0.2080.0000.0000.0000.000
50A226ILE0-0.0110.00920.030-0.046-0.0460.0000.0000.0000.000
51A227LYS10.9100.96917.2820.1580.1580.0000.0000.0000.000
52A228ILE00.0180.00220.581-0.028-0.0280.0000.0000.0000.000
53A229TYR0-0.028-0.01116.8610.0360.0360.0000.0000.0000.000
54A230ILE0-0.010-0.01622.814-0.016-0.0160.0000.0000.0000.000
55A231ASN00.008-0.00825.9490.0250.0250.0000.0000.0000.000
56A232SER00.004-0.02027.664-0.003-0.0030.0000.0000.0000.000
57A233PRO00.0520.02830.6860.0040.0040.0000.0000.0000.000
58A234GLY00.0360.01833.5020.0010.0010.0000.0000.0000.000
59A235GLY00.0640.03134.973-0.004-0.0040.0000.0000.0000.000
60A236SER00.004-0.00536.9070.0070.0070.0000.0000.0000.000
61A237ILE00.0190.00037.594-0.008-0.0080.0000.0000.0000.000
62A238ASN00.0270.02039.018-0.007-0.0070.0000.0000.0000.000
63A239GLU-1-0.789-0.89234.662-0.150-0.1500.0000.0000.0000.000
64A240GLY00.004-0.00334.445-0.010-0.0100.0000.0000.0000.000
65A241LEU00.005-0.01434.933-0.005-0.0050.0000.0000.0000.000
66A242ALA00.0310.03534.888-0.006-0.0060.0000.0000.0000.000
67A243ILE0-0.025-0.01529.657-0.013-0.0130.0000.0000.0000.000
68A244LEU0-0.020-0.00631.695-0.009-0.0090.0000.0000.0000.000
69A245ASP-1-0.869-0.92333.896-0.146-0.1460.0000.0000.0000.000
70A246ILE0-0.035-0.03628.795-0.010-0.0100.0000.0000.0000.000
71A247PHE0-0.034-0.03927.727-0.016-0.0160.0000.0000.0000.000
72A248ASN0-0.069-0.04530.130-0.002-0.0020.0000.0000.0000.000
73A249TYR0-0.0460.01831.1060.0040.0040.0000.0000.0000.000
74A250ILE0-0.069-0.03525.513-0.011-0.0110.0000.0000.0000.000
75A251LYS10.8910.93127.8770.2570.2570.0000.0000.0000.000
76A252SER0-0.054-0.04923.817-0.002-0.0020.0000.0000.0000.000
77A253ASP-1-0.736-0.82325.718-0.151-0.1510.0000.0000.0000.000
78A254ILE00.0180.00124.818-0.021-0.0210.0000.0000.0000.000
79A255GLN0-0.096-0.05221.5490.0440.0440.0000.0000.0000.000
80A256THR0-0.014-0.01024.379-0.013-0.0130.0000.0000.0000.000
81A257ILE0-0.020-0.01221.1660.0210.0210.0000.0000.0000.000
82A258SER00.0390.03324.861-0.010-0.0100.0000.0000.0000.000
83A259PHE0-0.049-0.04921.3320.0230.0230.0000.0000.0000.000
84A260GLY00.0100.01226.626-0.011-0.0110.0000.0000.0000.000
85A261LEU00.0130.00428.6920.0040.0040.0000.0000.0000.000
86A262VAL0-0.015-0.01329.932-0.010-0.0100.0000.0000.0000.000
87A263ALA00.0240.01532.6580.0070.0070.0000.0000.0000.000
88A264SER00.0610.03935.679-0.014-0.0140.0000.0000.0000.000
89A265MET00.0190.00235.6400.0020.0020.0000.0000.0000.000
90A266ALA0-0.0030.02131.621-0.009-0.0090.0000.0000.0000.000
91A267SER00.002-0.01432.451-0.002-0.0020.0000.0000.0000.000
92A268VAL00.0050.00634.4900.0000.0000.0000.0000.0000.000
93A269ILE00.0090.00629.889-0.004-0.0040.0000.0000.0000.000
94A270LEU0-0.0100.00028.921-0.008-0.0080.0000.0000.0000.000
95A271ALA00.0040.00031.219-0.001-0.0010.0000.0000.0000.000
96A272SER0-0.057-0.04232.104-0.003-0.0030.0000.0000.0000.000
97A273GLY00.0010.01529.630-0.011-0.0110.0000.0000.0000.000
98A274LYS10.8190.88128.6670.1580.1580.0000.0000.0000.000
99A275LYS10.8910.95430.3680.0840.0840.0000.0000.0000.000
100A276GLY0-0.004-0.00131.210-0.004-0.0040.0000.0000.0000.000
101A277LYS10.7230.82225.4750.1680.1680.0000.0000.0000.000
102A278ARG10.7690.90626.9020.0440.0440.0000.0000.0000.000
103A279LYS10.8390.90224.2520.0090.0090.0000.0000.0000.000
104A280SER00.0540.02727.272-0.012-0.0120.0000.0000.0000.000
105A281LEU0-0.032-0.00422.3250.0130.0130.0000.0000.0000.000
106A282PRO00.0500.00626.537-0.012-0.0120.0000.0000.0000.000
107A283ASN0-0.017-0.02528.683-0.015-0.0150.0000.0000.0000.000
108A284CYS0-0.0990.00128.999-0.004-0.0040.0000.0000.0000.000
109A285ARG10.9140.96830.666-0.045-0.0450.0000.0000.0000.000
110A286ILE00.030-0.00331.841-0.007-0.0070.0000.0000.0000.000
111A287MET00.0170.02935.4130.0060.0060.0000.0000.0000.000
112A288ILE00.0300.01337.989-0.007-0.0070.0000.0000.0000.000
113A289HIS00.0560.04640.593-0.010-0.0100.0000.0000.0000.000
114A290GLN0-0.008-0.02240.2150.0010.0010.0000.0000.0000.000
115A291PRO0-0.0040.00737.3510.0010.0010.0000.0000.0000.000
116A292LEU0-0.010-0.00535.9230.0040.0040.0000.0000.0000.000
117A293GLY00.0300.03140.297-0.002-0.0020.0000.0000.0000.000
118A294ASN0-0.054-0.03542.910-0.002-0.0020.0000.0000.0000.000
119A295ALA0-0.031-0.00744.850-0.005-0.0050.0000.0000.0000.000
120A296PHE00.0100.00740.529-0.005-0.0050.0000.0000.0000.000
121A305GLN00.0690.04050.0300.0020.0020.0000.0000.0000.000
122A306THR00.043-0.00951.004-0.002-0.0020.0000.0000.0000.000
123A307LYS10.9860.98252.1070.0490.0490.0000.0000.0000.000
124A308GLU-1-0.859-0.93046.808-0.080-0.0800.0000.0000.0000.000
125A309ILE0-0.017-0.00247.198-0.002-0.0020.0000.0000.0000.000
126A310LEU0-0.022-0.01747.8060.0000.0000.0000.0000.0000.000
127A311TYR0-0.021-0.00346.7590.0030.0030.0000.0000.0000.000
128A312LEU00.0320.01443.023-0.001-0.0010.0000.0000.0000.000
129A313LYS10.8630.93944.5100.0320.0320.0000.0000.0000.000
130A314LYS11.0171.00945.8090.0510.0510.0000.0000.0000.000
131A315LEU0-0.0030.01043.4050.0010.0010.0000.0000.0000.000
132A316LEU0-0.007-0.00140.215-0.002-0.0020.0000.0000.0000.000
133A317TYR0-0.013-0.03342.3240.0000.0000.0000.0000.0000.000
134A318HIS0-0.015-0.01444.4390.0030.0030.0000.0000.0000.000
135A319TYR00.0350.02239.6840.0020.0020.0000.0000.0000.000
136A320LEU00.0260.01738.229-0.001-0.0010.0000.0000.0000.000
137A321SER0-0.039-0.01640.8000.0030.0030.0000.0000.0000.000
138A322SER0-0.039-0.02141.3650.0000.0000.0000.0000.0000.000
139A323PHE0-0.053-0.03536.726-0.003-0.0030.0000.0000.0000.000
140A324THR0-0.034-0.04338.3610.0030.0030.0000.0000.0000.000
141A325ASN0-0.061-0.02940.3460.0020.0020.0000.0000.0000.000
142A326GLN00.0040.01642.6730.0040.0040.0000.0000.0000.000
143A327THR00.003-0.00645.415-0.004-0.0040.0000.0000.0000.000
144A328VAL00.0650.01247.4620.0010.0010.0000.0000.0000.000
145A329GLU-1-0.838-0.90248.715-0.030-0.0300.0000.0000.0000.000
146A330THR0-0.055-0.02946.8320.0040.0040.0000.0000.0000.000
147A331ILE0-0.0080.01142.9250.0030.0030.0000.0000.0000.000
148A332GLU-1-0.893-0.94746.095-0.033-0.0330.0000.0000.0000.000
149A333LYS10.8470.93848.4290.0110.0110.0000.0000.0000.000
150A334ASP-1-0.800-0.89344.878-0.002-0.0020.0000.0000.0000.000
151A335SER0-0.038-0.00944.7160.0010.0010.0000.0000.0000.000
152A336ASP-1-0.862-0.93445.698-0.022-0.0220.0000.0000.0000.000
153A337ARG10.7840.90146.013-0.003-0.0030.0000.0000.0000.000
154A338ASP-1-0.920-0.96044.479-0.001-0.0010.0000.0000.0000.000
155A339TYR0-0.070-0.06642.5380.0040.0040.0000.0000.0000.000
156A340TYR0-0.018-0.02538.265-0.002-0.0020.0000.0000.0000.000
157A341MET0-0.0450.00237.9370.0030.0030.0000.0000.0000.000
158A342ASN0-0.035-0.02735.4870.0030.0030.0000.0000.0000.000
159A343ALA00.0780.02231.527-0.007-0.0070.0000.0000.0000.000
160A344LEU00.0310.01233.481-0.008-0.0080.0000.0000.0000.000
161A345GLU-1-0.782-0.87635.8720.0280.0280.0000.0000.0000.000
162A346ALA00.0340.01534.602-0.007-0.0070.0000.0000.0000.000
163A347LYS10.8550.92033.504-0.028-0.0280.0000.0000.0000.000
164A348GLN0-0.053-0.03036.003-0.005-0.0050.0000.0000.0000.000
165A349TYR0-0.019-0.02339.229-0.006-0.0060.0000.0000.0000.000
166A350GLY00.0570.04038.107-0.006-0.0060.0000.0000.0000.000
167A351ILE0-0.039-0.01834.007-0.010-0.0100.0000.0000.0000.000
168A352ILE0-0.030-0.01830.893-0.009-0.0090.0000.0000.0000.000
169A353ASP-1-0.749-0.85230.935-0.043-0.0430.0000.0000.0000.000
170A354GLU-1-0.877-0.94126.9940.0360.0360.0000.0000.0000.000
171A355VAL00.0120.01129.379-0.006-0.0060.0000.0000.0000.000
172A356ILE0-0.030-0.01122.7760.0060.0060.0000.0000.0000.000
173A357GLU-1-0.830-0.90926.3120.1460.1460.0000.0000.0000.000
174A358THR0-0.070-0.05123.5630.0240.0240.0000.0000.0000.000
175A359LYS10.9320.95319.461-0.440-0.4400.0000.0000.0000.000
176A360LEU0-0.029-0.00725.0130.0060.0060.0000.0000.0000.000
177A361PRO00.0610.04327.751-0.011-0.0110.0000.0000.0000.000
178A362HIS00.0360.01530.9570.0030.0030.0000.0000.0000.000
179A363PRO0-0.012-0.01633.084-0.005-0.0050.0000.0000.0000.000
180A364TYR0-0.029-0.01436.487-0.004-0.0040.0000.0000.0000.000
181A365PHE0-0.034-0.00432.104-0.009-0.0090.0000.0000.0000.000
182A366ASN00.0090.01134.5580.0000.0000.0000.0000.0000.000