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: Q1L2Y

Calculation Name: 3SFT-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3SFT

Chain ID: A

ChEMBL ID:

UniProt ID: Q9WYN9

Base Structure: X-ray

Registration Date: 2023-03-14

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 OptAll
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 189
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2073693.893624
FMO2-HF: Nuclear repulsion 2002349.810343
FMO2-HF: Total energy -71344.083282
FMO2-MP2: Total energy -71553.268299


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:156:VAL)


Summations of interaction energy for fragment #1(A:156:VAL)
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.
-12.347-2.5116.976-5.807-11.004-0.016
Interaction energy analysis for fragmet #1(A:156:VAL)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.039 / q_NPA : 0.027
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].
3A158GLY00.0410.0233.454-1.9701.2820.013-1.801-1.4640.005
4A159LYS10.8560.9125.5600.4460.4460.0000.0000.0000.000
5A160ILE0-0.0010.0146.2190.0800.0800.0000.0000.0000.000
6A161VAL00.0110.0147.941-0.001-0.0010.0000.0000.0000.000
7A162VAL0-0.025-0.02010.3670.0480.0480.0000.0000.0000.000
8A163ILE00.0360.01513.090-0.003-0.0030.0000.0000.0000.000
9A164GLY0-0.0040.00316.8640.0230.0230.0000.0000.0000.000
10A165SER0-0.011-0.01819.345-0.010-0.0100.0000.0000.0000.000
11A166SER00.0220.00423.0040.0110.0110.0000.0000.0000.000
12A167THR00.0490.02226.320-0.001-0.0010.0000.0000.0000.000
13A168GLY00.0410.02129.776-0.005-0.0050.0000.0000.0000.000
14A169GLY00.0080.00925.911-0.004-0.0040.0000.0000.0000.000
15A170PRO00.027-0.00425.939-0.007-0.0070.0000.0000.0000.000
16A171ARG10.8960.95727.1760.0420.0420.0000.0000.0000.000
17A172SER0-0.022-0.04225.878-0.001-0.0010.0000.0000.0000.000
18A173LEU00.006-0.00920.967-0.009-0.0090.0000.0000.0000.000
19A174ASP-1-0.758-0.84024.101-0.045-0.0450.0000.0000.0000.000
20A175MET0-0.054-0.02126.883-0.003-0.0030.0000.0000.0000.000
21A176ILE0-0.005-0.00420.354-0.010-0.0100.0000.0000.0000.000
22A177ILE0-0.004-0.01018.277-0.011-0.0110.0000.0000.0000.000
23A178PRO0-0.0040.00021.415-0.007-0.0070.0000.0000.0000.000
24A179ASN0-0.081-0.03123.5470.0030.0030.0000.0000.0000.000
25A180LEU0-0.0120.00017.343-0.018-0.0180.0000.0000.0000.000
26A181PRO00.0070.01418.8580.0150.0150.0000.0000.0000.000
27A182LYS10.8660.89618.3110.0600.0600.0000.0000.0000.000
28A183ASN0-0.016-0.01616.5770.0180.0180.0000.0000.0000.000
29A184PHE00.0240.01212.957-0.049-0.0490.0000.0000.0000.000
30A185PRO0-0.0070.00011.4270.0110.0110.0000.0000.0000.000
31A186ALA0-0.046-0.0268.819-0.146-0.1460.0000.0000.0000.000
32A187PRO0-0.0150.0066.5220.0780.0780.0000.0000.0000.000
33A188ILE00.0210.0159.730-0.054-0.0540.0000.0000.0000.000
34A189VAL0-0.010-0.00810.5340.0540.0540.0000.0000.0000.000
35A190VAL00.0140.00613.491-0.026-0.0260.0000.0000.0000.000
36A191VAL0-0.023-0.01416.0130.0240.0240.0000.0000.0000.000
37A192GLN00.0230.02018.768-0.017-0.0170.0000.0000.0000.000
38A193HIS0-0.042-0.03622.4950.0120.0120.0000.0000.0000.000
39A194MET0-0.013-0.01025.100-0.009-0.0090.0000.0000.0000.000
40A195PRO00.0100.01726.9750.0060.0060.0000.0000.0000.000
41A196PRO00.0410.01527.2800.0000.0000.0000.0000.0000.000
42A197GLY00.0170.01227.331-0.003-0.0030.0000.0000.0000.000
43A198PHE00.007-0.00728.713-0.003-0.0030.0000.0000.0000.000
44A199THR0-0.026-0.01423.156-0.006-0.0060.0000.0000.0000.000
45A200LYS10.9350.96224.370-0.072-0.0720.0000.0000.0000.000
46A201SER0-0.049-0.04525.539-0.007-0.0070.0000.0000.0000.000
47A202LEU00.0010.00022.745-0.005-0.0050.0000.0000.0000.000
48A203ALA00.0240.01321.869-0.008-0.0080.0000.0000.0000.000
49A204MET00.0270.00823.068-0.005-0.0050.0000.0000.0000.000
50A205ARG10.7540.85426.2040.0220.0220.0000.0000.0000.000
51A206LEU00.0260.01422.049-0.004-0.0040.0000.0000.0000.000
52A207ASP-1-0.827-0.89322.230-0.018-0.0180.0000.0000.0000.000
53A208SER0-0.059-0.03624.005-0.002-0.0020.0000.0000.0000.000
54A209THR0-0.057-0.03326.2440.0010.0010.0000.0000.0000.000
55A210SER0-0.028-0.02922.025-0.011-0.0110.0000.0000.0000.000
56A211GLU-1-0.811-0.89122.059-0.078-0.0780.0000.0000.0000.000
57A212LEU0-0.058-0.00215.714-0.002-0.0020.0000.0000.0000.000
58A213THR00.0220.02317.9590.0080.0080.0000.0000.0000.000
59A214VAL0-0.048-0.02817.619-0.002-0.0020.0000.0000.0000.000
60A215LYS10.7620.84216.015-0.121-0.1210.0000.0000.0000.000
61A216GLU-1-0.781-0.87518.3050.0590.0590.0000.0000.0000.000
62A217ALA0-0.022-0.00414.9450.0130.0130.0000.0000.0000.000
63A218GLU-1-0.840-0.91015.7330.1470.1470.0000.0000.0000.000
64A219ASP-1-0.859-0.94314.9480.4180.4180.0000.0000.0000.000
65A220GLY00.0100.00412.432-0.006-0.0060.0000.0000.0000.000
66A221GLU-1-0.786-0.86312.4420.2210.2210.0000.0000.0000.000
67A222GLU-1-0.822-0.8977.5580.7270.7270.0000.0000.0000.000
68A223VAL0-0.032-0.0256.285-0.136-0.1360.0000.0000.0000.000
69A224LYS10.8340.9196.814-0.224-0.2240.0000.0000.0000.000
70A225PRO00.0340.0107.894-0.014-0.0140.0000.0000.0000.000
71A226GLY00.0450.01710.5630.0480.0480.0000.0000.0000.000
72A227PHE0-0.045-0.02312.8310.0420.0420.0000.0000.0000.000
73A228VAL0-0.002-0.00413.447-0.032-0.0320.0000.0000.0000.000
74A229TYR0-0.029-0.01510.9980.0130.0130.0000.0000.0000.000
75A230ILE00.0030.00415.408-0.009-0.0090.0000.0000.0000.000
76A231ALA0-0.001-0.00417.2550.0240.0240.0000.0000.0000.000
77A232PRO00.0190.01818.423-0.013-0.0130.0000.0000.0000.000
78A233GLY00.016-0.00621.4400.0000.0000.0000.0000.0000.000
79A234ASP-1-0.832-0.90524.0430.1000.1000.0000.0000.0000.000
80A235PHE00.0190.01819.8550.0090.0090.0000.0000.0000.000
81A236HIS00.004-0.03017.863-0.026-0.0260.0000.0000.0000.000
82A237LEU0-0.0210.00613.4690.0250.0250.0000.0000.0000.000
83A238GLY00.0410.02812.725-0.040-0.0400.0000.0000.0000.000
84A239LEU0-0.008-0.0117.005-0.001-0.0010.0000.0000.0000.000
85A240LYS10.8870.9487.446-0.638-0.6380.0000.0000.0000.000
86A241ALA00.0450.0252.812-0.466-0.0110.279-0.186-0.5470.001
87A242GLN0-0.012-0.0234.319-0.543-0.505-0.001-0.010-0.0270.000
88A243ASN0-0.004-0.0125.4510.1980.1980.0000.0000.0000.000
89A244GLY00.0180.0182.768-2.646-1.9281.082-0.892-0.9070.006
90A245LYS10.8070.8982.784-4.658-2.4890.769-1.016-1.922-0.013
91A246VAL00.0290.0032.434-0.1140.3033.239-0.867-2.789-0.006
92A247PHE0-0.0050.0114.474-0.397-0.338-0.001-0.020-0.0390.000
93A248PHE00.0470.0178.255-0.012-0.0120.0000.0000.0000.000
94A249PHE0-0.065-0.04311.0120.0590.0590.0000.0000.0000.000
95A250LEU00.0000.00513.755-0.044-0.0440.0000.0000.0000.000
96A251ASP-1-0.796-0.87016.3590.1970.1970.0000.0000.0000.000
97A252LYS10.8210.88118.138-0.138-0.1380.0000.0000.0000.000
98A253SER0-0.037-0.02120.046-0.017-0.0170.0000.0000.0000.000
99A254ASP-1-0.871-0.93122.6430.0810.0810.0000.0000.0000.000
100A255LYS10.8330.93223.711-0.045-0.0450.0000.0000.0000.000
101A256ILE00.0320.02720.206-0.003-0.0030.0000.0000.0000.000
102A257ASN0-0.009-0.01524.379-0.011-0.0110.0000.0000.0000.000
103A258ASN00.0370.01527.4010.0110.0110.0000.0000.0000.000
104A259VAL0-0.011-0.01323.6410.0020.0020.0000.0000.0000.000
105A260ARG10.8090.89522.147-0.093-0.0930.0000.0000.0000.000
106A261PRO0-0.0010.02019.2410.0010.0010.0000.0000.0000.000
107A262ALA0-0.033-0.01320.164-0.013-0.0130.0000.0000.0000.000
108A263VAL00.0350.01416.3460.0090.0090.0000.0000.0000.000
109A264ASP-1-0.785-0.90716.145-0.027-0.0270.0000.0000.0000.000
110A265PHE0-0.003-0.00214.841-0.004-0.0040.0000.0000.0000.000
111A266THR0-0.004-0.01912.2690.0180.0180.0000.0000.0000.000
112A267LEU0-0.010-0.00211.399-0.013-0.0130.0000.0000.0000.000
113A268ASP-1-0.838-0.88111.5110.0480.0480.0000.0000.0000.000
114A269LYS10.7950.9099.531-0.172-0.1720.0000.0000.0000.000
115A270ALA00.0080.0087.0920.0100.0100.0000.0000.0000.000
116A271ALA00.0100.0116.735-0.172-0.1720.0000.0000.0000.000
117A272GLU-1-0.813-0.8728.503-0.021-0.0210.0000.0000.0000.000
118A273ILE0-0.056-0.0132.545-0.743-0.0620.710-0.244-1.148-0.001
119A274TYR00.013-0.0073.211-2.541-0.5280.887-0.768-2.132-0.008
120A275LYS10.8210.9114.679-0.041-0.007-0.001-0.003-0.0290.000
121A276SER00.0590.0408.369-0.048-0.0480.0000.0000.0000.000
122A277LYS10.8590.9295.4511.8321.8320.0000.0000.0000.000
123A278THR0-0.003-0.0177.5900.0040.0040.0000.0000.0000.000
124A279ILE0-0.012-0.0049.1390.0380.0380.0000.0000.0000.000
125A280ALA00.0190.01212.4440.0320.0320.0000.0000.0000.000
126A281VAL00.000-0.00314.825-0.006-0.0060.0000.0000.0000.000
127A282ILE0-0.0200.00517.9780.0200.0200.0000.0000.0000.000
128A283LEU00.0280.00620.811-0.002-0.0020.0000.0000.0000.000
129A284THR00.015-0.00823.7220.0080.0080.0000.0000.0000.000
130A285GLY0-0.003-0.02226.6450.0040.0040.0000.0000.0000.000
131A286MET0-0.0070.00428.078-0.002-0.0020.0000.0000.0000.000
132A287GLY00.0100.00928.3050.0030.0030.0000.0000.0000.000
133A288LYS10.8830.91126.1050.0330.0330.0000.0000.0000.000
134A289ASP-1-0.759-0.87221.195-0.008-0.0080.0000.0000.0000.000
135A290GLY00.0530.01218.837-0.008-0.0080.0000.0000.0000.000
136A291THR0-0.0200.03219.231-0.018-0.0180.0000.0000.0000.000
137A292LYS10.9190.94420.172-0.015-0.0150.0000.0000.0000.000
138A293GLY00.006-0.00416.0630.0000.0000.0000.0000.0000.000
139A294ALA00.0030.00015.473-0.024-0.0240.0000.0000.0000.000
140A295PHE00.0100.01617.005-0.023-0.0230.0000.0000.0000.000
141A296LYS10.8790.91913.710-0.012-0.0120.0000.0000.0000.000
142A297VAL0-0.0040.00211.775-0.028-0.0280.0000.0000.0000.000
143A298LYS10.7920.88013.5360.2110.2110.0000.0000.0000.000
144A299PHE0-0.042-0.00714.931-0.015-0.0150.0000.0000.0000.000
145A300TYR0-0.065-0.06010.956-0.021-0.0210.0000.0000.0000.000
146A301GLY00.0020.00011.977-0.087-0.0870.0000.0000.0000.000
147A302GLY00.0000.00412.019-0.062-0.0620.0000.0000.0000.000
148A303THR0-0.089-0.04512.6090.0460.0460.0000.0000.0000.000
149A304VAL0-0.013-0.01114.6810.0000.0000.0000.0000.0000.000
150A305ILE0-0.019-0.00417.4780.0070.0070.0000.0000.0000.000
151A306ALA00.0020.00519.9390.0100.0100.0000.0000.0000.000
152A307GLU-1-0.729-0.82922.985-0.075-0.0750.0000.0000.0000.000
153A308ASP-1-0.830-0.92825.445-0.074-0.0740.0000.0000.0000.000
154A309LYS10.9420.96028.9440.0520.0520.0000.0000.0000.000
155A310GLU-1-0.875-0.90831.841-0.073-0.0730.0000.0000.0000.000
156A311THR00.000-0.02528.5520.0010.0010.0000.0000.0000.000
157A312CYS0-0.0660.00429.1570.0040.0040.0000.0000.0000.000
158A313VAL0-0.041-0.02230.8090.0030.0030.0000.0000.0000.000
159A314VAL0-0.026-0.03031.1290.0030.0030.0000.0000.0000.000
160A315PHE00.0350.02028.6940.0000.0000.0000.0000.0000.000
161A316GLY0-0.017-0.01429.7030.0010.0010.0000.0000.0000.000
162A317MET0-0.043-0.00422.7840.0010.0010.0000.0000.0000.000
163A318PRO00.0210.00424.444-0.004-0.0040.0000.0000.0000.000
164A319LYS10.7900.88825.5210.0400.0400.0000.0000.0000.000
165A320SER00.033-0.00325.4100.0000.0000.0000.0000.0000.000
166A321VAL0-0.015-0.00821.005-0.001-0.0010.0000.0000.0000.000
167A322ILE0-0.020-0.01023.971-0.008-0.0080.0000.0000.0000.000
168A323GLU-1-0.846-0.90726.443-0.049-0.0490.0000.0000.0000.000
169A324GLU-1-0.841-0.89925.077-0.046-0.0460.0000.0000.0000.000
170A325GLY0-0.0070.00725.546-0.003-0.0030.0000.0000.0000.000
171A326TYR0-0.076-0.06720.075-0.012-0.0120.0000.0000.0000.000
172A327ALA0-0.020-0.01320.361-0.019-0.0190.0000.0000.0000.000
173A328ASP-1-0.787-0.85818.166-0.242-0.2420.0000.0000.0000.000
174A329TYR0-0.007-0.01618.7450.0060.0060.0000.0000.0000.000
175A330VAL00.0200.00722.9720.0040.0040.0000.0000.0000.000
176A331LEU00.0070.00422.448-0.002-0.0020.0000.0000.0000.000
177A332PRO00.0350.04226.1920.0030.0030.0000.0000.0000.000
178A333ALA00.018-0.01625.178-0.009-0.0090.0000.0000.0000.000
179A334TYR0-0.033-0.05824.918-0.011-0.0110.0000.0000.0000.000
180A335LYS10.8220.89025.6960.1170.1170.0000.0000.0000.000
181A336ILE0-0.0320.00120.113-0.015-0.0150.0000.0000.0000.000
182A337PRO00.0010.00320.346-0.022-0.0220.0000.0000.0000.000
183A338GLU-1-0.806-0.88020.355-0.152-0.1520.0000.0000.0000.000
184A339LYS10.8500.92219.0750.2060.2060.0000.0000.0000.000
185A340LEU0-0.019-0.02415.149-0.031-0.0310.0000.0000.0000.000
186A341ILE0-0.004-0.00415.881-0.043-0.0430.0000.0000.0000.000
187A342GLU-1-0.870-0.91317.113-0.258-0.2580.0000.0000.0000.000
188A343LEU0-0.038-0.00414.466-0.026-0.0260.0000.0000.0000.000
189A344VAL0-0.054-0.00811.516-0.098-0.0980.0000.0000.0000.000