FMODB

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

Last updated: 2024-07-23

All entries: 37450

Number of unique PDB entries: 7783

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FMODB ID: 667JZ

Calculation Name: 2WGL-C-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2WGL

Chain ID: C

ChEMBL ID:

UniProt ID: Q09065

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:


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 209
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2482057.558513
FMO2-HF: Nuclear repulsion 2399067.355079
FMO2-HF: Total energy -82990.203434
FMO2-MP2: Total energy -83231.277648


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(C:25:ASN)


Summations of interaction energy for fragment #1(C:25:ASN)
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.
-1.9151.7790.064-1.56-2.1970.004
Interaction energy analysis for fragmet #1(C:25:ASN)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.023 / q_NPA : -0.020
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].
3C27ALA0-0.016-0.0042.8810.2473.4630.064-1.506-1.7740.004
4C28HIS00.0010.0014.2960.4980.8160.001-0.049-0.2700.000
5C29VAL0-0.031-0.0126.7210.7090.7090.0000.0000.0000.000
6C30ASP-1-0.787-0.8968.0010.1170.1170.0000.0000.0000.000
7C31ASN00.006-0.0188.993-0.284-0.2840.0000.0000.0000.000
8C32GLU-1-0.855-0.91011.5310.2450.2450.0000.0000.0000.000
9C33PHE0-0.026-0.01713.9830.0020.0020.0000.0000.0000.000
10C34LEU00.0150.01311.1110.0280.0280.0000.0000.0000.000
11C35ILE0-0.018-0.00814.3830.0340.0340.0000.0000.0000.000
12C36LEU0-0.017-0.01016.5540.0260.0260.0000.0000.0000.000
13C37GLN00.0080.01116.074-0.028-0.0280.0000.0000.0000.000
14C38VAL0-0.052-0.03516.2000.0120.0120.0000.0000.0000.000
15C39ASN0-0.098-0.07219.0420.0490.0490.0000.0000.0000.000
16C40ASP-1-0.836-0.90821.892-0.218-0.2180.0000.0000.0000.000
17C41ALA0-0.056-0.02523.919-0.004-0.0040.0000.0000.0000.000
18C42VAL0-0.058-0.02925.1180.0010.0010.0000.0000.0000.000
19C43PHE00.0220.02018.222-0.036-0.0360.0000.0000.0000.000
20C44PRO00.0130.02822.2750.0390.0390.0000.0000.0000.000
21C45ILE0-0.021-0.02222.764-0.012-0.0120.0000.0000.0000.000
22C46GLY0-0.015-0.00725.7250.0210.0210.0000.0000.0000.000
23C47SER0-0.022-0.02429.077-0.001-0.0010.0000.0000.0000.000
24C48TYR00.0140.00525.8220.0150.0150.0000.0000.0000.000
25C49THR0-0.009-0.01831.552-0.001-0.0010.0000.0000.0000.000
26C50HIS10.8490.90630.5280.0240.0240.0000.0000.0000.000
27C51SER0-0.008-0.00235.8140.0060.0060.0000.0000.0000.000
28C52PHE00.0210.00836.8390.0000.0000.0000.0000.0000.000
29C53GLY00.0470.03639.8920.0020.0020.0000.0000.0000.000
30C54LEU0-0.034-0.00441.2910.0050.0050.0000.0000.0000.000
31C55GLU-1-0.861-0.94543.142-0.034-0.0340.0000.0000.0000.000
32C56THR00.0410.01845.4760.0010.0010.0000.0000.0000.000
33C57TYR00.001-0.00645.2620.0020.0020.0000.0000.0000.000
34C58ILE00.0350.03544.8400.0010.0010.0000.0000.0000.000
35C59GLN00.0090.02748.6840.0030.0030.0000.0000.0000.000
36C60GLN0-0.044-0.03151.350-0.002-0.0020.0000.0000.0000.000
37C61LYS10.8520.92152.4200.0210.0210.0000.0000.0000.000
38C62LYS10.8900.94850.011-0.003-0.0030.0000.0000.0000.000
39C63VAL0-0.0140.00145.1030.0030.0030.0000.0000.0000.000
40C64THR00.002-0.00548.498-0.004-0.0040.0000.0000.0000.000
41C65ASN00.0560.04849.099-0.001-0.0010.0000.0000.0000.000
42C66LYS10.9250.96044.569-0.001-0.0010.0000.0000.0000.000
43C67GLU-1-0.860-0.93245.2710.0050.0050.0000.0000.0000.000
44C68SER00.036-0.01046.5110.0020.0020.0000.0000.0000.000
45C69ALA00.0130.00543.1480.0020.0020.0000.0000.0000.000
46C70LEU0-0.0060.00140.5510.0020.0020.0000.0000.0000.000
47C71GLU-1-0.804-0.89641.9950.0400.0400.0000.0000.0000.000
48C72TYR0-0.008-0.00740.5700.0040.0040.0000.0000.0000.000
49C73LEU00.002-0.00537.3840.0020.0020.0000.0000.0000.000
50C74LYS10.8220.90238.597-0.036-0.0360.0000.0000.0000.000
51C75ALA00.0110.02439.3180.0080.0080.0000.0000.0000.000
52C76ASN00.0160.01536.4250.0050.0050.0000.0000.0000.000
53C77LEU0-0.047-0.03833.1900.0040.0040.0000.0000.0000.000
54C78SER0-0.044-0.03734.9550.0100.0100.0000.0000.0000.000
55C79SER00.014-0.00637.2260.0040.0040.0000.0000.0000.000
56C80GLN0-0.001-0.00135.8140.0020.0020.0000.0000.0000.000
57C81PHE0-0.021-0.01329.1080.0040.0040.0000.0000.0000.000
58C82LEU00.0260.02031.6300.0070.0070.0000.0000.0000.000
59C83TYR00.0250.00131.7450.0120.0120.0000.0000.0000.000
60C84THR00.0590.04331.5980.0080.0080.0000.0000.0000.000
61C85GLU-1-0.806-0.89528.8640.0230.0230.0000.0000.0000.000
62C86MET0-0.016-0.00127.1920.0060.0060.0000.0000.0000.000
63C87LEU00.0050.01826.7100.0250.0250.0000.0000.0000.000
64C88SER0-0.024-0.01427.0370.0190.0190.0000.0000.0000.000
65C89LEU0-0.043-0.01021.1710.0200.0200.0000.0000.0000.000
66C90LYS10.8290.91522.237-0.260-0.2600.0000.0000.0000.000
67C91LEU00.0370.03223.0160.0430.0430.0000.0000.0000.000
68C92THR0-0.055-0.04221.2990.0380.0380.0000.0000.0000.000
69C93TYR0-0.030-0.02615.9900.0570.0570.0000.0000.0000.000
70C94GLU-1-0.824-0.92818.5570.4520.4520.0000.0000.0000.000
71C95SER0-0.023-0.01420.2800.0530.0530.0000.0000.0000.000
72C96ALA0-0.0020.00316.1110.0230.0230.0000.0000.0000.000
73C97LEU0-0.0170.00814.5980.1060.1060.0000.0000.0000.000
74C98GLN0-0.038-0.00916.3510.0590.0590.0000.0000.0000.000
75C99GLN0-0.022-0.01813.688-0.063-0.0630.0000.0000.0000.000
76C100ASP-1-0.792-0.87917.7840.2880.2880.0000.0000.0000.000
77C101LEU00.011-0.00919.686-0.042-0.0420.0000.0000.0000.000
78C102LYS10.9410.96922.000-0.221-0.2210.0000.0000.0000.000
79C103LYS10.8460.89424.219-0.399-0.3990.0000.0000.0000.000
80C104ILE0-0.0290.00419.695-0.022-0.0220.0000.0000.0000.000
81C105LEU0-0.020-0.01823.739-0.031-0.0310.0000.0000.0000.000
82C106GLY00.0110.01726.377-0.021-0.0210.0000.0000.0000.000
83C107VAL00.0200.01126.465-0.015-0.0150.0000.0000.0000.000
84C108GLU-1-0.751-0.83724.0840.0440.0440.0000.0000.0000.000
85C109GLU-1-0.972-0.97728.4790.0650.0650.0000.0000.0000.000
86C110VAL00.0370.01331.673-0.012-0.0120.0000.0000.0000.000
87C111ILE00.0290.02228.700-0.010-0.0100.0000.0000.0000.000
88C112MET0-0.085-0.00632.069-0.013-0.0130.0000.0000.0000.000
89C113LEU0-0.012-0.02433.701-0.010-0.0100.0000.0000.0000.000
90C114SER0-0.045-0.02036.0010.0000.0000.0000.0000.0000.000
91C115THR0-0.095-0.04934.862-0.003-0.0030.0000.0000.0000.000
92C116SER0-0.047-0.00637.429-0.007-0.0070.0000.0000.0000.000
93C117PRO00.0520.00040.3180.0020.0020.0000.0000.0000.000
94C118MET00.0440.01539.6570.0000.0000.0000.0000.0000.000
95C119GLU-1-0.873-0.95138.521-0.039-0.0390.0000.0000.0000.000
96C120LEU0-0.019-0.00635.737-0.009-0.0090.0000.0000.0000.000
97C121ARG10.9560.98634.0820.0090.0090.0000.0000.0000.000
98C122LEU0-0.030-0.00833.881-0.004-0.0040.0000.0000.0000.000
99C123ALA0-0.053-0.02333.016-0.013-0.0130.0000.0000.0000.000
100C124ASN00.0620.02830.958-0.021-0.0210.0000.0000.0000.000
101C125GLN00.0470.04029.164-0.010-0.0100.0000.0000.0000.000
102C126LYS10.9240.96927.9630.1090.1090.0000.0000.0000.000
103C127LEU0-0.007-0.00326.850-0.021-0.0210.0000.0000.0000.000
104C128GLY00.0590.02124.712-0.016-0.0160.0000.0000.0000.000
105C129ASN0-0.028-0.02123.296-0.030-0.0300.0000.0000.0000.000
106C130ARG10.8290.91423.0800.2480.2480.0000.0000.0000.000
107C131PHE00.0290.03017.918-0.056-0.0560.0000.0000.0000.000
108C132ILE00.0260.02018.060-0.055-0.0550.0000.0000.0000.000
109C133LYS10.8730.93518.0190.2370.2370.0000.0000.0000.000
110C134THR0-0.023-0.02818.840-0.071-0.0710.0000.0000.0000.000
111C135LEU0-0.003-0.00114.246-0.081-0.0810.0000.0000.0000.000
112C136GLN00.0160.00714.457-0.092-0.0920.0000.0000.0000.000
113C137ALA0-0.036-0.00215.329-0.087-0.0870.0000.0000.0000.000
114C138MET0-0.048-0.01513.699-0.040-0.0400.0000.0000.0000.000
115C139ASN00.014-0.00412.299-0.271-0.2710.0000.0000.0000.000
116C140GLU-1-0.952-0.9589.092-2.258-2.2580.0000.0000.0000.000
117C141LEU0-0.058-0.0238.014-0.777-0.7770.0000.0000.0000.000
118C142ASP-1-0.848-0.9154.886-1.980-1.820-0.001-0.005-0.1530.000
119C143MET0-0.047-0.0126.9140.3480.3480.0000.0000.0000.000
120C144GLY00.0450.0257.6670.5260.5260.0000.0000.0000.000
121C145GLU-1-0.920-0.9618.4770.0250.0250.0000.0000.0000.000
122C146PHE00.0090.01011.258-0.155-0.1550.0000.0000.0000.000
123C147PHE00.0610.02912.274-0.125-0.1250.0000.0000.0000.000
124C148ASN0-0.018-0.02210.850-0.140-0.1400.0000.0000.0000.000
125C149ALA0-0.0040.00114.367-0.035-0.0350.0000.0000.0000.000
126C150TYR0-0.045-0.06016.814-0.024-0.0240.0000.0000.0000.000
127C151ALA0-0.025-0.01617.004-0.023-0.0230.0000.0000.0000.000
128C152GLN0-0.053-0.02217.756-0.005-0.0050.0000.0000.0000.000
129C153LYS10.8840.94520.469-0.075-0.0750.0000.0000.0000.000
130C154THR0-0.049-0.02421.8550.0040.0040.0000.0000.0000.000
131C155LYS10.9350.97123.947-0.049-0.0490.0000.0000.0000.000
132C156ASP-1-0.888-0.96427.514-0.027-0.0270.0000.0000.0000.000
133C157PRO00.0110.03723.6760.0160.0160.0000.0000.0000.000
134C158THR00.001-0.02225.050-0.012-0.0120.0000.0000.0000.000
135C159HIS00.021-0.00222.269-0.003-0.0030.0000.0000.0000.000
136C160ALA00.0370.01922.7150.0010.0010.0000.0000.0000.000
137C161THR00.001-0.00622.6170.0180.0180.0000.0000.0000.000
138C162SER00.0440.00320.0980.0270.0270.0000.0000.0000.000
139C163TYR0-0.053-0.02518.359-0.002-0.0020.0000.0000.0000.000
140C164GLY00.0530.02917.7780.0330.0330.0000.0000.0000.000
141C165VAL0-0.001-0.00315.7440.0860.0860.0000.0000.0000.000
142C166PHE00.0100.00013.4170.1120.1120.0000.0000.0000.000
143C167ALA0-0.003-0.00112.9800.0510.0510.0000.0000.0000.000
144C168ALA00.0050.00313.1810.1190.1190.0000.0000.0000.000
145C169SER0-0.056-0.04410.9080.2410.2410.0000.0000.0000.000
146C170LEU0-0.0140.0027.9700.3220.3220.0000.0000.0000.000
147C171GLY00.0010.0138.9410.2260.2260.0000.0000.0000.000
148C172ILE0-0.046-0.01110.913-0.065-0.0650.0000.0000.0000.000
149C173GLU-1-0.800-0.88313.5230.4420.4420.0000.0000.0000.000
150C174LEU00.0620.03716.730-0.096-0.0960.0000.0000.0000.000
151C175LYS10.8450.88019.571-0.361-0.3610.0000.0000.0000.000
152C176LYS10.7370.86316.458-0.253-0.2530.0000.0000.0000.000
153C177ALA00.0430.02117.750-0.065-0.0650.0000.0000.0000.000
154C178LEU00.0330.01319.555-0.060-0.0600.0000.0000.0000.000
155C179ARG10.9480.97821.932-0.258-0.2580.0000.0000.0000.000
156C180HIS0-0.031-0.01420.4570.0050.0050.0000.0000.0000.000
157C181TYR00.0190.00222.523-0.030-0.0300.0000.0000.0000.000
158C182LEU0-0.004-0.00624.013-0.021-0.0210.0000.0000.0000.000
159C183TYR0-0.0090.00426.578-0.012-0.0120.0000.0000.0000.000
160C184ALA00.0630.03625.235-0.011-0.0110.0000.0000.0000.000
161C185GLN00.0490.03825.883-0.015-0.0150.0000.0000.0000.000
162C186THR00.002-0.01429.439-0.003-0.0030.0000.0000.0000.000
163C187SER0-0.026-0.00330.406-0.004-0.0040.0000.0000.0000.000
164C188ASN00.004-0.00231.0870.0040.0040.0000.0000.0000.000
165C189MET00.0090.00532.533-0.002-0.0020.0000.0000.0000.000
166C190VAL00.0150.01335.4050.0000.0000.0000.0000.0000.000
167C191ILE0-0.0010.00334.579-0.003-0.0030.0000.0000.0000.000
168C192ASN0-0.010-0.00237.1730.0030.0030.0000.0000.0000.000
169C193CYS00.0250.02139.0060.0020.0020.0000.0000.0000.000
170C194VAL0-0.042-0.02240.0340.0000.0000.0000.0000.0000.000
171C195LYS10.9400.96537.1170.0920.0920.0000.0000.0000.000
172C196SER0-0.033-0.02542.226-0.002-0.0020.0000.0000.0000.000
173C197VAL0-0.077-0.00244.7110.0020.0020.0000.0000.0000.000
174C198PRO0-0.0150.00545.9920.0010.0010.0000.0000.0000.000
175C199LEU0-0.027-0.03643.1130.0050.0050.0000.0000.0000.000
176C200SER0-0.014-0.03244.992-0.006-0.0060.0000.0000.0000.000
177C201GLN00.0840.01339.7230.0030.0030.0000.0000.0000.000
178C202ASN00.0200.00241.0150.0000.0000.0000.0000.0000.000
179C203ASP-1-0.808-0.87742.352-0.012-0.0120.0000.0000.0000.000
180C204GLY00.0700.03639.8780.0060.0060.0000.0000.0000.000
181C205GLN0-0.002-0.00435.8270.0080.0080.0000.0000.0000.000
182C206LYS10.8480.92038.5380.0190.0190.0000.0000.0000.000
183C207ILE0-0.0110.01238.4910.0080.0080.0000.0000.0000.000
184C208LEU00.0250.00533.2670.0080.0080.0000.0000.0000.000
185C209LEU0-0.0010.01435.5280.0080.0080.0000.0000.0000.000
186C210SER0-0.065-0.05437.3080.0100.0100.0000.0000.0000.000
187C211LEU0-0.011-0.00835.4660.0070.0070.0000.0000.0000.000
188C212GLN00.0260.02432.7620.0010.0010.0000.0000.0000.000
189C213SER0-0.0020.00333.6070.0140.0140.0000.0000.0000.000
190C214PRO00.005-0.00535.3240.0100.0100.0000.0000.0000.000
191C215PHE00.016-0.00130.6540.0060.0060.0000.0000.0000.000
192C216ASN0-0.021-0.02030.2800.0250.0250.0000.0000.0000.000
193C217GLN00.0150.01031.8830.0090.0090.0000.0000.0000.000
194C218LEU00.0100.00731.9660.0070.0070.0000.0000.0000.000
195C219ILE0-0.0120.01026.2210.0070.0070.0000.0000.0000.000
196C220GLU-1-0.809-0.89529.0070.2640.2640.0000.0000.0000.000
197C221LYS10.9290.97930.959-0.124-0.1240.0000.0000.0000.000
198C222THR0-0.021-0.04227.3790.0010.0010.0000.0000.0000.000
199C223LEU0-0.052-0.03624.8340.0140.0140.0000.0000.0000.000
200C224GLU-1-0.951-0.96228.5310.1980.1980.0000.0000.0000.000
201C225LEU0-0.076-0.02131.195-0.011-0.0110.0000.0000.0000.000
202C226ASP-1-0.792-0.88830.1870.2220.2220.0000.0000.0000.000
203C227GLU-1-0.865-0.96528.6940.2400.2400.0000.0000.0000.000
204C228SER0-0.136-0.07831.847-0.021-0.0210.0000.0000.0000.000
205C229HIS00.0150.01234.206-0.011-0.0110.0000.0000.0000.000
206C230LEU00.0000.01330.267-0.012-0.0120.0000.0000.0000.000
207C231CYS0-0.075-0.04433.636-0.007-0.0070.0000.0000.0000.000
208C232THR0-0.050-0.03035.829-0.008-0.0080.0000.0000.0000.000
209C233ALA0-0.038-0.00837.844-0.006-0.0060.0000.0000.0000.000