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: 3N55L

Calculation Name: 2WGL-C-Xray311

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: 2021-09-06

Reference: C. Watanabe, S. Koyama, K. Kamisaka, D. Takaya, T. Honma et. al., Interaction energy analysis of Apo structure dataset on FMODB, To be pubulished.

DOI:


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. 1.20200116
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 211
LigandCharge
Software ABINIT-MP - Open Ver.1 Rev. 15 / 20190524
Total energy (hartree)
FMO2-HF: Electronic energy -2488504.502512
FMO2-HF: Nuclear repulsion 2405344.547875
FMO2-HF: Total energy -83159.954637
FMO2-MP2: Total energy -83401.55898


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:24:ACE )


Summations of interaction energy for fragment #1(C:24:ACE )
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.
-0.8480.012-0.004-0.367-0.4890
Interaction energy analysis for fragmet #1(C:24:ACE )
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.030 / q_NPA : 0.006
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].
3C26ASN 00.0710.0363.8450.2541.010-0.004-0.351-0.4010.000
4C27ALA 0-0.013-0.0074.1020.1990.3030.000-0.016-0.0880.000
5C28HIS 00.0040.0076.0430.1530.1530.0000.0000.0000.000
6C29VAL 0-0.025-0.0068.9590.0060.0060.0000.0000.0000.000
7C30ASP -1-0.804-0.90511.028-0.092-0.0920.0000.0000.0000.000
8C31ASN 00.007-0.01613.782-0.002-0.0020.0000.0000.0000.000
9C32GLU -1-0.940-0.96515.779-0.071-0.0710.0000.0000.0000.000
10C33PHE 0-0.014-0.01717.1770.0140.0140.0000.0000.0000.000
11C34LEU 00.0120.01214.5600.0070.0070.0000.0000.0000.000
12C35ILE 0-0.029-0.01318.0110.0040.0040.0000.0000.0000.000
13C36LEU 0-0.014-0.01420.8810.0100.0100.0000.0000.0000.000
14C37GLN 00.0170.01618.6040.0040.0040.0000.0000.0000.000
15C38VAL 0-0.055-0.03719.8280.0050.0050.0000.0000.0000.000
16C39ASN 0-0.091-0.06122.6000.0050.0050.0000.0000.0000.000
17C40ASP -1-0.847-0.90925.333-0.039-0.0390.0000.0000.0000.000
18C41ALA 0-0.051-0.02527.204-0.003-0.0030.0000.0000.0000.000
19C42VAL 0-0.052-0.03026.5900.0010.0010.0000.0000.0000.000
20C43PHE 00.0070.01720.964-0.002-0.0020.0000.0000.0000.000
21C44PRO 00.0320.03724.6320.0030.0030.0000.0000.0000.000
22C45ILE 0-0.038-0.04125.930-0.004-0.0040.0000.0000.0000.000
23C46GLY 0-0.026-0.01528.4230.0010.0010.0000.0000.0000.000
24C47SER 0-0.027-0.02732.108-0.001-0.0010.0000.0000.0000.000
25C48TYR 00.0130.00929.3780.0010.0010.0000.0000.0000.000
26C49THR 0-0.007-0.02335.2190.0040.0040.0000.0000.0000.000
27C50HIS 10.8470.90534.9090.0580.0580.0000.0000.0000.000
28C51SER 0-0.010-0.00539.9970.0010.0010.0000.0000.0000.000
29C52PHE 00.0230.01140.2480.0020.0020.0000.0000.0000.000
30C53GLY 00.0400.03644.0700.0020.0020.0000.0000.0000.000
31C54LEU 0-0.038-0.01945.5360.0010.0010.0000.0000.0000.000
32C55GLU -1-0.871-0.94647.354-0.028-0.0280.0000.0000.0000.000
33C56THR 00.0350.01249.3800.0010.0010.0000.0000.0000.000
34C57TYR 0-0.001-0.00949.6950.0020.0020.0000.0000.0000.000
35C58ILE 00.0310.03648.8580.0010.0010.0000.0000.0000.000
36C59GLN 00.0180.02352.8820.0010.0010.0000.0000.0000.000
37C60GLN 0-0.082-0.04455.4520.0010.0010.0000.0000.0000.000
38C61LYS 10.8860.93956.5660.0180.0180.0000.0000.0000.000
39C62LYS 10.9080.95754.5630.0220.0220.0000.0000.0000.000
40C63VAL 0-0.0070.00349.5390.0000.0000.0000.0000.0000.000
41C64THR 0-0.018-0.00952.9270.0000.0000.0000.0000.0000.000
42C65ASN 00.0610.03753.3250.0000.0000.0000.0000.0000.000
43C66LYS 10.9470.98048.8900.0170.0170.0000.0000.0000.000
44C67GLU -1-0.888-0.95549.841-0.020-0.0200.0000.0000.0000.000
45C68SER 00.023-0.00251.272-0.001-0.0010.0000.0000.0000.000
46C69ALA 00.0260.01047.574-0.001-0.0010.0000.0000.0000.000
47C70LEU 0-0.015-0.00545.414-0.002-0.0020.0000.0000.0000.000
48C71GLU -1-0.894-0.95546.894-0.028-0.0280.0000.0000.0000.000
49C72TYR 0-0.0050.00145.108-0.002-0.0020.0000.0000.0000.000
50C73LEU 0-0.004-0.00742.145-0.002-0.0020.0000.0000.0000.000
51C74LYS 10.9180.96643.6240.0260.0260.0000.0000.0000.000
52C75ALA 00.0090.01044.501-0.002-0.0020.0000.0000.0000.000
53C76ASN 0-0.018-0.01041.538-0.001-0.0010.0000.0000.0000.000
54C77LEU 0-0.037-0.03538.222-0.003-0.0030.0000.0000.0000.000
55C78SER 0-0.057-0.02440.172-0.003-0.0030.0000.0000.0000.000
56C79SER 00.0530.03742.5160.0000.0000.0000.0000.0000.000
57C80GLN 00.009-0.00340.646-0.003-0.0030.0000.0000.0000.000
58C81PHE 0-0.028-0.01933.996-0.003-0.0030.0000.0000.0000.000
59C82LEU 00.0270.01936.751-0.004-0.0040.0000.0000.0000.000
60C83TYR 00.008-0.01137.000-0.003-0.0030.0000.0000.0000.000
61C84THR 00.0610.04336.358-0.001-0.0010.0000.0000.0000.000
62C85GLU -1-0.819-0.89933.703-0.073-0.0730.0000.0000.0000.000
63C86MET 0-0.028-0.00832.388-0.005-0.0050.0000.0000.0000.000
64C87LEU 00.0070.02132.032-0.006-0.0060.0000.0000.0000.000
65C88SER 0-0.010-0.01132.018-0.007-0.0070.0000.0000.0000.000
66C89LEU 0-0.038-0.00626.446-0.008-0.0080.0000.0000.0000.000
67C90LYS 10.8640.93527.4580.0730.0730.0000.0000.0000.000
68C91LEU 00.0360.02728.348-0.007-0.0070.0000.0000.0000.000
69C92THR 0-0.057-0.04426.144-0.005-0.0050.0000.0000.0000.000
70C93TYR 0-0.035-0.02521.429-0.012-0.0120.0000.0000.0000.000
71C94GLU -1-0.888-0.96623.774-0.117-0.1170.0000.0000.0000.000
72C95SER 0-0.033-0.02425.386-0.004-0.0040.0000.0000.0000.000
73C96ALA 0-0.009-0.00120.916-0.007-0.0070.0000.0000.0000.000
74C97LEU 0-0.0180.00619.901-0.021-0.0210.0000.0000.0000.000
75C98GLN 0-0.038-0.01021.586-0.004-0.0040.0000.0000.0000.000
76C99GLN 0-0.019-0.01818.101-0.001-0.0010.0000.0000.0000.000
77C100ASP -1-0.843-0.92322.327-0.114-0.1140.0000.0000.0000.000
78C101LEU 00.020-0.00923.5620.0070.0070.0000.0000.0000.000
79C102LYS 10.9300.96325.9030.0980.0980.0000.0000.0000.000
80C103LYS 10.9260.96029.0500.1220.1220.0000.0000.0000.000
81C104ILE 0-0.0160.01024.2320.0050.0050.0000.0000.0000.000
82C105LEU 0-0.023-0.01927.8820.0060.0060.0000.0000.0000.000
83C106GLY 00.0140.02130.3840.0070.0070.0000.0000.0000.000
84C107VAL 00.0170.01131.0950.0060.0060.0000.0000.0000.000
85C108GLU -1-0.757-0.83528.327-0.116-0.1160.0000.0000.0000.000
86C109GLU -1-0.965-0.97232.760-0.067-0.0670.0000.0000.0000.000
87C110VAL 00.0260.00835.7690.0050.0050.0000.0000.0000.000
88C111ILE 00.0200.00933.2600.0040.0040.0000.0000.0000.000
89C112MET 0-0.085-0.01636.0130.0070.0070.0000.0000.0000.000
90C113LEU 0-0.018-0.02737.7940.0040.0040.0000.0000.0000.000
91C114SER 0-0.035-0.01040.3520.0040.0040.0000.0000.0000.000
92C115THR 0-0.079-0.02439.2230.0020.0020.0000.0000.0000.000
93C116SER 0-0.043-0.00941.6950.0020.0020.0000.0000.0000.000
94C117PRO 00.042-0.00444.5070.0000.0000.0000.0000.0000.000
95C118MET 00.0370.01843.260-0.004-0.0040.0000.0000.0000.000
96C119GLU -1-0.867-0.94841.996-0.041-0.0410.0000.0000.0000.000
97C120LEU 0-0.0070.00139.479-0.002-0.0020.0000.0000.0000.000
98C121ARG 10.9750.98238.3910.0530.0530.0000.0000.0000.000
99C122LEU 0-0.042-0.01437.453-0.004-0.0040.0000.0000.0000.000
100C123ALA 0-0.047-0.02036.288-0.003-0.0030.0000.0000.0000.000
101C124ASN 00.0810.04134.634-0.003-0.0030.0000.0000.0000.000
102C125GLN 00.0490.04232.696-0.002-0.0020.0000.0000.0000.000
103C126LYS 10.9200.96731.3200.0470.0470.0000.0000.0000.000
104C127LEU 00.0060.00030.363-0.005-0.0050.0000.0000.0000.000
105C128GLY 00.0500.01528.337-0.006-0.0060.0000.0000.0000.000
106C129ASN 0-0.004-0.01126.714-0.017-0.0170.0000.0000.0000.000
107C130ARG 10.8240.92126.0620.0670.0670.0000.0000.0000.000
108C131PHE 00.0340.03021.922-0.002-0.0020.0000.0000.0000.000
109C132ILE 00.0420.02621.376-0.012-0.0120.0000.0000.0000.000
110C133LYS 10.9070.95720.9360.1060.1060.0000.0000.0000.000
111C134THR 0-0.028-0.02821.1430.0000.0000.0000.0000.0000.000
112C135LEU 0-0.007-0.00317.3790.0000.0000.0000.0000.0000.000
113C136GLN 0-0.022-0.01516.8190.0020.0020.0000.0000.0000.000
114C137ALA 0-0.042-0.00617.107-0.002-0.0020.0000.0000.0000.000
115C138MET 0-0.054-0.01615.2680.0230.0230.0000.0000.0000.000
116C139ASN 00.0290.00113.142-0.024-0.0240.0000.0000.0000.000
117C140GLU -1-0.971-0.9669.960-0.039-0.0390.0000.0000.0000.000
118C141LEU 0-0.067-0.0319.315-0.061-0.0610.0000.0000.0000.000
119C142ASP -1-0.863-0.9318.066-1.103-1.1030.0000.0000.0000.000
120C143MET 0-0.073-0.03210.029-0.020-0.0200.0000.0000.0000.000
121C144GLY 00.0420.03011.4320.0290.0290.0000.0000.0000.000
122C145GLU -1-0.888-0.95212.347-0.359-0.3590.0000.0000.0000.000
123C146PHE 0-0.0060.01114.7310.0680.0680.0000.0000.0000.000
124C147PHE 00.0510.02316.2370.0510.0510.0000.0000.0000.000
125C148ASN 0-0.0020.00114.3800.0020.0020.0000.0000.0000.000
126C149ALA 00.0090.00217.8310.0390.0390.0000.0000.0000.000
127C150TYR 0-0.063-0.07120.6000.0260.0260.0000.0000.0000.000
128C151ALA 0-0.034-0.02120.3680.0220.0220.0000.0000.0000.000
129C152GLN 0-0.051-0.02120.0610.0330.0330.0000.0000.0000.000
130C153LYS 10.8940.94823.6490.1380.1380.0000.0000.0000.000
131C154THR 0-0.063-0.02525.7090.0150.0150.0000.0000.0000.000
132C155LYS 10.9250.95727.6500.0900.0900.0000.0000.0000.000
133C156ASP -1-0.900-0.96331.099-0.070-0.0700.0000.0000.0000.000
134C157PRO 00.0170.04227.4890.0000.0000.0000.0000.0000.000
135C158THR 00.020-0.01129.1530.0090.0090.0000.0000.0000.000
136C159HIS 00.005-0.01026.479-0.003-0.0030.0000.0000.0000.000
137C160ALA 00.0490.02327.113-0.009-0.0090.0000.0000.0000.000
138C161THR 0-0.001-0.02227.462-0.006-0.0060.0000.0000.0000.000
139C162SER 00.0560.02024.016-0.014-0.0140.0000.0000.0000.000
140C163TYR 0-0.065-0.03222.847-0.021-0.0210.0000.0000.0000.000
141C164GLY 00.0540.02822.718-0.012-0.0120.0000.0000.0000.000
142C165VAL 0-0.008-0.00420.156-0.014-0.0140.0000.0000.0000.000
143C166PHE 00.011-0.01117.237-0.029-0.0290.0000.0000.0000.000
144C167ALA 0-0.008-0.00417.968-0.026-0.0260.0000.0000.0000.000
145C168ALA 00.0080.00118.595-0.016-0.0160.0000.0000.0000.000
146C169SER 0-0.046-0.02615.526-0.022-0.0220.0000.0000.0000.000
147C170LEU 0-0.0130.00312.571-0.065-0.0650.0000.0000.0000.000
148C171GLY 00.0030.01214.369-0.003-0.0030.0000.0000.0000.000
149C172ILE 0-0.046-0.01316.4100.0370.0370.0000.0000.0000.000
150C173GLU -1-0.814-0.90218.864-0.096-0.0960.0000.0000.0000.000
151C174LEU 00.0600.03522.0420.0060.0060.0000.0000.0000.000
152C175LYS 10.9430.96225.0230.0740.0740.0000.0000.0000.000
153C176LYS 10.8430.94021.0030.1060.1060.0000.0000.0000.000
154C177ALA 00.0470.02323.1120.0050.0050.0000.0000.0000.000
155C178LEU 00.0390.01324.7630.0070.0070.0000.0000.0000.000
156C179ARG 10.9480.97426.7710.0760.0760.0000.0000.0000.000
157C180HIS 0-0.041-0.01625.3670.0060.0060.0000.0000.0000.000
158C181TYR 00.010-0.00327.4900.0040.0040.0000.0000.0000.000
159C182LEU 0-0.003-0.00328.9130.0060.0060.0000.0000.0000.000
160C183TYR 00.0040.00931.1690.0060.0060.0000.0000.0000.000
161C184ALA 00.0660.03329.5550.0050.0050.0000.0000.0000.000
162C185GLN 00.0380.03430.4660.0080.0080.0000.0000.0000.000
163C186THR 00.001-0.01733.9010.0050.0050.0000.0000.0000.000
164C187SER 0-0.024-0.00134.4740.0050.0050.0000.0000.0000.000
165C188ASN 00.005-0.00134.9410.0030.0030.0000.0000.0000.000
166C189MET 00.0110.00636.8380.0040.0040.0000.0000.0000.000
167C190VAL 00.0070.00639.6590.0030.0030.0000.0000.0000.000
168C191ILE 00.0110.01138.2440.0030.0030.0000.0000.0000.000
169C192ASN 0-0.015-0.00341.0210.0010.0010.0000.0000.0000.000
170C193CYS 00.0370.01242.7690.0020.0020.0000.0000.0000.000
171C194VAL 0-0.041-0.01943.7320.0020.0020.0000.0000.0000.000
172C195LYS 10.9360.96140.3830.0290.0290.0000.0000.0000.000
173C196SER 0-0.032-0.00845.8920.0010.0010.0000.0000.0000.000
174C197VAL 0-0.0630.00448.3100.0010.0010.0000.0000.0000.000
175C198PRO 0-0.013-0.00249.6420.0010.0010.0000.0000.0000.000
176C199LEU 0-0.025-0.03147.1680.0010.0010.0000.0000.0000.000
177C200SER 00.0200.01048.5570.0000.0000.0000.0000.0000.000
178C201GLN 00.0840.01142.892-0.002-0.0020.0000.0000.0000.000
179C202ASN 00.0220.00344.762-0.002-0.0020.0000.0000.0000.000
180C203ASP -1-0.891-0.95046.290-0.019-0.0190.0000.0000.0000.000
181C204GLY 00.0390.01643.851-0.001-0.0010.0000.0000.0000.000
182C205GLN 00.011-0.00139.171-0.002-0.0020.0000.0000.0000.000
183C206LYS 10.9190.96842.6960.0160.0160.0000.0000.0000.000
184C207ILE 0-0.0060.00443.105-0.001-0.0010.0000.0000.0000.000
185C208LEU 00.0140.00037.669-0.001-0.0010.0000.0000.0000.000
186C209LEU 00.0080.01940.045-0.001-0.0010.0000.0000.0000.000
187C210SER 0-0.059-0.04041.6970.0000.0000.0000.0000.0000.000
188C211LEU 0-0.007-0.00840.3120.0000.0000.0000.0000.0000.000
189C212GLN 00.0090.01637.293-0.002-0.0020.0000.0000.0000.000
190C213SER 0-0.0030.00238.502-0.002-0.0020.0000.0000.0000.000
191C214PRO 0-0.017-0.01140.393-0.002-0.0020.0000.0000.0000.000
192C215PHE 00.0250.00135.692-0.002-0.0020.0000.0000.0000.000
193C216ASN 00.005-0.00235.080-0.007-0.0070.0000.0000.0000.000
194C217GLN 00.0100.00437.026-0.001-0.0010.0000.0000.0000.000
195C218LEU 00.0120.00337.067-0.001-0.0010.0000.0000.0000.000
196C219ILE 0-0.0120.00331.476-0.003-0.0030.0000.0000.0000.000
197C220GLU -1-0.892-0.96034.444-0.062-0.0620.0000.0000.0000.000
198C221LYS 10.9380.98636.3560.0470.0470.0000.0000.0000.000
199C222THR 0-0.015-0.03032.773-0.002-0.0020.0000.0000.0000.000
200C223LEU 0-0.060-0.04330.458-0.004-0.0040.0000.0000.0000.000
201C224GLU -1-0.954-0.96434.049-0.051-0.0510.0000.0000.0000.000
202C225LEU 0-0.102-0.02436.7500.0020.0020.0000.0000.0000.000
203C226ASP -1-0.787-0.89335.506-0.068-0.0680.0000.0000.0000.000
204C227GLU -1-0.864-0.96533.633-0.083-0.0830.0000.0000.0000.000
205C228SER 0-0.139-0.05936.9370.0030.0030.0000.0000.0000.000
206C229HIS 00.0500.02339.3650.0020.0020.0000.0000.0000.000
207C230LEU 00.0010.00435.2100.0010.0010.0000.0000.0000.000
208C231CYS 0-0.079-0.03538.7100.0010.0010.0000.0000.0000.000
209C232THR 0-0.050-0.03140.7840.0040.0040.0000.0000.0000.000
210C233ALA 0-0.045-0.01042.9960.0030.0030.0000.0000.0000.000
211C234NME 0-0.005-0.00244.340-0.001-0.0010.0000.0000.0000.000