FMODB

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

Last updated: 2024-07-23

All entries: 37478

Number of unique PDB entries: 7783

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FMODB ID: N236Q

Calculation Name: 1O20-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1O20

Chain ID: A

ChEMBL ID:

UniProt ID: Q9WYC9

Base Structure: X-ray

Registration Date: 2023-09-26

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 414
LigandResidueName
LigandFragmentNumber 0
LigandCharge CYM=-1
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -7026771.123181
FMO2-HF: Nuclear repulsion 6866678.80536
FMO2-HF: Total energy -160092.317821
FMO2-MP2: Total energy -160567.594


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:2:ASP)


Summations of interaction energy for fragment #1(A:2:ASP)
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.
-83.767-76.4113.163-9.267-11.2530.111
Interaction energy analysis for fragmet #1(A:2:ASP)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : -1 / q_Mulliken : -0.860 / q_NPA : -0.942
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].
3A4LEU00.0180.0062.717-15.369-11.2331.255-2.305-3.0860.025
4A5LEU00.0250.0081.855-38.194-36.17911.877-6.429-7.4630.082
5A6GLU-1-0.904-0.9323.59319.85321.0590.031-0.533-0.7040.004
6A7LYS10.7760.8715.529-37.823-37.8230.0000.0000.0000.000
7A8ALA00.0290.0166.522-5.068-5.0680.0000.0000.0000.000
8A9LYS10.9170.9665.087-45.093-45.0930.0000.0000.0000.000
9A10LYS10.8840.9377.570-33.077-33.0770.0000.0000.0000.000
10A11VAL00.0220.01911.099-2.316-2.3160.0000.0000.0000.000
11A12ARG10.8510.92812.440-20.328-20.3280.0000.0000.0000.000
12A13GLU-1-0.954-0.97511.99421.73221.7320.0000.0000.0000.000
13A14ALA0-0.007-0.00115.573-1.407-1.4070.0000.0000.0000.000
14A15TRP0-0.004-0.00317.039-1.078-1.0780.0000.0000.0000.000
15A16ASP-1-0.836-0.89818.93813.97713.9770.0000.0000.0000.000
16A17VAL00.0030.00920.933-0.816-0.8160.0000.0000.0000.000
17A18LEU0-0.021-0.00820.670-0.669-0.6690.0000.0000.0000.000
18A19ARG10.7850.90521.970-14.179-14.1790.0000.0000.0000.000
19A20ASN0-0.076-0.05224.351-0.759-0.7590.0000.0000.0000.000
20A21ALA00.0340.04226.431-0.456-0.4560.0000.0000.0000.000
21A22THR00.020-0.00328.212-0.206-0.2060.0000.0000.0000.000
22A23THR00.026-0.04130.5330.1260.1260.0000.0000.0000.000
23A24ARG10.9120.96432.001-8.379-8.3790.0000.0000.0000.000
24A25GLU-1-0.696-0.83628.44910.47910.4790.0000.0000.0000.000
25A26LYS10.8330.91326.542-11.041-11.0410.0000.0000.0000.000
26A27ASN00.021-0.00928.4860.4010.4010.0000.0000.0000.000
27A28LYS10.8090.91530.622-10.317-10.3170.0000.0000.0000.000
28A29ALA00.0400.02425.671-0.021-0.0210.0000.0000.0000.000
29A30ILE00.004-0.00126.6590.1390.1390.0000.0000.0000.000
30A31LYS10.8520.92728.426-9.058-9.0580.0000.0000.0000.000
31A32LYS10.8630.92028.695-10.167-10.1670.0000.0000.0000.000
32A33ILE0-0.0080.00523.8360.1350.1350.0000.0000.0000.000
33A34ALA0-0.025-0.02027.3480.0220.0220.0000.0000.0000.000
34A35GLU-1-0.877-0.93730.5119.4669.4660.0000.0000.0000.000
35A36LYS10.8430.92826.829-10.865-10.8650.0000.0000.0000.000
36A37LEU0-0.046-0.03025.5040.1160.1160.0000.0000.0000.000
37A38ASP-1-0.876-0.92728.8018.9958.9950.0000.0000.0000.000
38A39GLU-1-0.856-0.93030.51710.10310.1030.0000.0000.0000.000
39A40ARG10.7460.84726.319-11.482-11.4820.0000.0000.0000.000
40A41ARG10.7370.84428.604-8.968-8.9680.0000.0000.0000.000
41A42LYS10.9520.96830.274-8.927-8.9270.0000.0000.0000.000
42A43GLU-1-0.805-0.89325.81210.96510.9650.0000.0000.0000.000
43A44ILE0-0.016-0.01025.1780.3950.3950.0000.0000.0000.000
44A45LEU0-0.035-0.01926.6690.1680.1680.0000.0000.0000.000
45A46GLU-1-0.808-0.86027.28010.66410.6640.0000.0000.0000.000
46A47ALA0-0.001-0.00422.9300.1540.1540.0000.0000.0000.000
47A48ASN0-0.031-0.03824.680-0.222-0.2220.0000.0000.0000.000
48A49ARG10.7900.85926.407-10.553-10.5530.0000.0000.0000.000
49A50ILE0-0.0150.00123.467-0.061-0.0610.0000.0000.0000.000
50A51ASP-1-0.730-0.82521.98614.51414.5140.0000.0000.0000.000
51A52VAL0-0.041-0.02524.714-0.099-0.0990.0000.0000.0000.000
52A53GLU-1-0.856-0.93028.3509.7969.7960.0000.0000.0000.000
53A54LYS10.9811.00020.749-14.300-14.3000.0000.0000.0000.000
54A55ALA0-0.047-0.03126.4910.0140.0140.0000.0000.0000.000
55A56ARG10.8180.87327.520-9.761-9.7610.0000.0000.0000.000
56A57GLU-1-0.921-0.95127.80510.88110.8810.0000.0000.0000.000
57A58ARG10.7330.84623.352-13.197-13.1970.0000.0000.0000.000
58A59GLY0-0.0020.00729.127-0.013-0.0130.0000.0000.0000.000
59A60VAL0-0.039-0.00927.246-0.088-0.0880.0000.0000.0000.000
60A61LYS10.9560.97230.651-9.637-9.6370.0000.0000.0000.000
61A62GLU-1-0.686-0.84432.5809.6629.6620.0000.0000.0000.000
62A63SER00.0350.02633.4460.0210.0210.0000.0000.0000.000
63A64LEU0-0.112-0.06128.9140.1210.1210.0000.0000.0000.000
64A65VAL00.0500.03629.0460.3990.3990.0000.0000.0000.000
65A66ASP-1-0.817-0.89829.9329.7989.7980.0000.0000.0000.000
66A67ARG10.8540.93427.916-10.813-10.8130.0000.0000.0000.000
67A68LEU00.0060.01723.9540.3020.3020.0000.0000.0000.000
68A69ALA0-0.0020.01227.0480.2170.2170.0000.0000.0000.000
69A70LEU0-0.013-0.00625.901-0.041-0.0410.0000.0000.0000.000
70A71ASN00.026-0.00530.287-0.306-0.3060.0000.0000.0000.000
71A72ASP-1-0.784-0.90432.8879.2829.2820.0000.0000.0000.000
72A73LYS10.8860.94434.836-8.150-8.1500.0000.0000.0000.000
73A74ARG10.7930.88531.044-9.887-9.8870.0000.0000.0000.000
74A75ILE00.0120.01029.4020.2530.2530.0000.0000.0000.000
75A76ASP-1-0.772-0.88631.4188.8318.8310.0000.0000.0000.000
76A77GLU-1-0.955-0.97232.3829.4769.4760.0000.0000.0000.000
77A78MET0-0.021-0.01026.9780.2400.2400.0000.0000.0000.000
78A79ILE00.0320.03029.9800.1480.1480.0000.0000.0000.000
79A80LYS10.9860.99332.162-8.733-8.7330.0000.0000.0000.000
80A81ALA0-0.0180.00229.822-0.123-0.1230.0000.0000.0000.000
81A82CYS0-0.006-0.01228.9300.1670.1670.0000.0000.0000.000
82A83GLU-1-0.908-0.94930.7618.7018.7010.0000.0000.0000.000
83A84THR0-0.069-0.04633.403-0.274-0.2740.0000.0000.0000.000
84A85VAL00.0290.01128.448-0.152-0.1520.0000.0000.0000.000
85A86ILE0-0.040-0.00631.692-0.066-0.0660.0000.0000.0000.000
86A87GLY0-0.008-0.00833.329-0.145-0.1450.0000.0000.0000.000
87A88LEU0-0.0100.01932.191-0.207-0.2070.0000.0000.0000.000
88A89LYS10.8250.89534.754-8.796-8.7960.0000.0000.0000.000
89A90ASP-1-0.716-0.83630.68510.73910.7390.0000.0000.0000.000
90A91PRO0-0.0170.01129.809-0.311-0.3110.0000.0000.0000.000
91A92VAL00.023-0.00127.898-0.113-0.1130.0000.0000.0000.000
92A93GLY00.0010.00031.007-0.233-0.2330.0000.0000.0000.000
93A94GLU-1-0.841-0.88033.7138.6908.6900.0000.0000.0000.000
94A95VAL0-0.007-0.00835.5460.1960.1960.0000.0000.0000.000
95A96ILE0-0.071-0.02933.790-0.085-0.0850.0000.0000.0000.000
96A97ASP-1-0.751-0.84738.2417.9487.9480.0000.0000.0000.000
97A98SER0-0.033-0.05240.3170.1410.1410.0000.0000.0000.000
98A99TRP0-0.037-0.00940.755-0.120-0.1200.0000.0000.0000.000
99A100VAL0-0.014-0.00845.3270.1410.1410.0000.0000.0000.000
100A101ARG10.7900.88945.225-6.963-6.9630.0000.0000.0000.000
101A102GLU-1-0.864-0.94848.8246.3256.3250.0000.0000.0000.000
102A103ASP-1-0.739-0.84448.9296.6596.6590.0000.0000.0000.000
103A104GLY00.0050.00050.4320.0040.0040.0000.0000.0000.000
104A105LEU0-0.053-0.00443.3250.1250.1250.0000.0000.0000.000
105A106ARG10.9630.97243.051-7.149-7.1490.0000.0000.0000.000
106A107ILE0-0.0090.00239.9090.2340.2340.0000.0000.0000.000
107A108ALA00.0220.02838.879-0.167-0.1670.0000.0000.0000.000
108A109ARG10.8040.89335.793-8.284-8.2840.0000.0000.0000.000
109A110VAL0-0.012-0.01433.584-0.171-0.1710.0000.0000.0000.000
110A111ARG10.9190.95631.048-9.160-9.1600.0000.0000.0000.000
111A112VAL0-0.052-0.02527.031-0.187-0.1870.0000.0000.0000.000
112A113PRO00.0460.02523.495-0.057-0.0570.0000.0000.0000.000
113A114ILE0-0.0110.00320.944-0.025-0.0250.0000.0000.0000.000
114A115GLY00.000-0.00319.2510.2660.2660.0000.0000.0000.000
115A116PRO0-0.025-0.00314.503-0.303-0.3030.0000.0000.0000.000
116A117ILE00.006-0.00116.3230.1640.1640.0000.0000.0000.000
117A118GLY00.0280.01413.6140.8590.8590.0000.0000.0000.000
118A119ILE0-0.023-0.01314.293-1.297-1.2970.0000.0000.0000.000
119A120ILE0-0.0070.00013.0721.0761.0760.0000.0000.0000.000
120A121TYR00.0340.02315.770-1.031-1.0310.0000.0000.0000.000
121A122GLU-1-0.885-0.96017.59617.00517.0050.0000.0000.0000.000
122A123SER0-0.013-0.01219.8860.3950.3950.0000.0000.0000.000
123A124ARG10.9640.99222.443-11.596-11.5960.0000.0000.0000.000
124A125PRO00.0690.03422.4120.3760.3760.0000.0000.0000.000
125A126ASN0-0.033-0.03523.2600.3900.3900.0000.0000.0000.000
126A127VAL00.0270.01721.129-0.009-0.0090.0000.0000.0000.000
127A128THR0-0.025-0.00118.8300.1380.1380.0000.0000.0000.000
128A129VAL00.0470.02721.0130.3420.3420.0000.0000.0000.000
129A130GLU-1-0.847-0.90523.77011.80111.8010.0000.0000.0000.000
130A131THR0-0.022-0.03120.5370.1390.1390.0000.0000.0000.000
131A132THR00.0230.00120.0280.3080.3080.0000.0000.0000.000
132A133ILE0-0.019-0.01021.437-0.085-0.0850.0000.0000.0000.000
133A134LEU00.0180.01024.732-0.364-0.3640.0000.0000.0000.000
134A135ALA00.0100.02320.471-0.267-0.2670.0000.0000.0000.000
135A136LEU00.0320.01620.634-0.209-0.2090.0000.0000.0000.000
136A137LYS10.8010.90423.508-10.287-10.2870.0000.0000.0000.000
137A138SER0-0.039-0.03325.028-0.260-0.2600.0000.0000.0000.000
138A139GLY00.002-0.00624.551-0.051-0.0510.0000.0000.0000.000
139A140ASN0-0.044-0.03420.1860.5060.5060.0000.0000.0000.000
140A141THR00.024-0.00316.046-0.256-0.2560.0000.0000.0000.000
141A142ILE0-0.029-0.00915.961-0.059-0.0590.0000.0000.0000.000
142A143LEU00.0050.0088.2290.5970.5970.0000.0000.0000.000
143A144LEU0-0.010-0.00212.738-0.435-0.4350.0000.0000.0000.000
144A145ARG10.9350.96110.813-20.884-20.8840.0000.0000.0000.000
145A146GLY00.0160.01613.022-1.146-1.1460.0000.0000.0000.000
146A147GLY0-0.011-0.02415.2901.0051.0050.0000.0000.0000.000
147A148SER00.015-0.00416.6600.0830.0830.0000.0000.0000.000
148A149ASP-1-0.901-0.93317.62113.70413.7040.0000.0000.0000.000
149A150ALA00.0250.02620.232-0.510-0.5100.0000.0000.0000.000
150A151LEU00.0090.01714.1990.1050.1050.0000.0000.0000.000
151A152ASN0-0.063-0.04918.0700.7130.7130.0000.0000.0000.000
152A153SER00.012-0.02220.181-0.384-0.3840.0000.0000.0000.000
153A154ASN0-0.014-0.02217.854-0.824-0.8240.0000.0000.0000.000
154A155LYS10.8820.93713.884-20.458-20.4580.0000.0000.0000.000
155A156ALA00.0340.02818.154-0.039-0.0390.0000.0000.0000.000
156A157ILE00.0030.00121.563-0.354-0.3540.0000.0000.0000.000
157A158VAL0-0.007-0.01815.846-0.234-0.2340.0000.0000.0000.000
158A159SER0-0.015-0.00619.2520.1630.1630.0000.0000.0000.000
159A160ALA00.0140.00920.185-0.278-0.2780.0000.0000.0000.000
160A161ILE0-0.004-0.00920.645-0.340-0.3400.0000.0000.0000.000
161A162ARG10.7790.85513.983-19.985-19.9850.0000.0000.0000.000
162A163GLU-1-0.817-0.88020.69911.92711.9270.0000.0000.0000.000
163A164ALA0-0.0030.01223.411-0.422-0.4220.0000.0000.0000.000
164A165LEU0-0.038-0.01920.210-0.288-0.2880.0000.0000.0000.000
165A166LYS10.8750.93420.086-14.562-14.5620.0000.0000.0000.000
166A167GLU-1-0.865-0.91623.58410.27210.2720.0000.0000.0000.000
167A168THR0-0.127-0.08325.585-0.512-0.5120.0000.0000.0000.000
168A169GLU-1-0.959-0.98025.86310.70410.7040.0000.0000.0000.000
169A170ILE0-0.063-0.02222.0530.3230.3230.0000.0000.0000.000
170A171PRO00.0380.01718.9980.1190.1190.0000.0000.0000.000
171A172GLU-1-0.743-0.85217.45216.73116.7310.0000.0000.0000.000
172A173SER00.0210.00714.410-0.101-0.1010.0000.0000.0000.000
173A174SER0-0.047-0.05114.9781.0081.0080.0000.0000.0000.000
174A175VAL00.0010.00216.146-0.004-0.0040.0000.0000.0000.000
175A176GLU-1-0.836-0.89510.81225.10125.1010.0000.0000.0000.000
176A177PHE0-0.001-0.00612.060-0.397-0.3970.0000.0000.0000.000
177A178ILE0-0.037-0.0126.5861.4831.4830.0000.0000.0000.000
178A179GLU-1-0.873-0.9399.71721.66321.6630.0000.0000.0000.000
179A180ASN0-0.027-0.0046.277-6.059-6.0590.0000.0000.0000.000
180A181THR00.028-0.0029.503-0.079-0.0790.0000.0000.0000.000
181A182ASP-1-0.835-0.87110.03525.45825.4580.0000.0000.0000.000
182A183ARG10.9620.97510.788-16.524-16.5240.0000.0000.0000.000
183A184SER0-0.053-0.05510.1780.8820.8820.0000.0000.0000.000
184A185LEU00.0470.0105.6772.1032.1030.0000.0000.0000.000
185A186VAL0-0.0130.0008.2680.9650.9650.0000.0000.0000.000
186A187LEU0-0.029-0.01011.100-0.735-0.7350.0000.0000.0000.000
187A188GLU-1-0.885-0.9446.13037.56737.5670.0000.0000.0000.000
188A189MET0-0.036-0.0078.213-0.001-0.0010.0000.0000.0000.000
189A190ILE0-0.049-0.0208.960-1.784-1.7840.0000.0000.0000.000
190A191ARG10.9420.98010.504-26.331-26.3310.0000.0000.0000.000
191A192LEU0-0.0050.0126.197-0.066-0.0660.0000.0000.0000.000
192A193ARG10.9570.96910.483-19.802-19.8020.0000.0000.0000.000
193A194GLU-1-0.950-0.96511.33824.77124.7710.0000.0000.0000.000
194A195TYR0-0.064-0.0477.9420.7300.7300.0000.0000.0000.000
195A196LEU0-0.004-0.00210.643-1.192-1.1920.0000.0000.0000.000
196A197SER00.002-0.00513.774-0.145-0.1450.0000.0000.0000.000
197A198LEU0-0.059-0.03116.644-1.053-1.0530.0000.0000.0000.000
198A199VAL0-0.0110.00413.7751.1731.1730.0000.0000.0000.000
199A200ILE00.006-0.01316.907-1.138-1.1380.0000.0000.0000.000
200A201PRO0-0.0160.01418.3920.4830.4830.0000.0000.0000.000
201A202ARG10.8690.92019.353-13.723-13.7230.0000.0000.0000.000
202A203GLY00.0300.00520.9810.5590.5590.0000.0000.0000.000
203A204GLY00.0190.00523.434-0.418-0.4180.0000.0000.0000.000
204A205TYR00.053-0.02423.6440.7700.7700.0000.0000.0000.000
205A206GLY00.0040.03323.7050.2110.2110.0000.0000.0000.000
206A207LEU0-0.054-0.02916.7300.5600.5600.0000.0000.0000.000
207A208ILE00.0050.01019.4960.8390.8390.0000.0000.0000.000
208A209SER00.029-0.00721.5440.3690.3690.0000.0000.0000.000
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