Manual

About

FMODB

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

Last updated: 2024-04-05

All entries: 36946

Number of unique PDB entries: 7781

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FMODB ID: 8976Y

Calculation Name: 1OU0-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1OU0

Chain ID: A

ChEMBL ID:

UniProt ID: Q9HKE7

Base Structure: X-ray

Registration Date: 2023-09-23

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 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 190
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2037758.948767
FMO2-HF: Nuclear repulsion 1964404.283694
FMO2-HF: Total energy -73354.665073
FMO2-MP2: Total energy -73564.179465


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:17:SER)


Summations of interaction energy for fragment #1(A:17:SER)
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.
-3.2540.4730.114-1.436-2.4040.001
Interaction energy analysis for fragmet #1(A:17:SER)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.019 / q_NPA : 0.001
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].
3A19ALA00.0390.0213.347-2.507-0.6330.006-0.870-1.0090.001
4A20ALA00.0010.0143.030-0.4110.3640.095-0.255-0.615-0.001
5A21ILE0-0.0010.0053.689-0.0380.6900.014-0.252-0.4900.001
6A22ASP-1-0.856-0.9276.1860.2280.2280.0000.0000.0000.000
7A23SER0-0.075-0.0477.639-0.030-0.0300.0000.0000.0000.000
8A24MET0-0.029-0.0078.598-0.005-0.0050.0000.0000.0000.000
9A25ILE0-0.038-0.01510.4200.0360.0360.0000.0000.0000.000
10A26ASP-1-0.829-0.91112.8850.0650.0650.0000.0000.0000.000
11A27PRO00.007-0.00716.2640.0170.0170.0000.0000.0000.000
12A28ASP-1-0.864-0.92117.5090.0820.0820.0000.0000.0000.000
13A29ILE0-0.084-0.01916.6190.0050.0050.0000.0000.0000.000
14A30SER00.0190.00917.1350.0300.0300.0000.0000.0000.000
15A31GLY00.0120.00519.333-0.007-0.0070.0000.0000.0000.000
16A32PRO0-0.029-0.03518.6840.0200.0200.0000.0000.0000.000
17A33MET00.0270.02218.0670.0160.0160.0000.0000.0000.000
18A34ARG10.8120.89612.242-0.184-0.1840.0000.0000.0000.000
19A35HIS0-0.072-0.03612.7600.0640.0640.0000.0000.0000.000
20A36ILE0-0.031-0.01513.2370.0230.0230.0000.0000.0000.000
21A37VAL00.0470.02712.6440.0040.0040.0000.0000.0000.000
22A38VAL00.0260.0138.6480.0330.0330.0000.0000.0000.000
23A39LYS10.8380.9258.670-0.066-0.0660.0000.0000.0000.000
24A40ALA00.0340.02210.201-0.049-0.0490.0000.0000.0000.000
25A41ILE00.0210.0087.104-0.044-0.0440.0000.0000.0000.000
26A42HIS0-0.011-0.0133.9210.4030.568-0.001-0.030-0.1340.000
27A43ALA0-0.060-0.0356.637-0.310-0.3100.0000.0000.0000.000
28A44ALA0-0.031-0.0119.669-0.069-0.0690.0000.0000.0000.000
29A45GLY0-0.036-0.0036.564-0.058-0.0580.0000.0000.0000.000
30A46ASP-1-0.789-0.8817.5880.2060.2060.0000.0000.0000.000
31A47PHE00.0360.0043.848-0.245-0.0600.000-0.029-0.1560.000
32A48ALA0-0.0010.0069.513-0.064-0.0640.0000.0000.0000.000
33A49ILE0-0.012-0.01212.037-0.035-0.0350.0000.0000.0000.000
34A50ALA00.0150.01511.457-0.013-0.0130.0000.0000.0000.000
35A51PRO00.0080.00913.506-0.016-0.0160.0000.0000.0000.000
36A52LEU0-0.026-0.00916.563-0.018-0.0180.0000.0000.0000.000
37A53ILE0-0.0180.00113.692-0.011-0.0110.0000.0000.0000.000
38A54ARG10.7850.87518.026-0.075-0.0750.0000.0000.0000.000
39A55TYR00.017-0.01518.8410.0080.0080.0000.0000.0000.000
40A56SER00.0430.01123.2680.0000.0000.0000.0000.0000.000
41A57ASP-1-0.896-0.95325.9580.0660.0660.0000.0000.0000.000
42A58GLY0-0.0060.00927.5150.0040.0040.0000.0000.0000.000
43A59PHE00.0180.00521.1280.0030.0030.0000.0000.0000.000
44A60PHE00.017-0.01221.6130.0010.0010.0000.0000.0000.000
45A61LYS10.9680.97824.806-0.056-0.0560.0000.0000.0000.000
46A62SER00.0250.01728.411-0.002-0.0020.0000.0000.0000.000
47A63MET00.0160.00822.562-0.006-0.0060.0000.0000.0000.000
48A64LEU0-0.062-0.03324.433-0.001-0.0010.0000.0000.0000.000
49A65ALA0-0.0090.00526.935-0.001-0.0010.0000.0000.0000.000
50A66LYS10.8360.91528.987-0.038-0.0380.0000.0000.0000.000
51A67LEU0-0.024-0.01623.805-0.002-0.0020.0000.0000.0000.000
52A68LYS10.8380.92826.952-0.082-0.0820.0000.0000.0000.000
53A69GLU-1-0.940-0.97229.8890.0440.0440.0000.0000.0000.000
54A70GLY0-0.0110.01831.339-0.003-0.0030.0000.0000.0000.000
55A71CYS0-0.095-0.04029.495-0.002-0.0020.0000.0000.0000.000
56A72THR0-0.028-0.02430.928-0.001-0.0010.0000.0000.0000.000
57A73ILE00.013-0.00624.5540.0010.0010.0000.0000.0000.000
58A74ILE00.0300.01827.945-0.004-0.0040.0000.0000.0000.000
59A75CYS0-0.040-0.00525.2700.0030.0030.0000.0000.0000.000
60A76ASP-1-0.711-0.85624.9090.0010.0010.0000.0000.0000.000
61A77SER0-0.055-0.05824.357-0.005-0.0050.0000.0000.0000.000
62A78GLU-1-0.736-0.87725.383-0.006-0.0060.0000.0000.0000.000
63A79MET0-0.025-0.00720.1220.0000.0000.0000.0000.0000.000
64A80VAL0-0.0130.00420.631-0.003-0.0030.0000.0000.0000.000
65A81ARG10.8530.91421.3010.0030.0030.0000.0000.0000.000
66A82ALA0-0.004-0.00822.1230.0040.0040.0000.0000.0000.000
67A83GLY00.0150.02318.270-0.007-0.0070.0000.0000.0000.000
68A84ILE0-0.049-0.02117.8200.0090.0090.0000.0000.0000.000
69A85TYR00.0660.02213.3840.0150.0150.0000.0000.0000.000
70A86SER0-0.030-0.01218.5730.0050.0050.0000.0000.0000.000
71A87ARG10.9370.95820.106-0.073-0.0730.0000.0000.0000.000
72A88PRO0-0.033-0.02221.392-0.005-0.0050.0000.0000.0000.000
73A89VAL00.0370.01521.443-0.001-0.0010.0000.0000.0000.000
74A90LEU00.0130.00523.271-0.004-0.0040.0000.0000.0000.000
75A91GLU-1-0.785-0.86226.2170.0570.0570.0000.0000.0000.000
76A92ARG10.8310.91826.265-0.066-0.0660.0000.0000.0000.000
77A93ASN0-0.029-0.00527.014-0.004-0.0040.0000.0000.0000.000
78A94ARG10.8610.92828.762-0.033-0.0330.0000.0000.0000.000
79A95VAL00.0240.02424.5640.0010.0010.0000.0000.0000.000
80A96VAL00.0030.01227.761-0.004-0.0040.0000.0000.0000.000
81A97CYS0-0.051-0.01828.2550.0000.0000.0000.0000.0000.000
82A98TYR00.0570.00830.296-0.002-0.0020.0000.0000.0000.000
83A99LEU0-0.044-0.01429.145-0.001-0.0010.0000.0000.0000.000
84A100ASN0-0.059-0.05030.649-0.002-0.0020.0000.0000.0000.000
85A101ASP-1-0.808-0.87134.6360.0010.0010.0000.0000.0000.000
86A102VAL00.0300.00237.5990.0000.0000.0000.0000.0000.000
87A103ARG10.8410.88338.984-0.005-0.0050.0000.0000.0000.000
88A104SER00.006-0.01936.3210.0010.0010.0000.0000.0000.000
89A105LYS10.8780.94038.9140.0070.0070.0000.0000.0000.000
90A106GLU-1-0.917-0.95740.469-0.001-0.0010.0000.0000.0000.000
91A107MET00.0040.01840.8280.0000.0000.0000.0000.0000.000
92A108ALA0-0.021-0.02338.4660.0000.0000.0000.0000.0000.000
93A109ASP-1-0.825-0.91540.434-0.006-0.0060.0000.0000.0000.000
94A110VAL0-0.029-0.00843.2140.0000.0000.0000.0000.0000.000
95A111ASN0-0.050-0.03042.2650.0010.0010.0000.0000.0000.000
96A112GLY00.0130.03042.8040.0000.0000.0000.0000.0000.000
97A113ILE0-0.041-0.00937.9750.0000.0000.0000.0000.0000.000
98A114THR00.015-0.00532.8230.0000.0000.0000.0000.0000.000
99A115ARG10.8870.93234.0770.0090.0090.0000.0000.0000.000
100A116SER00.0370.00830.0420.0000.0000.0000.0000.0000.000
101A117ALA0-0.0160.01132.2480.0020.0020.0000.0000.0000.000
102A118ALA00.0390.02334.4500.0020.0020.0000.0000.0000.000
103A119GLY00.0240.01733.6780.0010.0010.0000.0000.0000.000
104A120ILE0-0.040-0.02329.4050.0010.0010.0000.0000.0000.000
105A121ARG10.8240.88133.518-0.006-0.0060.0000.0000.0000.000
106A122ILE00.0260.00437.1800.0010.0010.0000.0000.0000.000
107A123ALA00.0100.00833.2880.0010.0010.0000.0000.0000.000
108A124MET0-0.051-0.03533.9610.0010.0010.0000.0000.0000.000
109A125GLN0-0.038-0.01236.2100.0000.0000.0000.0000.0000.000
110A126ASP-1-0.811-0.86837.6920.0090.0090.0000.0000.0000.000
111A127HIS0-0.041-0.00535.010-0.001-0.0010.0000.0000.0000.000
112A128ARG10.8800.92435.767-0.023-0.0230.0000.0000.0000.000
113A129ASN00.0200.01934.5700.0020.0020.0000.0000.0000.000
114A130SER0-0.007-0.01631.7930.0010.0010.0000.0000.0000.000
115A131VAL00.0500.02225.9680.0020.0020.0000.0000.0000.000
116A132ILE00.0050.00727.934-0.003-0.0030.0000.0000.0000.000
117A133VAL0-0.012-0.00821.9480.0060.0060.0000.0000.0000.000
118A134ILE0-0.008-0.00624.085-0.007-0.0070.0000.0000.0000.000
119A135GLY00.0330.00420.9630.0070.0070.0000.0000.0000.000
120A136ASN0-0.055-0.03021.077-0.010-0.0100.0000.0000.0000.000
121A137ALA00.0370.02523.7740.0010.0010.0000.0000.0000.000
122A138PRO00.0260.00126.6870.0030.0030.0000.0000.0000.000
123A139THR0-0.015-0.02128.4980.0020.0020.0000.0000.0000.000
124A140ALA00.0020.01128.7310.0010.0010.0000.0000.0000.000
125A141LEU00.0150.01426.1480.0020.0020.0000.0000.0000.000
126A142LEU00.0130.00429.4350.0010.0010.0000.0000.0000.000
127A143GLU-1-0.724-0.79832.8250.0100.0100.0000.0000.0000.000
128A144ALA00.0110.00030.7920.0010.0010.0000.0000.0000.000
129A145MET0-0.036-0.00731.1710.0010.0010.0000.0000.0000.000
130A146ARG10.8130.86933.664-0.011-0.0110.0000.0000.0000.000
131A147MET0-0.022-0.01535.874-0.001-0.0010.0000.0000.0000.000
132A148ILE0-0.0260.00732.2880.0000.0000.0000.0000.0000.000
133A149GLU-1-0.830-0.91436.1380.0230.0230.0000.0000.0000.000
134A150GLU-1-0.917-0.94438.7230.0110.0110.0000.0000.0000.000
135A151ASN0-0.101-0.05640.242-0.002-0.0020.0000.0000.0000.000
136A152GLY00.0230.02140.5230.0000.0000.0000.0000.0000.000
137A153TRP0-0.048-0.02437.2770.0010.0010.0000.0000.0000.000
138A154TYR0-0.007-0.05434.9500.0010.0010.0000.0000.0000.000
139A155ASP-1-0.809-0.85834.1950.0330.0330.0000.0000.0000.000
140A156ILE0-0.063-0.02531.1260.0030.0030.0000.0000.0000.000
141A157PRO0-0.0050.01026.9850.0000.0000.0000.0000.0000.000
142A158ILE00.006-0.02026.064-0.003-0.0030.0000.0000.0000.000
143A159VAL0-0.033-0.01320.3760.0060.0060.0000.0000.0000.000
144A160GLY00.0690.03323.141-0.008-0.0080.0000.0000.0000.000
145A161ILE0-0.0250.00017.5880.0030.0030.0000.0000.0000.000
146A162PRO0-0.009-0.00420.609-0.006-0.0060.0000.0000.0000.000
147A163VAL00.0150.00420.0400.0040.0040.0000.0000.0000.000
148A164GLY0-0.012-0.00822.566-0.002-0.0020.0000.0000.0000.000
149A165PHE00.023-0.00224.1380.0010.0010.0000.0000.0000.000
150A166ILE00.0390.02426.6620.0040.0040.0000.0000.0000.000
151A167ASN00.0380.01428.5010.0030.0030.0000.0000.0000.000
152A168ALA00.0240.00724.5130.0020.0020.0000.0000.0000.000
153A169SER0-0.008-0.00125.7670.0050.0050.0000.0000.0000.000
154A170LYS11.0000.99726.699-0.005-0.0050.0000.0000.0000.000
155A171ALA0-0.023-0.00728.1910.0010.0010.0000.0000.0000.000
156A172LYS10.8190.92121.239-0.032-0.0320.0000.0000.0000.000
157A173GLU-1-0.937-0.95626.6890.0210.0210.0000.0000.0000.000
158A174GLY00.0360.02028.7450.0010.0010.0000.0000.0000.000
159A175LEU0-0.001-0.02326.0580.0010.0010.0000.0000.0000.000
160A176VAL0-0.044-0.01025.4470.0020.0020.0000.0000.0000.000
161A177SER0-0.047-0.01928.2650.0010.0010.0000.0000.0000.000
162A178SER0-0.054-0.02731.164-0.002-0.0020.0000.0000.0000.000
163A179HIS00.007-0.00132.5790.0040.0040.0000.0000.0000.000
164A180ILE0-0.021-0.00330.2240.0010.0010.0000.0000.0000.000
165A181GLU-1-0.831-0.88528.7400.0570.0570.0000.0000.0000.000
166A182TYR00.006-0.01124.1710.0010.0010.0000.0000.0000.000
167A183ILE00.011-0.00318.0220.0080.0080.0000.0000.0000.000
168A184SER0-0.034-0.03721.294-0.010-0.0100.0000.0000.0000.000
169A185VAL0-0.017-0.01616.7640.0140.0140.0000.0000.0000.000
170A186GLU-1-0.799-0.88219.7780.0350.0350.0000.0000.0000.000
171A187GLY00.0090.01420.7580.0020.0020.0000.0000.0000.000
172A188HIS00.022-0.01121.7290.0030.0030.0000.0000.0000.000
173A189ARG10.8310.90213.005-0.058-0.0580.0000.0000.0000.000
174A190GLY00.0510.01317.8730.0100.0100.0000.0000.0000.000
175A191GLY00.0160.00617.183-0.011-0.0110.0000.0000.0000.000
176A192SER00.009-0.00417.4930.0080.0080.0000.0000.0000.000
177A193PRO00.0090.01013.2470.0110.0110.0000.0000.0000.000
178A194ILE00.0160.03213.0200.0140.0140.0000.0000.0000.000
179A195ALA00.0600.03114.7100.0190.0190.0000.0000.0000.000
180A196ALA00.0410.01916.8180.0090.0090.0000.0000.0000.000
181A197SER0-0.127-0.06912.4910.0230.0230.0000.0000.0000.000
182A198ILE00.0730.02914.5770.0240.0240.0000.0000.0000.000
183A199VAL00.0440.02916.8810.0090.0090.0000.0000.0000.000
184A200ASN0-0.021-0.04015.9460.0060.0060.0000.0000.0000.000
185A201GLY0-0.047-0.01816.0550.0140.0140.0000.0000.0000.000
186A202PHE00.0520.01016.6810.0140.0140.0000.0000.0000.000
187A203GLY00.0070.00820.073-0.001-0.0010.0000.0000.0000.000
188A204ARG10.8940.95712.836-0.311-0.3110.0000.0000.0000.000
189A205PHE00.0200.00617.9850.0050.0050.0000.0000.0000.000
190A206LEU0-0.0210.01022.734-0.012-0.0120.0000.0000.0000.000