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: QNV7Y

Calculation Name: 1ET9-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1ET9

Chain ID: A

ChEMBL ID:

UniProt ID: P0C0I6

Base Structure: X-ray

Registration Date: 2023-09-27

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 197
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2365750.926834
FMO2-HF: Nuclear repulsion 2286165.042653
FMO2-HF: Total energy -79585.884181
FMO2-MP2: Total energy -79821.544818


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:1:ASN)


Summations of interaction energy for fragment #1(A:1: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.
-17.434-14.7510.063-4.423-8.3240.058
Interaction energy analysis for fragmet #1(A:1:ASN)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.078 / q_NPA : 0.038
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].
3A3TYR00.0250.0091.993-10.660-8.4889.949-5.194-6.9280.055
4A4ASN0-0.0020.0153.171-3.541-3.1280.1140.790-1.3160.003
5A5THR00.0790.0224.534-1.508-1.4090.000-0.019-0.0800.000
6A6THR00.0500.0347.892-0.491-0.4910.0000.0000.0000.000
7A7ASN00.0150.0075.418-0.166-0.1660.0000.0000.0000.000
8A8ARG10.7700.8835.919-2.398-2.3980.0000.0000.0000.000
9A9HIS00.0050.0069.570-0.212-0.2120.0000.0000.0000.000
10A10ASN0-0.0050.00112.127-0.147-0.1470.0000.0000.0000.000
11A11LEU00.0050.00410.939-0.096-0.0960.0000.0000.0000.000
12A12GLU-1-0.807-0.90113.4610.3890.3890.0000.0000.0000.000
13A13SER0-0.023-0.02415.394-0.098-0.0980.0000.0000.0000.000
14A14LEU0-0.037-0.01016.270-0.052-0.0520.0000.0000.0000.000
15A15TYR00.003-0.03116.349-0.035-0.0350.0000.0000.0000.000
16A16LYS10.7620.88318.141-0.427-0.4270.0000.0000.0000.000
17A17HIS0-0.023-0.01020.194-0.050-0.0500.0000.0000.0000.000
18A18ASP-1-0.819-0.91023.6090.1680.1680.0000.0000.0000.000
19A19SER0-0.0230.00025.178-0.008-0.0080.0000.0000.0000.000
20A20ASN0-0.043-0.02221.440-0.012-0.0120.0000.0000.0000.000
21A21LEU0-0.044-0.01624.573-0.001-0.0010.0000.0000.0000.000
22A22ILE0-0.046-0.01226.480-0.007-0.0070.0000.0000.0000.000
23A23GLU-1-0.875-0.95329.4760.0970.0970.0000.0000.0000.000
24A24ALA0-0.076-0.03432.062-0.002-0.0020.0000.0000.0000.000
25A25ASP-1-0.819-0.91535.4470.0680.0680.0000.0000.0000.000
26A26SER0-0.055-0.04138.256-0.001-0.0010.0000.0000.0000.000
27A27ILE0-0.0400.00136.5530.0000.0000.0000.0000.0000.000
28A28LYS10.9780.99439.642-0.054-0.0540.0000.0000.0000.000
29A29ASN0-0.055-0.01638.0860.0020.0020.0000.0000.0000.000
30A30SER00.0100.00039.022-0.004-0.0040.0000.0000.0000.000
31A31PRO0-0.0120.01440.6890.0000.0000.0000.0000.0000.000
32A32ASP-1-0.885-0.96339.0370.0740.0740.0000.0000.0000.000
33A33ILE0-0.007-0.00740.175-0.002-0.0020.0000.0000.0000.000
34A34VAL0-0.045-0.02535.7880.0050.0050.0000.0000.0000.000
35A35THR00.0370.00532.457-0.004-0.0040.0000.0000.0000.000
36A36SER0-0.003-0.01634.147-0.001-0.0010.0000.0000.0000.000
37A37HIS00.0220.01929.567-0.003-0.0030.0000.0000.0000.000
38A38MET0-0.029-0.00830.5310.0060.0060.0000.0000.0000.000
39A39LEU0-0.0160.00032.511-0.007-0.0070.0000.0000.0000.000
40A40LYS10.9360.98533.193-0.079-0.0790.0000.0000.0000.000
41A41TYR00.0400.01133.846-0.005-0.0050.0000.0000.0000.000
42A42SER00.0300.01735.4430.0060.0060.0000.0000.0000.000
43A43VAL00.0270.01333.598-0.005-0.0050.0000.0000.0000.000
44A44LYS10.8790.95733.690-0.096-0.0960.0000.0000.0000.000
45A45ASP-1-0.845-0.94033.7850.1200.1200.0000.0000.0000.000
46A46LYS10.8100.91029.299-0.147-0.1470.0000.0000.0000.000
47A47ASN00.000-0.00933.079-0.008-0.0080.0000.0000.0000.000
48A48LEU0-0.027-0.01428.5190.0080.0080.0000.0000.0000.000
49A49SER0-0.010-0.02128.898-0.013-0.0130.0000.0000.0000.000
50A50VAL0-0.0020.00328.4420.0080.0080.0000.0000.0000.000
51A51PHE00.0160.00026.189-0.010-0.0100.0000.0000.0000.000
52A52PHE0-0.009-0.02527.3390.0010.0010.0000.0000.0000.000
53A53GLU-1-0.831-0.90824.7720.0550.0550.0000.0000.0000.000
54A54LYS10.7840.86927.399-0.049-0.0490.0000.0000.0000.000
55A55ASP-1-0.888-0.94530.8130.0510.0510.0000.0000.0000.000
56A56TRP00.0300.00532.4290.0010.0010.0000.0000.0000.000
57A57ILE0-0.053-0.01729.947-0.001-0.0010.0000.0000.0000.000
58A58SER00.0320.02034.0810.0000.0000.0000.0000.0000.000
59A59GLN0-0.007-0.02135.611-0.001-0.0010.0000.0000.0000.000
60A60GLU-1-0.823-0.85736.1250.0440.0440.0000.0000.0000.000
61A61PHE00.0390.00233.288-0.002-0.0020.0000.0000.0000.000
62A62LYS10.9230.97938.033-0.057-0.0570.0000.0000.0000.000
63A63ASP-1-0.907-0.95240.6000.0500.0500.0000.0000.0000.000
64A64LYS10.8250.90641.303-0.045-0.0450.0000.0000.0000.000
65A65GLU-1-0.916-0.94140.9640.0540.0540.0000.0000.0000.000
66A66VAL0-0.034-0.03036.221-0.003-0.0030.0000.0000.0000.000
67A67ASP-1-0.763-0.84935.5420.0620.0620.0000.0000.0000.000
68A68ILE0-0.047-0.03830.7840.0010.0010.0000.0000.0000.000
69A69TYR0-0.018-0.01826.3510.0040.0040.0000.0000.0000.000
70A70ALA0-0.0110.00825.985-0.002-0.0020.0000.0000.0000.000
71A71LEU00.0040.01120.1790.0020.0020.0000.0000.0000.000
72A72SER0-0.069-0.03423.806-0.010-0.0100.0000.0000.0000.000
73A73ALA00.018-0.00120.9080.0200.0200.0000.0000.0000.000
74A74GLN0-0.043-0.02122.811-0.006-0.0060.0000.0000.0000.000
75A75GLU-1-0.885-0.93223.8000.1500.1500.0000.0000.0000.000
76A83ARG10.9280.97330.135-0.118-0.1180.0000.0000.0000.000
77A84TYR00.021-0.00126.1700.0070.0070.0000.0000.0000.000
78A85GLU-1-0.820-0.88222.9650.1660.1660.0000.0000.0000.000
79A86ALA00.000-0.01424.8130.0120.0120.0000.0000.0000.000
80A87PHE00.0090.00522.013-0.009-0.0090.0000.0000.0000.000
81A88GLY00.0320.02425.125-0.001-0.0010.0000.0000.0000.000
82A89GLY00.015-0.00427.7210.0050.0050.0000.0000.0000.000
83A90ILE0-0.028-0.01028.5060.0000.0000.0000.0000.0000.000
84A91THR00.0120.00432.198-0.004-0.0040.0000.0000.0000.000
85A92LEU0-0.026-0.01134.7520.0020.0020.0000.0000.0000.000
86A93THR00.005-0.01238.534-0.001-0.0010.0000.0000.0000.000
87A94ASN0-0.028-0.02440.229-0.004-0.0040.0000.0000.0000.000
88A95SER00.0390.01741.8070.0020.0020.0000.0000.0000.000
89A96GLU-1-0.865-0.91242.5790.0290.0290.0000.0000.0000.000
90A97LYS10.8070.90538.808-0.058-0.0580.0000.0000.0000.000
91A98LYS10.8350.89840.975-0.026-0.0260.0000.0000.0000.000
92A99GLU-1-0.897-0.94736.9330.0470.0470.0000.0000.0000.000
93A100ILE00.0120.01934.593-0.005-0.0050.0000.0000.0000.000
94A101LYS10.8660.91433.572-0.034-0.0340.0000.0000.0000.000
95A102VAL00.0330.03528.603-0.004-0.0040.0000.0000.0000.000
96A103PRO00.013-0.00829.8890.0050.0050.0000.0000.0000.000
97A104VAL0-0.018-0.00323.9220.0000.0000.0000.0000.0000.000
98A105ASN0-0.050-0.03825.1030.0030.0030.0000.0000.0000.000
99A106VAL0-0.035-0.01319.901-0.002-0.0020.0000.0000.0000.000
100A107TRP00.0220.01219.695-0.012-0.0120.0000.0000.0000.000
101A108ASP-1-0.799-0.87517.963-0.007-0.0070.0000.0000.0000.000
102A109LYS10.8600.92212.6380.1110.1110.0000.0000.0000.000
103A110SER0-0.011-0.00317.413-0.012-0.0120.0000.0000.0000.000
104A111LYS10.7980.88619.9550.0610.0610.0000.0000.0000.000
105A112GLN00.0310.03022.2540.0090.0090.0000.0000.0000.000
106A113GLN0-0.034-0.02622.307-0.011-0.0110.0000.0000.0000.000
107A114PRO0-0.001-0.00825.496-0.002-0.0020.0000.0000.0000.000
108A115PRO00.0350.01427.6380.0050.0050.0000.0000.0000.000
109A116MET0-0.052-0.00924.0870.0140.0140.0000.0000.0000.000
110A117PHE00.0230.01028.584-0.004-0.0040.0000.0000.0000.000
111A118ILE0-0.0160.00925.9880.0090.0090.0000.0000.0000.000
112A119THR0-0.009-0.00629.345-0.005-0.0050.0000.0000.0000.000
113A120VAL00.0040.00030.4180.0080.0080.0000.0000.0000.000
114A121ASN00.0140.00333.251-0.003-0.0030.0000.0000.0000.000
115A122LYS10.9370.97932.288-0.077-0.0770.0000.0000.0000.000
116A123PRO00.0520.03835.6420.0000.0000.0000.0000.0000.000
117A124LYS10.9440.97034.518-0.033-0.0330.0000.0000.0000.000
118A125VAL00.0300.03329.3580.0040.0040.0000.0000.0000.000
119A126THR00.0390.00927.580-0.002-0.0020.0000.0000.0000.000
120A127ALA00.0580.02223.8890.0020.0020.0000.0000.0000.000
121A128GLN00.018-0.00122.9010.0160.0160.0000.0000.0000.000
122A129GLU-1-0.771-0.86923.7480.0900.0900.0000.0000.0000.000
123A130VAL00.0070.00924.2640.0050.0050.0000.0000.0000.000
124A131ASP-1-0.730-0.81218.6620.1430.1430.0000.0000.0000.000
125A132ILE0-0.006-0.00321.1740.0160.0160.0000.0000.0000.000
126A133LYS10.8100.89522.393-0.072-0.0720.0000.0000.0000.000
127A134VAL00.0180.01720.3070.0030.0030.0000.0000.0000.000
128A135ARG10.8510.89313.988-0.196-0.1960.0000.0000.0000.000
129A136LYS10.8320.92119.660-0.169-0.1690.0000.0000.0000.000
130A137LEU0-0.034-0.00922.0990.0060.0060.0000.0000.0000.000
131A138LEU00.002-0.00917.221-0.002-0.0020.0000.0000.0000.000
132A139ILE0-0.009-0.00216.6770.0140.0140.0000.0000.0000.000
133A140LYS10.9250.96218.780-0.154-0.1540.0000.0000.0000.000
134A141LYS10.8910.95822.123-0.090-0.0900.0000.0000.0000.000
135A142TYR00.017-0.00217.673-0.023-0.0230.0000.0000.0000.000
136A143ASP-1-0.868-0.90816.5550.4110.4110.0000.0000.0000.000
137A144ILE0-0.009-0.01913.4060.0570.0570.0000.0000.0000.000
138A145TYR0-0.025-0.03311.0950.0840.0840.0000.0000.0000.000
139A146ASN0-0.0100.01411.6950.2290.2290.0000.0000.0000.000
140A147ASN00.056-0.0189.0720.5420.5420.0000.0000.0000.000
141A148ARG10.9080.97711.142-0.312-0.3120.0000.0000.0000.000
142A149GLU-1-0.834-0.92412.5200.2130.2130.0000.0000.0000.000
143A150GLN0-0.088-0.0266.244-0.230-0.2300.0000.0000.0000.000
144A151LYS10.9280.9579.743-0.277-0.2770.0000.0000.0000.000
145A152TYR0-0.057-0.03610.870-0.160-0.1600.0000.0000.0000.000
146A153SER00.025-0.0015.4140.2730.2730.0000.0000.0000.000
147A154LYS10.9671.0046.5940.8970.8970.0000.0000.0000.000
148A155GLY00.0700.0098.9820.0480.0480.0000.0000.0000.000
149A156THR00.0140.02512.339-0.010-0.0100.0000.0000.0000.000
150A157VAL0-0.009-0.00815.1680.0070.0070.0000.0000.0000.000
151A158THR00.0310.00918.5170.0010.0010.0000.0000.0000.000
152A159LEU0-0.048-0.01721.0600.0040.0040.0000.0000.0000.000
153A160ASP-1-0.822-0.90524.406-0.025-0.0250.0000.0000.0000.000
154A161LEU00.002-0.01226.7830.0060.0060.0000.0000.0000.000
155A162ASN00.038-0.00229.770-0.003-0.0030.0000.0000.0000.000
156A163SER0-0.070-0.02831.805-0.001-0.0010.0000.0000.0000.000
157A164GLY0-0.0090.00330.986-0.001-0.0010.0000.0000.0000.000
158A165LYS10.8630.91926.024-0.015-0.0150.0000.0000.0000.000
159A166ASP-1-0.853-0.90823.033-0.031-0.0310.0000.0000.0000.000
160A167ILE0-0.066-0.03821.7150.0010.0010.0000.0000.0000.000
161A168VAL0-0.026-0.01416.3650.0040.0040.0000.0000.0000.000
162A169PHE00.0110.00516.3140.0080.0080.0000.0000.0000.000
163A170ASP-1-0.846-0.9219.799-0.100-0.1000.0000.0000.0000.000
164A171LEU0-0.046-0.02612.4500.0420.0420.0000.0000.0000.000
165A172TYR0-0.060-0.0467.1720.1410.1410.0000.0000.0000.000
166A173TYR00.0200.0427.386-0.163-0.1630.0000.0000.0000.000
167A174PHE00.015-0.0235.0390.2300.2300.0000.0000.0000.000
168A175GLY00.0090.0169.3870.0490.0490.0000.0000.0000.000
169A176ASN0-0.055-0.0519.690-0.016-0.0160.0000.0000.0000.000
170A177GLY0-0.0050.00110.4380.0520.0520.0000.0000.0000.000
171A178ASP-1-0.853-0.90211.1280.3940.3940.0000.0000.0000.000
172A179PHE00.020-0.02914.876-0.018-0.0180.0000.0000.0000.000
173A180ASN0-0.003-0.00817.021-0.003-0.0030.0000.0000.0000.000
174A181SER0-0.0030.00714.037-0.035-0.0350.0000.0000.0000.000
175A182MET0-0.070-0.03310.970-0.019-0.0190.0000.0000.0000.000
176A183LEU00.0320.02115.072-0.021-0.0210.0000.0000.0000.000
177A184LYS10.9731.00218.291-0.150-0.1500.0000.0000.0000.000
178A185ILE0-0.020-0.00115.630-0.018-0.0180.0000.0000.0000.000
179A186TYR0-0.007-0.01719.009-0.008-0.0080.0000.0000.0000.000
180A187SER0-0.020-0.01322.251-0.010-0.0100.0000.0000.0000.000
181A188ASN00.0170.01224.2060.0030.0030.0000.0000.0000.000
182A189ASN0-0.006-0.01326.132-0.001-0.0010.0000.0000.0000.000
183A190GLU-1-0.867-0.91925.3520.0270.0270.0000.0000.0000.000
184A191ARG10.7340.82627.931-0.045-0.0450.0000.0000.0000.000
185A192ILE00.0050.01227.657-0.005-0.0050.0000.0000.0000.000
186A193ASP-1-0.847-0.91931.4470.0270.0270.0000.0000.0000.000
187A194SER00.003-0.04032.719-0.001-0.0010.0000.0000.0000.000
188A195THR0-0.075-0.03233.3900.0000.0000.0000.0000.0000.000
189A196GLN0-0.084-0.04334.264-0.006-0.0060.0000.0000.0000.000
190A197PHE0-0.019-0.01126.8940.0000.0000.0000.0000.0000.000
191A198HIS0-0.067-0.01526.9470.0090.0090.0000.0000.0000.000
192A199VAL0-0.014-0.02222.8100.0010.0010.0000.0000.0000.000
193A200ASP-1-0.786-0.86022.401-0.026-0.0260.0000.0000.0000.000
194A201VAL0-0.025-0.03117.8770.0050.0050.0000.0000.0000.000
195A202SER0-0.0190.00116.363-0.015-0.0150.0000.0000.0000.000
196A203ILE00.0140.01913.8050.0090.0090.0000.0000.0000.000
197A204SER00.0120.00410.682-0.057-0.0570.0000.0000.0000.000