Manual

About

FMODB

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

Last updated: 2024-05-02

All entries: 37386

Number of unique PDB entries: 7781

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FMODB ID: 2LJGR

Calculation Name: 5AWE-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 5AWE

Chain ID: A

ChEMBL ID:

UniProt ID: Q5SK23

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 OptH
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 210
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2004952.864617
FMO2-HF: Nuclear repulsion 1924774.927492
FMO2-HF: Total energy -80177.937124
FMO2-MP2: Total energy -80409.400561


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:MET)


Summations of interaction energy for fragment #1(A:1:MET)
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.
-20.612-10.1855.919-6.411-9.934-0.046
Interaction energy analysis for fragmet #1(A:1:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.004 / q_NPA : 0.009
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].
3A3VAL00.0080.0003.852-0.2001.728-0.020-1.027-0.8820.004
4A4ARG10.8480.8746.3492.2482.2480.0000.0000.0000.000
5A5ASP-1-0.873-0.9262.278-12.653-9.8151.820-2.466-2.192-0.037
6A6TRP0-0.020-0.0202.747-0.5640.3340.108-0.268-0.738-0.001
7A7MET0-0.107-0.0267.5030.1990.1990.0000.0000.0000.000
8A8THR00.0130.00910.5210.1140.1140.0000.0000.0000.000
9A9LYS10.9420.95612.5310.6330.6330.0000.0000.0000.000
10A10ASP-1-0.937-0.95515.225-0.347-0.3470.0000.0000.0000.000
11A11PRO0-0.0090.00617.5470.0440.0440.0000.0000.0000.000
12A12VAL0-0.0040.00020.0880.0120.0120.0000.0000.0000.000
13A13VAL00.003-0.00222.902-0.021-0.0210.0000.0000.0000.000
14A14VAL0-0.007-0.00125.2530.0240.0240.0000.0000.0000.000
15A15ALA00.0300.01828.571-0.019-0.0190.0000.0000.0000.000
16A16PRO00.0350.01031.1230.0110.0110.0000.0000.0000.000
17A17ASP-1-0.827-0.90732.997-0.156-0.1560.0000.0000.0000.000
18A18THR0-0.056-0.02932.4270.0100.0100.0000.0000.0000.000
19A19PRO00.0500.02034.826-0.003-0.0030.0000.0000.0000.000
20A20VAL00.0510.02234.054-0.004-0.0040.0000.0000.0000.000
21A21LEU00.012-0.00734.092-0.002-0.0020.0000.0000.0000.000
22A22GLU-1-0.921-0.97534.204-0.120-0.1200.0000.0000.0000.000
23A23ALA00.0200.01930.281-0.003-0.0030.0000.0000.0000.000
24A24ILE0-0.036-0.01230.229-0.001-0.0010.0000.0000.0000.000
25A25ARG10.9040.95330.9130.0850.0850.0000.0000.0000.000
26A26LEU00.0860.05028.0620.0030.0030.0000.0000.0000.000
27A27LEU0-0.025-0.02124.963-0.003-0.0030.0000.0000.0000.000
28A28LYS10.8950.95526.8790.0650.0650.0000.0000.0000.000
29A29GLU-1-0.991-0.99328.755-0.095-0.0950.0000.0000.0000.000
30A30LYS10.9640.98025.0630.1650.1650.0000.0000.0000.000
31A31GLY0-0.0010.01923.916-0.009-0.0090.0000.0000.0000.000
32A32PHE0-0.0250.00219.208-0.011-0.0110.0000.0000.0000.000
33A33ARG10.9530.96021.8050.1260.1260.0000.0000.0000.000
34A34ARG10.9210.98218.2300.3210.3210.0000.0000.0000.000
35A35LEU00.0210.00522.337-0.006-0.0060.0000.0000.0000.000
36A36PRO00.0260.00920.7300.0030.0030.0000.0000.0000.000
37A37VAL00.010-0.00423.2810.0210.0210.0000.0000.0000.000
38A38MET0-0.0250.00124.147-0.027-0.0270.0000.0000.0000.000
39A39GLU-1-0.834-0.94827.338-0.194-0.1940.0000.0000.0000.000
40A40GLY0-0.0060.01029.906-0.014-0.0140.0000.0000.0000.000
41A41GLY0-0.022-0.00627.712-0.005-0.0050.0000.0000.0000.000
42A42ARG10.8910.94625.7180.3300.3300.0000.0000.0000.000
43A43LEU00.0400.00120.7620.0240.0240.0000.0000.0000.000
44A44VAL0-0.071-0.03924.841-0.005-0.0050.0000.0000.0000.000
45A45GLY00.023-0.00426.0280.0180.0180.0000.0000.0000.000
46A46LEU0-0.066-0.00521.531-0.021-0.0210.0000.0000.0000.000
47A47VAL00.0630.06224.8950.0160.0160.0000.0000.0000.000
48A48THR0-0.022-0.01123.284-0.006-0.0060.0000.0000.0000.000
49A49ASP-1-0.796-0.89925.634-0.112-0.1120.0000.0000.0000.000
50A50LYS10.9450.96627.2150.1530.1530.0000.0000.0000.000
51A51ASP-1-0.841-0.91427.556-0.213-0.2130.0000.0000.0000.000
52A52LEU0-0.043-0.02228.9470.0090.0090.0000.0000.0000.000
53A53LYS10.7790.86230.7980.1170.1170.0000.0000.0000.000
54A54ASP-1-0.934-0.96332.772-0.107-0.1070.0000.0000.0000.000
55A55ALA0-0.0240.00234.6790.0000.0000.0000.0000.0000.000
56A56MET0-0.011-0.01236.0960.0110.0110.0000.0000.0000.000
57A57PRO0-0.017-0.01239.462-0.004-0.0040.0000.0000.0000.000
58A58SER00.0160.02641.8300.0010.0010.0000.0000.0000.000
59A59LYS10.8780.92543.9830.0720.0720.0000.0000.0000.000
60A60ALA00.0260.01847.805-0.002-0.0020.0000.0000.0000.000
61A61THR00.005-0.02351.2390.0010.0010.0000.0000.0000.000
62A62THR0-0.047-0.04851.344-0.004-0.0040.0000.0000.0000.000
63A63LEU0-0.0060.02146.4770.0030.0030.0000.0000.0000.000
64A64SER00.0550.03350.5940.0020.0020.0000.0000.0000.000
65A65VAL00.046-0.00147.814-0.003-0.0030.0000.0000.0000.000
66A66TRP00.0520.01447.961-0.003-0.0030.0000.0000.0000.000
67A67GLU-1-0.814-0.86548.934-0.065-0.0650.0000.0000.0000.000
68A68MET00.0180.01242.989-0.004-0.0040.0000.0000.0000.000
69A69ASN0-0.042-0.05044.632-0.006-0.0060.0000.0000.0000.000
70A70TYR00.0040.00144.673-0.005-0.0050.0000.0000.0000.000
71A71LEU0-0.033-0.02444.064-0.004-0.0040.0000.0000.0000.000
72A72LEU00.0050.01139.969-0.006-0.0060.0000.0000.0000.000
73A73ALA0-0.054-0.02740.264-0.006-0.0060.0000.0000.0000.000
74A74LYS10.8980.94541.7310.0940.0940.0000.0000.0000.000
75A75LEU0-0.0010.04637.391-0.004-0.0040.0000.0000.0000.000
76A76THR0-0.0120.00136.725-0.004-0.0040.0000.0000.0000.000
77A77VAL00.003-0.01130.160-0.003-0.0030.0000.0000.0000.000
78A78ARG10.8540.90432.4600.1760.1760.0000.0000.0000.000
79A79GLU-1-0.937-0.97134.026-0.140-0.1400.0000.0000.0000.000
80A80VAL0-0.014-0.00631.7230.0040.0040.0000.0000.0000.000
81A81MET0-0.097-0.01528.631-0.012-0.0120.0000.0000.0000.000
82A82ALA00.0130.01725.9700.0010.0010.0000.0000.0000.000
83A83ARG10.9470.97926.3480.2640.2640.0000.0000.0000.000
84A84PRO00.007-0.02125.0240.0210.0210.0000.0000.0000.000
85A85VAL00.0030.00720.4520.0000.0000.0000.0000.0000.000
86A86VAL0-0.024-0.00117.965-0.021-0.0210.0000.0000.0000.000
87A87THR0-0.037-0.03016.515-0.009-0.0090.0000.0000.0000.000
88A88VAL00.0450.02610.955-0.004-0.0040.0000.0000.0000.000
89A89GLU-1-0.836-0.92512.034-1.400-1.4000.0000.0000.0000.000
90A90ALA00.017-0.01810.368-0.284-0.2840.0000.0000.0000.000
91A91ASP-1-1.002-0.9918.264-2.253-2.2530.0000.0000.0000.000
92A92ALA00.0570.0438.366-0.238-0.2380.0000.0000.0000.000
93A93PRO00.0150.0064.439-0.817-0.716-0.001-0.050-0.0500.000
94A94LEU00.0050.0042.9360.0641.7120.163-0.633-1.1770.002
95A95GLU-1-0.861-0.9702.781-9.210-6.9041.309-1.403-2.212-0.016
96A96LYS10.9300.9695.7302.2942.2940.0000.0000.0000.000
97A97ALA00.0280.0148.4740.4090.4090.0000.0000.0000.000
98A98ALA0-0.014-0.0138.1600.3000.3000.0000.0000.0000.000
99A99LEU00.0060.0149.7730.2050.2050.0000.0000.0000.000
100A100LEU00.0110.00811.7790.1620.1620.0000.0000.0000.000
101A101MET0-0.108-0.05911.8710.1570.1570.0000.0000.0000.000
102A102GLU-1-0.970-0.97913.947-0.259-0.2590.0000.0000.0000.000
103A103GLU-1-0.878-0.92515.620-0.489-0.4890.0000.0000.0000.000
104A104ARG10.8750.92417.6110.5850.5850.0000.0000.0000.000
105A105LYS10.9360.97119.0510.2300.2300.0000.0000.0000.000
106A106ILE0-0.0590.01818.1420.0390.0390.0000.0000.0000.000
107A107GLY00.025-0.00717.484-0.006-0.0060.0000.0000.0000.000
108A108GLY0-0.036-0.07815.7780.0220.0220.0000.0000.0000.000
109A109LEU00.0470.02112.6160.0240.0240.0000.0000.0000.000
110A110PRO0-0.0230.00414.753-0.045-0.0450.0000.0000.0000.000
111A111VAL00.0090.01011.377-0.068-0.0680.0000.0000.0000.000
112A112MET00.0110.00314.2900.1280.1280.0000.0000.0000.000
113A113GLU-1-0.849-0.91514.137-1.087-1.0870.0000.0000.0000.000
114A114GLY00.0170.00716.2810.0990.0990.0000.0000.0000.000
115A115GLU-1-0.829-0.92219.031-0.484-0.4840.0000.0000.0000.000
116A116ARG10.8940.95819.0380.5220.5220.0000.0000.0000.000
117A117LEU00.0210.00817.985-0.064-0.0640.0000.0000.0000.000
118A118VAL0-0.056-0.03313.4430.0540.0540.0000.0000.0000.000
119A119GLY00.009-0.01714.4140.0280.0280.0000.0000.0000.000
120A120ILE0-0.066-0.01414.660-0.004-0.0040.0000.0000.0000.000
121A121ILE00.0600.0457.9090.0270.0270.0000.0000.0000.000
122A122THR0-0.066-0.05112.2270.0590.0590.0000.0000.0000.000
123A123VAL00.0890.02411.994-0.029-0.0290.0000.0000.0000.000
124A124THR0-0.062-0.02512.7740.0720.0720.0000.0000.0000.000
125A125ASP-1-0.763-0.8759.640-0.190-0.1900.0000.0000.0000.000
126A126VAL00.0230.0107.6460.1600.1600.0000.0000.0000.000
127A127LEU0-0.039-0.0128.2630.2390.2390.0000.0000.0000.000
128A128ARG10.8730.9459.5440.0810.0810.0000.0000.0000.000
129A129ALA00.0710.0384.4600.2560.342-0.001-0.008-0.0770.000
130A130PHE00.006-0.0014.2980.8211.051-0.001-0.011-0.2170.000
131A131ILE0-0.056-0.0436.8560.3180.3180.0000.0000.0000.000
132A132GLU-1-0.961-0.9706.3572.5922.5920.0000.0000.0000.000
133A133VAL00.008-0.0032.154-1.421-1.0292.542-0.545-2.3890.002
134A134LEU0-0.024-0.0085.551-0.227-0.2270.0000.0000.0000.000
135A135GLY00.0670.0358.199-0.533-0.5330.0000.0000.0000.000
136A136LEU0-0.094-0.04410.902-0.375-0.3750.0000.0000.0000.000
137A137LYS10.9250.94912.914-0.908-0.9080.0000.0000.0000.000
138A138LEU00.0110.01411.515-0.077-0.0770.0000.0000.0000.000
139A139GLY0-0.0220.01215.537-0.071-0.0710.0000.0000.0000.000
140A140GLY00.0550.03017.4990.0740.0740.0000.0000.0000.000
141A141LEU0-0.023-0.00118.883-0.073-0.0730.0000.0000.0000.000
142A142ARG10.9370.96416.540-0.420-0.4200.0000.0000.0000.000
143A143ILE00.011-0.00717.747-0.076-0.0760.0000.0000.0000.000
144A144THR0-0.035-0.01117.9540.0530.0530.0000.0000.0000.000
145A145VAL0-0.007-0.01118.687-0.031-0.0310.0000.0000.0000.000
146A146ASP-1-0.785-0.82919.7980.2400.2400.0000.0000.0000.000
147A147ILE00.0190.01217.9430.0020.0020.0000.0000.0000.000
148A148PRO00.0280.00522.170-0.019-0.0190.0000.0000.0000.000
149A149ASP-1-0.915-0.96421.1440.1280.1280.0000.0000.0000.000
150A150VAL0-0.0190.00222.138-0.026-0.0260.0000.0000.0000.000
151A151PRO00.005-0.02020.0610.0270.0270.0000.0000.0000.000
152A152GLY00.0000.00119.7580.0270.0270.0000.0000.0000.000
153A153ALA00.0130.01421.0890.0250.0250.0000.0000.0000.000
154A154LEU00.0250.01813.8500.0230.0230.0000.0000.0000.000
155A155ALA00.009-0.00818.3730.0500.0500.0000.0000.0000.000
156A156GLN0-0.0150.00019.4370.0270.0270.0000.0000.0000.000
157A157MET00.0240.02616.5920.0320.0320.0000.0000.0000.000
158A158ALA0-0.021-0.02417.5410.0260.0260.0000.0000.0000.000
159A159GLN0-0.032-0.02419.3670.0300.0300.0000.0000.0000.000
160A160ALA00.0180.02522.628-0.013-0.0130.0000.0000.0000.000
161A161VAL0-0.016-0.00218.235-0.006-0.0060.0000.0000.0000.000
162A162PRO00.0100.01620.8730.0040.0040.0000.0000.0000.000
163A163PRO00.000-0.00722.532-0.037-0.0370.0000.0000.0000.000
164A164ALA0-0.0280.02120.0880.0380.0380.0000.0000.0000.000
165A165ASN0-0.027-0.03115.282-0.022-0.0220.0000.0000.0000.000
166A166ILE00.0300.00112.377-0.018-0.0180.0000.0000.0000.000
167A167VAL0-0.044-0.0179.7150.0890.0890.0000.0000.0000.000
168A168SER0-0.041-0.0298.3490.4200.4200.0000.0000.0000.000
169A169ILE00.0310.0169.170-0.307-0.3070.0000.0000.0000.000
170A170ALA00.0010.0079.2360.0230.0230.0000.0000.0000.000
171A171THR00.0050.00611.042-0.028-0.0280.0000.0000.0000.000
172A172ALA0-0.033-0.02113.771-0.050-0.0500.0000.0000.0000.000
173A173ALA0-0.018-0.01616.256-0.047-0.0470.0000.0000.0000.000
174A174HIS00.0270.02715.5550.0300.0300.0000.0000.0000.000
175A175LEU0-0.030-0.01920.023-0.018-0.0180.0000.0000.0000.000
176A176PRO00.004-0.01323.595-0.001-0.0010.0000.0000.0000.000
177A177GLY00.0290.03126.0430.0070.0070.0000.0000.0000.000
178A178TYR0-0.031-0.01623.3750.0100.0100.0000.0000.0000.000
179A179GLN00.0150.01314.782-0.023-0.0230.0000.0000.0000.000
180A180ARG10.7910.84318.836-0.192-0.1920.0000.0000.0000.000
181A181LEU0-0.020-0.01314.3370.0050.0050.0000.0000.0000.000
182A182VAL0-0.041-0.01714.036-0.024-0.0240.0000.0000.0000.000
183A183MET00.0190.00913.2890.0980.0980.0000.0000.0000.000
184A184ARG10.8740.93612.413-1.091-1.0910.0000.0000.0000.000
185A185VAL00.0360.02114.1730.1420.1420.0000.0000.0000.000
186A186VAL00.017-0.01215.292-0.048-0.0480.0000.0000.0000.000
187A187GLY00.0200.01417.861-0.002-0.0020.0000.0000.0000.000
188A188GLU-1-0.924-0.96720.3510.4000.4000.0000.0000.0000.000
189A189ASP-1-0.767-0.88523.5650.3870.3870.0000.0000.0000.000
190A190VAL0-0.0230.00220.4430.0000.0000.0000.0000.0000.000
191A191GLU-1-0.881-0.96322.9810.4380.4380.0000.0000.0000.000
192A192GLY0-0.0010.00226.061-0.028-0.0280.0000.0000.0000.000
193A193VAL0-0.045-0.01721.056-0.017-0.0170.0000.0000.0000.000
194A194PRO0-0.004-0.01224.302-0.017-0.0170.0000.0000.0000.000
195A195LYS10.9580.97825.612-0.275-0.2750.0000.0000.0000.000
196A196ARG10.7910.87623.628-0.451-0.4510.0000.0000.0000.000
197A197LEU00.0000.00421.294-0.011-0.0110.0000.0000.0000.000
198A198GLU-1-0.917-0.95525.4210.2270.2270.0000.0000.0000.000
199A199ALA0-0.060-0.00928.300-0.021-0.0210.0000.0000.0000.000
200A200ALA0-0.072-0.02926.827-0.016-0.0160.0000.0000.0000.000
201A201GLY0-0.036-0.02728.304-0.003-0.0030.0000.0000.0000.000
202A202GLU-1-0.895-0.95322.7900.2980.2980.0000.0000.0000.000
203A203ARG10.9630.97525.189-0.210-0.2100.0000.0000.0000.000
204A204VAL00.006-0.00623.8890.0150.0150.0000.0000.0000.000
205A205VAL0-0.093-0.02423.045-0.022-0.0220.0000.0000.0000.000
206A206ASP-1-0.881-0.97022.3840.3280.3280.0000.0000.0000.000
207A207VAL00.0400.02622.6970.0380.0380.0000.0000.0000.000
208A208ARG10.8930.96021.322-0.376-0.3760.0000.0000.0000.000
209A209PRO00.0400.01321.5710.0450.0450.0000.0000.0000.000
210A210GLY0-0.0310.00518.0580.0220.0220.0000.0000.0000.000