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: 3JL2L

Calculation Name: 1UAI-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1UAI

Chain ID: A

ChEMBL ID:

UniProt ID: Q9RB42

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 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 221
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2681828.78215
FMO2-HF: Nuclear repulsion 2596485.079769
FMO2-HF: Total energy -85343.702381
FMO2-MP2: Total energy -85593.240257


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:GLU)


Summations of interaction energy for fragment #1(A:2:GLU)
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.
25.90611.26420.9588.196-14.5120.05
Interaction energy analysis for fragmet #1(A:2:GLU)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : -1 / q_Mulliken : -0.941 / q_NPA : -0.921
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].
3A4CYS0-0.054-0.0291.750-28.327-48.52516.01911.433-7.2540.075
4A5ASP-1-0.860-0.9112.38444.43047.5561.906-1.245-3.787-0.018
5A6TYR0-0.026-0.0344.223-9.750-9.4950.000-0.034-0.2210.000
6A7PRO0-0.030-0.0236.2942.3152.3150.0000.0000.0000.000
7A8ALA00.0050.0058.343-0.416-0.4160.0000.0000.0000.000
8A9GLN00.0510.0362.2744.0826.2163.034-1.955-3.213-0.007
9A10GLN0-0.097-0.0635.594-4.444-4.403-0.001-0.003-0.0370.000
10A11LEU0-0.072-0.0388.122-3.163-3.1630.0000.0000.0000.000
11A12ASP-1-0.816-0.87910.30820.15020.1500.0000.0000.0000.000
12A13LEU0-0.065-0.05411.678-1.551-1.5510.0000.0000.0000.000
13A14THR00.0180.01013.511-0.575-0.5750.0000.0000.0000.000
14A15ASP-1-0.839-0.92715.03013.48413.4840.0000.0000.0000.000
15A16TRP0-0.047-0.03216.440-0.933-0.9330.0000.0000.0000.000
16A17LYS10.8270.91717.928-12.036-12.0360.0000.0000.0000.000
17A18VAL0-0.023-0.01016.159-0.153-0.1530.0000.0000.0000.000
18A19THR0-0.036-0.02819.049-0.361-0.3610.0000.0000.0000.000
19A20LEU0-0.034-0.02117.3550.3920.3920.0000.0000.0000.000
20A21PRO00.0060.00920.802-0.644-0.6440.0000.0000.0000.000
21A22ILE00.0280.02019.674-0.427-0.4270.0000.0000.0000.000
22A23GLY00.0490.03023.9880.0780.0780.0000.0000.0000.000
23A24SER00.0020.00825.824-0.164-0.1640.0000.0000.0000.000
24A25SER00.029-0.01229.3990.0510.0510.0000.0000.0000.000
25A26GLY00.0090.01532.075-0.148-0.1480.0000.0000.0000.000
26A27LYS10.9410.97428.222-10.737-10.7370.0000.0000.0000.000
27A28PRO0-0.0070.00625.8310.2410.2410.0000.0000.0000.000
28A29SER0-0.026-0.02521.983-0.141-0.1410.0000.0000.0000.000
29A30GLU-1-0.829-0.90021.42312.52412.5240.0000.0000.0000.000
30A31ILE0-0.052-0.01515.926-0.189-0.1890.0000.0000.0000.000
31A32GLU-1-0.805-0.90918.53012.83112.8310.0000.0000.0000.000
32A33GLN00.0400.02912.8120.9940.9940.0000.0000.0000.000
33A34PRO00.0510.01014.945-0.753-0.7530.0000.0000.0000.000
34A35ALA0-0.006-0.01313.7331.1561.1560.0000.0000.0000.000
35A36LEU0-0.075-0.04913.2371.2111.2110.0000.0000.0000.000
36A37ASP-1-0.900-0.9459.17926.83326.8330.0000.0000.0000.000
37A38THR0-0.037-0.0107.7502.5032.5030.0000.0000.0000.000
38A39PHE0-0.040-0.0089.454-1.001-1.0010.0000.0000.0000.000
39A40ALA00.031-0.0059.4971.4011.4010.0000.0000.0000.000
40A41THR0-0.065-0.02511.621-1.388-1.3880.0000.0000.0000.000
41A42ALA00.0200.03913.325-0.462-0.4620.0000.0000.0000.000
42A43PRO0-0.034-0.03115.146-1.015-1.0150.0000.0000.0000.000
43A44TRP00.007-0.01516.694-0.114-0.1140.0000.0000.0000.000
44A45PHE00.0730.05612.825-0.574-0.5740.0000.0000.0000.000
45A46GLN00.0160.00110.813-1.336-1.3360.0000.0000.0000.000
46A47VAL00.0890.0815.831-3.124-3.1240.0000.0000.0000.000
47A48ASN0-0.019-0.0109.1700.9280.9280.0000.0000.0000.000
48A49ALA00.0540.0099.1102.7092.7090.0000.0000.0000.000
49A50LYS10.8900.9369.454-19.329-19.3290.0000.0000.0000.000
50A52THR00.001-0.0087.713-0.307-0.3070.0000.0000.0000.000
51A53GLY00.0750.03010.522-2.234-2.2340.0000.0000.0000.000
52A54VAL0-0.0320.01010.5622.2982.2980.0000.0000.0000.000
53A55GLN0-0.085-0.04412.440-1.857-1.8570.0000.0000.0000.000
54A56PHE00.0390.01614.8610.3650.3650.0000.0000.0000.000
55A57ARG10.8380.90817.654-16.865-16.8650.0000.0000.0000.000
56A58ALA00.0550.02820.3190.0840.0840.0000.0000.0000.000
57A59ALA00.0110.01823.586-0.313-0.3130.0000.0000.0000.000
58A60VAL00.0240.01426.329-0.128-0.1280.0000.0000.0000.000
59A61ASN0-0.021-0.03828.317-0.067-0.0670.0000.0000.0000.000
60A62GLY0-0.0300.00126.9760.0390.0390.0000.0000.0000.000
61A63VAL0-0.026-0.01726.794-0.467-0.4670.0000.0000.0000.000
62A64THR0-0.010-0.01027.7990.1990.1990.0000.0000.0000.000
63A65THR00.0370.00330.3170.0030.0030.0000.0000.0000.000
64A66SER0-0.013-0.00732.080-0.163-0.1630.0000.0000.0000.000
65A67GLY0-0.015-0.00633.930-0.167-0.1670.0000.0000.0000.000
66A68SER0-0.081-0.01834.859-0.127-0.1270.0000.0000.0000.000
67A69GLY00.0740.02933.8890.0260.0260.0000.0000.0000.000
68A70TYR0-0.028-0.00130.579-0.061-0.0610.0000.0000.0000.000
69A71PRO00.0040.02326.5910.1130.1130.0000.0000.0000.000
70A72ARG10.8510.89623.970-11.445-11.4450.0000.0000.0000.000
71A73SER0-0.009-0.01118.1500.1420.1420.0000.0000.0000.000
72A74GLU-1-0.819-0.89220.47112.40012.4000.0000.0000.0000.000
73A75LEU00.0560.03915.837-0.099-0.0990.0000.0000.0000.000
74A76ARG10.8140.88019.985-11.926-11.9260.0000.0000.0000.000
75A77GLU-1-0.749-0.85121.69011.87811.8780.0000.0000.0000.000
76A78MET0-0.0370.00120.747-0.841-0.8410.0000.0000.0000.000
77A79THR0-0.006-0.01622.5020.0830.0830.0000.0000.0000.000
78A80ASP-1-0.936-0.96223.07111.32311.3230.0000.0000.0000.000
79A81GLY00.0450.02218.6870.0270.0270.0000.0000.0000.000
80A82GLY0-0.025-0.02218.7380.4720.4720.0000.0000.0000.000
81A83GLU-1-0.981-0.96619.91312.77212.7720.0000.0000.0000.000
82A84GLU-1-0.972-0.98022.7849.7319.7310.0000.0000.0000.000
83A85LYS10.9170.93424.588-10.024-10.0240.0000.0000.0000.000
84A86ALA00.0170.02925.025-0.321-0.3210.0000.0000.0000.000
85A87SER00.009-0.00526.944-0.207-0.2070.0000.0000.0000.000
86A88TRP0-0.031-0.02927.237-0.468-0.4680.0000.0000.0000.000
87A89SER00.0180.00631.994-0.141-0.1410.0000.0000.0000.000
88A90ALA00.0530.03134.3450.1890.1890.0000.0000.0000.000
89A91THR0-0.033-0.02936.273-0.038-0.0380.0000.0000.0000.000
90A92SER0-0.0110.01337.114-0.130-0.1300.0000.0000.0000.000
91A93GLY00.0370.02933.7280.2250.2250.0000.0000.0000.000
92A94THR0-0.044-0.03330.578-0.224-0.2240.0000.0000.0000.000
93A95HIS10.8150.89828.656-9.333-9.3330.0000.0000.0000.000
94A96THR0-0.004-0.00825.410-0.315-0.3150.0000.0000.0000.000
95A97MET00.0380.05222.2120.4650.4650.0000.0000.0000.000
96A98VAL0-0.070-0.04321.535-0.464-0.4640.0000.0000.0000.000
97A99PHE00.0240.01519.8330.5650.5650.0000.0000.0000.000
98A100ARG10.8480.90318.349-15.764-15.7640.0000.0000.0000.000
99A101GLU-1-0.803-0.91818.70515.05515.0550.0000.0000.0000.000
100A102ALA0-0.0050.00020.130-0.627-0.6270.0000.0000.0000.000
101A103PHE00.0580.03221.1570.5100.5100.0000.0000.0000.000
102A104ASN0-0.021-0.02218.9420.2130.2130.0000.0000.0000.000
103A105HIS0-0.023-0.01222.403-0.087-0.0870.0000.0000.0000.000
104A106LEU0-0.011-0.00124.7610.0600.0600.0000.0000.0000.000
105A107PRO0-0.0170.00428.0720.0420.0420.0000.0000.0000.000
106A108GLU-1-0.835-0.93630.0749.6809.6800.0000.0000.0000.000
107A109VAL0-0.0380.01533.200-0.095-0.0950.0000.0000.0000.000
108A110LYS10.8030.88635.130-9.274-9.2740.0000.0000.0000.000
109A111PRO00.0310.02732.0120.2660.2660.0000.0000.0000.000
110A112HIS00.0190.00132.1090.0520.0520.0000.0000.0000.000
111A113LEU0-0.048-0.01024.4360.1520.1520.0000.0000.0000.000
112A114VAL0-0.022-0.01127.321-0.157-0.1570.0000.0000.0000.000
113A115GLY00.0240.01224.0390.3440.3440.0000.0000.0000.000
114A116ALA00.0370.02423.2800.5090.5090.0000.0000.0000.000
115A117GLN0-0.077-0.06025.397-0.825-0.8250.0000.0000.0000.000
116A118ILE00.0030.01927.2750.3210.3210.0000.0000.0000.000
117A119HIS0-0.048-0.01929.886-0.098-0.0980.0000.0000.0000.000
118A120ASP-1-0.775-0.89831.4748.6288.6280.0000.0000.0000.000
119A121GLY0-0.046-0.02533.7400.1590.1590.0000.0000.0000.000
120A122ASP-1-0.979-0.98135.6047.7207.7200.0000.0000.0000.000
121A123ASP-1-0.876-0.94435.1468.7838.7830.0000.0000.0000.000
122A124ASP-1-0.991-0.98732.2799.4469.4460.0000.0000.0000.000
123A125VAL0-0.0060.00133.368-0.279-0.2790.0000.0000.0000.000
124A126THR0-0.071-0.06532.349-0.182-0.1820.0000.0000.0000.000
125A127VAL00.0100.00629.7050.3920.3920.0000.0000.0000.000
126A128PHE0-0.032-0.00427.509-0.289-0.2890.0000.0000.0000.000
127A129ARG10.8640.90428.692-8.975-8.9750.0000.0000.0000.000
128A130LEU0-0.0080.00527.976-0.256-0.2560.0000.0000.0000.000
129A131GLU-1-0.779-0.87030.9078.8568.8560.0000.0000.0000.000
130A132GLY00.0120.01132.699-0.248-0.2480.0000.0000.0000.000
131A133THR0-0.008-0.00831.6020.3020.3020.0000.0000.0000.000
132A134SER0-0.040-0.01633.256-0.135-0.1350.0000.0000.0000.000
133A135LEU0-0.0240.00829.1270.1100.1100.0000.0000.0000.000
134A136TYR00.013-0.00632.729-0.386-0.3860.0000.0000.0000.000
135A137ILE0-0.0140.01131.5040.3340.3340.0000.0000.0000.000
136A138THR0-0.0040.00033.833-0.226-0.2260.0000.0000.0000.000
137A139LYS10.9590.97235.957-7.486-7.4860.0000.0000.0000.000
138A140GLY00.0200.02337.402-0.242-0.2420.0000.0000.0000.000
139A141ASP-1-0.868-0.93137.7927.8857.8850.0000.0000.0000.000
140A142ASP-1-0.911-0.95140.1137.6847.6840.0000.0000.0000.000
141A143THR0-0.002-0.03636.7630.1530.1530.0000.0000.0000.000
142A144HIS10.7860.86237.052-7.976-7.9760.0000.0000.0000.000
143A145HIS00.0280.06737.782-0.011-0.0110.0000.0000.0000.000
144A146LYS10.8580.92936.936-8.640-8.6400.0000.0000.0000.000
145A147LEU00.0200.01836.7470.2670.2670.0000.0000.0000.000
146A148VAL0-0.046-0.02132.037-0.150-0.1500.0000.0000.0000.000
147A149THR00.017-0.00732.432-0.167-0.1670.0000.0000.0000.000
148A150SER00.0410.03335.0240.0930.0930.0000.0000.0000.000
149A151ASP-1-0.878-0.94034.6339.4179.4170.0000.0000.0000.000
150A152TYR0-0.025-0.01924.6100.2600.2600.0000.0000.0000.000
151A153LYS10.8690.92728.556-9.956-9.9560.0000.0000.0000.000
152A154LEU00.0330.01325.3080.3970.3970.0000.0000.0000.000
153A155ASN0-0.017-0.01621.2660.6490.6490.0000.0000.0000.000
154A156THR0-0.0230.00421.9770.4580.4580.0000.0000.0000.000
155A157VAL0-0.0180.00219.197-0.139-0.1390.0000.0000.0000.000
156A158PHE0-0.064-0.01622.377-0.619-0.6190.0000.0000.0000.000
157A159GLU-1-0.791-0.88421.90114.11614.1160.0000.0000.0000.000
158A160GLY00.0110.02123.904-0.683-0.6830.0000.0000.0000.000
159A161LYS10.8970.95024.627-10.198-10.1980.0000.0000.0000.000
160A162PHE00.0510.04026.751-0.466-0.4660.0000.0000.0000.000
161A163VAL0-0.012-0.01728.2170.2390.2390.0000.0000.0000.000
162A164VAL0-0.0050.01130.774-0.320-0.3200.0000.0000.0000.000
163A165SER00.0500.01833.0130.1400.1400.0000.0000.0000.000
164A166GLY0-0.007-0.00235.725-0.109-0.1090.0000.0000.0000.000
165A167GLY00.0100.00438.608-0.195-0.1950.0000.0000.0000.000
166A168LYS10.8350.91038.197-7.382-7.3820.0000.0000.0000.000
167A169ILE00.0580.04032.9170.1760.1760.0000.0000.0000.000
168A170LYS10.8440.92933.597-8.266-8.2660.0000.0000.0000.000
169A171VAL00.0690.03530.7110.3100.3100.0000.0000.0000.000
170A172TYR0-0.050-0.04029.468-0.307-0.3070.0000.0000.0000.000
171A173TYR00.0760.02928.5390.2510.2510.0000.0000.0000.000
172A174ASN00.014-0.00226.6730.0980.0980.0000.0000.0000.000
173A175GLY00.0180.01128.427-0.201-0.2010.0000.0000.0000.000
174A176VAL0-0.0090.00629.968-0.321-0.3210.0000.0000.0000.000
175A177LEU0-0.057-0.02633.1170.1550.1550.0000.0000.0000.000
176A178GLN0-0.013-0.01733.307-0.356-0.3560.0000.0000.0000.000
177A179THR00.023-0.01735.888-0.314-0.3140.0000.0000.0000.000
178A180THR0-0.008-0.00636.4100.1920.1920.0000.0000.0000.000
179A181ILE00.0180.02036.077-0.268-0.2680.0000.0000.0000.000
180A182SER0-0.045-0.02338.7950.0430.0430.0000.0000.0000.000
181A183HIS00.0280.01136.072-0.189-0.1890.0000.0000.0000.000
182A184THR0-0.008-0.02539.2230.0730.0730.0000.0000.0000.000
183A185SER00.0170.03838.135-0.082-0.0820.0000.0000.0000.000
184A186SER0-0.020-0.02736.3520.1750.1750.0000.0000.0000.000
185A187GLY00.0530.03033.830-0.060-0.0600.0000.0000.0000.000
186A188ASN0-0.060-0.04031.8590.0740.0740.0000.0000.0000.000
187A189TYR0-0.043-0.01626.5860.3010.3010.0000.0000.0000.000
188A190PHE00.016-0.01224.294-0.197-0.1970.0000.0000.0000.000
189A191LYS10.8400.91223.451-12.058-12.0580.0000.0000.0000.000
190A192ALA00.0280.01120.302-0.295-0.2950.0000.0000.0000.000
191A193GLY00.0190.02519.6380.6180.6180.0000.0000.0000.000
192A194ALA0-0.013-0.00320.574-0.413-0.4130.0000.0000.0000.000
193A195TYR00.0620.02722.617-0.088-0.0880.0000.0000.0000.000
194A196THR00.028-0.02525.964-0.248-0.2480.0000.0000.0000.000
195A197GLN0-0.045-0.01127.922-0.607-0.6070.0000.0000.0000.000
196A198ALA00.0200.01031.298-0.366-0.3660.0000.0000.0000.000
197A199ASN00.0560.02531.4270.1490.1490.0000.0000.0000.000
198A200CYS0-0.023-0.01733.0490.2640.2640.0000.0000.0000.000
199A201SER0-0.067-0.02735.579-0.253-0.2530.0000.0000.0000.000
200A202ASN00.015-0.01636.2020.0000.0000.0000.0000.0000.000
201A203SER0-0.004-0.00133.8380.0880.0880.0000.0000.0000.000
202A204SER0-0.0100.02335.736-0.072-0.0720.0000.0000.0000.000
203A205PRO00.0570.00532.4130.0040.0040.0000.0000.0000.000
204A207SER00.021-0.00129.6130.0620.0620.0000.0000.0000.000
205A208SER00.0650.02024.9710.0230.0230.0000.0000.0000.000
206A209SER0-0.028-0.01225.1470.4570.4570.0000.0000.0000.000
207A210ASN0-0.040-0.00326.6370.2400.2400.0000.0000.0000.000
208A211TYR0-0.010-0.02922.2070.3120.3120.0000.0000.0000.000
209A212GLY00.0520.05125.377-0.197-0.1970.0000.0000.0000.000
210A213GLN0-0.019-0.02417.9160.2510.2510.0000.0000.0000.000
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