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: JQ7L9

Calculation Name: 3ASG-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3ASG

Chain ID: A

ChEMBL ID:

UniProt ID: Q2W8Q0

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 182
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -1752605.465857
FMO2-HF: Nuclear repulsion 1683058.851173
FMO2-HF: Total energy -69546.614684
FMO2-MP2: Total energy -69754.129748


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:43:ASP)


Summations of interaction energy for fragment #1(A:43: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.
-56.045-49.6010.944-3.206-4.1830.024
Interaction energy analysis for fragmet #1(A:43:ASP)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : -1 / q_Mulliken : -0.830 / q_NPA : -0.927
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].
3A45ARG10.8960.9483.601-35.341-33.528-0.014-0.804-0.9950.003
4A46GLN00.0480.0132.926-11.044-9.2510.151-0.824-1.1200.006
5A47VAL00.0620.0232.974-11.029-8.2540.808-1.572-2.0120.015
6A48TYR0-0.021-0.0065.459-8.556-8.493-0.001-0.006-0.0560.000
7A49TYR00.006-0.0087.853-5.163-5.1630.0000.0000.0000.000
8A50ARG10.8700.9277.162-36.745-36.7450.0000.0000.0000.000
9A51ASP-1-0.845-0.9239.34829.77329.7730.0000.0000.0000.000
10A52LYS10.9000.94911.438-21.831-21.8310.0000.0000.0000.000
11A53GLY00.0430.01912.630-2.093-2.0930.0000.0000.0000.000
12A54ILE00.018-0.00311.991-2.235-2.2350.0000.0000.0000.000
13A55SER0-0.079-0.02815.252-1.811-1.8110.0000.0000.0000.000
14A56HIS00.009-0.00916.991-1.680-1.6800.0000.0000.0000.000
15A57ALA00.0140.01218.057-1.068-1.0680.0000.0000.0000.000
16A58LYS10.8370.92816.767-19.501-19.5010.0000.0000.0000.000
17A59ALA0-0.032-0.00521.410-0.689-0.6890.0000.0000.0000.000
18A60GLY00.0110.01723.319-0.643-0.6430.0000.0000.0000.000
19A61ARG10.8550.92720.686-14.968-14.9680.0000.0000.0000.000
20A62TYR00.0630.01521.1750.5260.5260.0000.0000.0000.000
21A63SER00.0720.02921.1460.5210.5210.0000.0000.0000.000
22A64GLN00.000-0.00619.0210.1490.1490.0000.0000.0000.000
23A65ALA0-0.0020.00017.0351.0061.0060.0000.0000.0000.000
24A66VAL00.0310.01816.2181.1791.1790.0000.0000.0000.000
25A67MET00.0000.00616.5370.6040.6040.0000.0000.0000.000
26A68LEU0-0.070-0.02512.6690.7690.7690.0000.0000.0000.000
27A69LEU00.0080.01211.8191.9121.9120.0000.0000.0000.000
28A70GLU-1-0.778-0.85912.38017.50817.5080.0000.0000.0000.000
29A71GLN0-0.106-0.06110.0670.9590.9590.0000.0000.0000.000
30A72VAL0-0.045-0.0317.2451.9831.9830.0000.0000.0000.000
31A73TYR0-0.033-0.0188.8531.6801.6800.0000.0000.0000.000
32A74ASP-1-0.816-0.90810.25125.19125.1910.0000.0000.0000.000
33A75ALA0-0.060-0.02212.156-0.164-0.1640.0000.0000.0000.000
34A76ASP-1-0.900-0.94713.92417.67617.6760.0000.0000.0000.000
35A77ALA0-0.052-0.01710.564-0.419-0.4190.0000.0000.0000.000
36A78PHE0-0.018-0.00211.5311.4711.4710.0000.0000.0000.000
37A79ASP-1-0.735-0.8539.83430.91530.9150.0000.0000.0000.000
38A80VAL00.0420.00712.402-0.976-0.9760.0000.0000.0000.000
39A81ASP-1-0.861-0.94713.54719.06219.0620.0000.0000.0000.000
40A82VAL0-0.004-0.0049.980-1.161-1.1610.0000.0000.0000.000
41A83ALA00.0670.04713.415-1.075-1.0750.0000.0000.0000.000
42A84LEU00.0040.01316.359-1.317-1.3170.0000.0000.0000.000
43A85HIS0-0.071-0.06516.301-2.090-2.0900.0000.0000.0000.000
44A86LEU00.0200.03015.038-0.843-0.8430.0000.0000.0000.000
45A87GLY00.0540.03117.776-0.875-0.8750.0000.0000.0000.000
46A88ILE0-0.040-0.02620.872-0.907-0.9070.0000.0000.0000.000
47A89ALA0-0.039-0.02119.838-0.700-0.7000.0000.0000.0000.000
48A90TYR0-0.031-0.04018.658-0.425-0.4250.0000.0000.0000.000
49A91VAL0-0.0020.00423.061-0.635-0.6350.0000.0000.0000.000
50A92LYS10.8560.92725.389-11.816-11.8160.0000.0000.0000.000
51A93THR0-0.051-0.03224.030-0.244-0.2440.0000.0000.0000.000
52A94GLY00.0040.00926.820-0.202-0.2020.0000.0000.0000.000
53A95ALA0-0.0040.01124.714-0.266-0.2660.0000.0000.0000.000
54A96VAL0-0.002-0.02125.6570.4450.4450.0000.0000.0000.000
55A97ASP-1-0.869-0.92727.31110.54610.5460.0000.0000.0000.000
56A98ARG10.8970.94419.133-15.138-15.1380.0000.0000.0000.000
57A99GLY00.023-0.00322.7740.5630.5630.0000.0000.0000.000
58A100THR0-0.027-0.03123.3620.2440.2440.0000.0000.0000.000
59A101GLU-1-0.950-0.94722.07613.78513.7850.0000.0000.0000.000
60A102LEU00.0190.01317.4210.2970.2970.0000.0000.0000.000
61A103LEU0-0.057-0.02120.9660.3170.3170.0000.0000.0000.000
62A104GLU-1-0.810-0.88323.07811.07411.0740.0000.0000.0000.000
63A105ARG10.8190.90317.664-16.748-16.7480.0000.0000.0000.000
64A106SER0-0.018-0.04619.5230.5830.5830.0000.0000.0000.000
65A107LEU0-0.082-0.04320.738-0.046-0.0460.0000.0000.0000.000
66A108ALA0-0.024-0.00423.732-0.264-0.2640.0000.0000.0000.000
67A109ASP-1-0.857-0.91019.54515.59515.5950.0000.0000.0000.000
68A110ALA0-0.034-0.01120.4050.2840.2840.0000.0000.0000.000
69A111PRO0-0.015-0.00822.380-0.306-0.3060.0000.0000.0000.000
70A112ASP-1-0.925-0.95723.95513.13213.1320.0000.0000.0000.000
71A113ASN00.0070.00020.890-0.563-0.5630.0000.0000.0000.000
72A114VAL00.0640.02324.703-0.220-0.2200.0000.0000.0000.000
73A115LYS10.8940.96421.019-15.068-15.0680.0000.0000.0000.000
74A116VAL00.0290.01121.513-0.133-0.1330.0000.0000.0000.000
75A117ALA00.0780.04324.390-0.332-0.3320.0000.0000.0000.000
76A118THR0-0.075-0.04227.945-0.535-0.5350.0000.0000.0000.000
77A119VAL0-0.037-0.02224.527-0.401-0.4010.0000.0000.0000.000
78A120LEU00.0280.05026.801-0.207-0.2070.0000.0000.0000.000
79A121GLY00.0410.01028.417-0.356-0.3560.0000.0000.0000.000
80A122LEU0-0.056-0.05231.129-0.335-0.3350.0000.0000.0000.000
81A123THR0-0.039-0.02928.780-0.239-0.2390.0000.0000.0000.000
82A124TYR0-0.043-0.06430.017-0.250-0.2500.0000.0000.0000.000
83A125VAL0-0.021-0.00233.662-0.303-0.3030.0000.0000.0000.000
84A126GLN0-0.090-0.03833.282-0.397-0.3970.0000.0000.0000.000
85A127VAL0-0.025-0.01332.979-0.131-0.1310.0000.0000.0000.000
86A128GLN00.0060.01835.859-0.259-0.2590.0000.0000.0000.000
87A129LYS10.9630.99932.687-9.740-9.7400.0000.0000.0000.000
88A130TYR00.020-0.02836.8910.2510.2510.0000.0000.0000.000
89A131ASP-1-0.882-0.94839.0758.1648.1640.0000.0000.0000.000
90A132LEU00.0050.01333.4750.0700.0700.0000.0000.0000.000
91A133ALA0-0.021-0.01134.6830.1880.1880.0000.0000.0000.000
92A134VAL00.0240.01935.7630.1020.1020.0000.0000.0000.000
93A135PRO00.0210.00335.8360.0170.0170.0000.0000.0000.000
94A136LEU00.0030.01430.3390.0440.0440.0000.0000.0000.000
95A137LEU0-0.012-0.02433.5510.1180.1180.0000.0000.0000.000
96A138ILE0-0.026-0.00935.614-0.049-0.0490.0000.0000.0000.000
97A139LYS10.9700.98833.699-9.463-9.4630.0000.0000.0000.000
98A140VAL00.0250.01931.0370.0260.0260.0000.0000.0000.000
99A141ALA0-0.040-0.03133.728-0.015-0.0150.0000.0000.0000.000
100A142GLU-1-0.943-0.95537.1637.9007.9000.0000.0000.0000.000
101A143ALA0-0.004-0.00332.842-0.008-0.0080.0000.0000.0000.000
102A144ASN0-0.074-0.04931.730-0.069-0.0690.0000.0000.0000.000
103A145PRO00.0570.03934.882-0.055-0.0550.0000.0000.0000.000
104A146ILE00.0210.00535.654-0.256-0.2560.0000.0000.0000.000
105A147ASN0-0.047-0.02132.753-0.207-0.2070.0000.0000.0000.000
106A148PHE00.0380.01336.466-0.071-0.0710.0000.0000.0000.000
107A149ASN0-0.008-0.01134.139-0.363-0.3630.0000.0000.0000.000
108A150VAL00.0200.01433.561-0.078-0.0780.0000.0000.0000.000
109A151ARG10.9520.99636.574-7.934-7.9340.0000.0000.0000.000
110A152PHE00.010-0.01040.070-0.150-0.1500.0000.0000.0000.000
111A153ARG10.9210.95936.668-8.676-8.6760.0000.0000.0000.000
112A154LEU00.0400.03938.970-0.069-0.0690.0000.0000.0000.000
113A155GLY00.0380.02340.229-0.140-0.1400.0000.0000.0000.000
114A156VAL0-0.031-0.03341.716-0.151-0.1510.0000.0000.0000.000
115A157ALA00.0060.01539.837-0.117-0.1170.0000.0000.0000.000
116A158LEU00.002-0.00241.980-0.094-0.0940.0000.0000.0000.000
117A159LYS10.9210.96344.647-6.491-6.4910.0000.0000.0000.000
118A160ASN0-0.074-0.04044.006-0.197-0.1970.0000.0000.0000.000
119A161LEU0-0.040-0.01742.181-0.076-0.0760.0000.0000.0000.000
120A162GLY00.0250.01646.420-0.091-0.0910.0000.0000.0000.000
121A163ARG10.8470.92444.412-7.312-7.3120.0000.0000.0000.000
122A164PHE00.014-0.00949.0980.1020.1020.0000.0000.0000.000
123A165ASP-1-0.799-0.91351.1136.0986.0980.0000.0000.0000.000
124A166GLU-1-0.794-0.88745.8337.0927.0920.0000.0000.0000.000
125A167ALA0-0.029-0.01746.5960.1170.1170.0000.0000.0000.000
126A168ILE0-0.006-0.01247.6730.0870.0870.0000.0000.0000.000
127A169ASP-1-0.816-0.90248.1486.4656.4650.0000.0000.0000.000
128A170SER0-0.029-0.02743.7450.1590.1590.0000.0000.0000.000
129A171PHE00.003-0.01544.8040.1630.1630.0000.0000.0000.000
130A172LYS10.9100.96347.112-6.270-6.2700.0000.0000.0000.000
131A173ILE00.0020.01643.5650.0230.0230.0000.0000.0000.000
132A174ALA0-0.040-0.03143.8200.0610.0610.0000.0000.0000.000
133A175LEU0-0.029-0.02844.7640.0510.0510.0000.0000.0000.000
134A176GLY00.0150.01647.753-0.088-0.0880.0000.0000.0000.000
135A177LEU0-0.064-0.01640.7930.0360.0360.0000.0000.0000.000
136A178ARG10.8980.95038.648-8.005-8.0050.0000.0000.0000.000
137A179PRO00.0680.03645.849-0.038-0.0380.0000.0000.0000.000
138A180ASN00.0100.01048.646-0.199-0.1990.0000.0000.0000.000
139A181GLU-1-0.783-0.87143.1177.5437.5430.0000.0000.0000.000
140A182GLY00.0680.03647.584-0.057-0.0570.0000.0000.0000.000
141A183LYS10.8290.89341.850-7.713-7.7130.0000.0000.0000.000
142A184VAL0-0.017-0.00845.2140.0100.0100.0000.0000.0000.000
143A185HIS10.8210.90447.869-6.358-6.3580.0000.0000.0000.000
144A186ARG10.8540.89050.579-6.224-6.2240.0000.0000.0000.000
145A187ALA0-0.0050.01047.828-0.067-0.0670.0000.0000.0000.000
146A188ILE0-0.034-0.01149.803-0.028-0.0280.0000.0000.0000.000
147A189ALA00.0050.01351.517-0.090-0.0900.0000.0000.0000.000
148A190PHE00.0440.01251.426-0.058-0.0580.0000.0000.0000.000
149A191SER0-0.105-0.05850.784-0.013-0.0130.0000.0000.0000.000
150A192TYR00.018-0.00453.1360.0090.0090.0000.0000.0000.000
151A193GLU-1-0.899-0.94956.3585.5275.5270.0000.0000.0000.000
152A194GLN0-0.068-0.02954.360-0.058-0.0580.0000.0000.0000.000
153A195MET0-0.073-0.01155.588-0.008-0.0080.0000.0000.0000.000
154A196GLY00.0230.02158.421-0.079-0.0790.0000.0000.0000.000
155A197ARG10.7480.84555.887-5.794-5.7940.0000.0000.0000.000
156A198HIS00.0480.00360.3220.1180.1180.0000.0000.0000.000
157A199GLU-1-0.932-0.96262.2324.9204.9200.0000.0000.0000.000
158A200GLU-1-0.792-0.87658.6125.5965.5960.0000.0000.0000.000
159A201ALA0-0.001-0.00757.6660.0910.0910.0000.0000.0000.000
160A202LEU00.0010.01358.4000.0690.0690.0000.0000.0000.000
161A203PRO00.019-0.00559.2810.0250.0250.0000.0000.0000.000
162A204HIS00.0360.03953.9980.1300.1300.0000.0000.0000.000
163A205PHE00.0270.00755.9060.0820.0820.0000.0000.0000.000
164A206LYS10.9320.96657.606-5.045-5.0450.0000.0000.0000.000
165A207LYS10.8270.89855.046-5.648-5.6480.0000.0000.0000.000
166A208ALA0-0.050-0.02853.3130.0730.0730.0000.0000.0000.000
167A209ASN00.023-0.00154.3870.1530.1530.0000.0000.0000.000
168A210GLU-1-0.762-0.81457.0525.6075.6070.0000.0000.0000.000
169A211LEU0-0.043-0.04851.3570.0550.0550.0000.0000.0000.000
170A212ASP-1-0.853-0.88152.5726.2686.2680.0000.0000.0000.000
171A213GLU-1-0.987-0.99154.0425.4385.4380.0000.0000.0000.000
172A214GLY0-0.0070.01354.164-0.002-0.0020.0000.0000.0000.000
173A215ALA0-0.088-0.07054.719-0.066-0.0660.0000.0000.0000.000
174A216SER00.0180.00956.251-0.108-0.1080.0000.0000.0000.000
175A217VAL00.046-0.00458.4890.0050.0050.0000.0000.0000.000
176A218GLU-1-0.869-0.92359.8075.4015.4010.0000.0000.0000.000
177A219LEU00.002-0.00755.687-0.012-0.0120.0000.0000.0000.000
178A220ALA0-0.036-0.00459.8140.0180.0180.0000.0000.0000.000
179A221LEU0-0.053-0.03062.279-0.064-0.0640.0000.0000.0000.000
180A222VAL0-0.0130.01158.477-0.037-0.0370.0000.0000.0000.000
181A223PRO0-0.0200.00559.5980.0770.0770.0000.0000.0000.000
182A224ARG10.9310.95354.731-5.599-5.5990.0000.0000.0000.000