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: NNJ9Q

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 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 182
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -1750260.224494
FMO2-HF: Nuclear repulsion 1680714.845692
FMO2-HF: Total energy -69545.378803
FMO2-MP2: Total energy -69752.933231


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.
-43.887-38.8850.252-2.224-3.0310.01
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 : -0.832 / 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].
3A45ARG10.8980.9493.791-34.694-32.918-0.010-0.801-0.9650.002
4A46GLN00.0470.0152.890-10.726-9.3520.132-0.562-0.9450.003
5A47VAL00.0560.0193.327-7.742-5.8900.130-0.861-1.1210.005
6A48TYR0-0.0040.0035.822-7.343-7.3430.0000.0000.0000.000
7A49TYR00.006-0.0107.874-4.815-4.8150.0000.0000.0000.000
8A50ARG10.9230.9687.675-34.901-34.9010.0000.0000.0000.000
9A51ASP-1-0.882-0.9339.71628.57328.5730.0000.0000.0000.000
10A52LYS10.8940.94211.772-21.017-21.0170.0000.0000.0000.000
11A53GLY00.0340.01512.977-1.975-1.9750.0000.0000.0000.000
12A54ILE00.0300.00212.625-2.005-2.0050.0000.0000.0000.000
13A55SER0-0.050-0.02515.582-1.801-1.8010.0000.0000.0000.000
14A56HIS0-0.042-0.02717.173-1.563-1.5630.0000.0000.0000.000
15A57ALA00.0200.01518.375-1.026-1.0260.0000.0000.0000.000
16A58LYS10.8930.94917.690-18.468-18.4680.0000.0000.0000.000
17A59ALA0-0.036-0.00921.713-0.683-0.6830.0000.0000.0000.000
18A60GLY00.0170.01823.633-0.623-0.6230.0000.0000.0000.000
19A61ARG10.8730.93921.388-14.442-14.4420.0000.0000.0000.000
20A62TYR00.0610.01521.3960.5010.5010.0000.0000.0000.000
21A63SER00.0720.03221.3570.4880.4880.0000.0000.0000.000
22A64GLN0-0.009-0.01019.043-0.037-0.0370.0000.0000.0000.000
23A65ALA0-0.001-0.00317.2780.9510.9510.0000.0000.0000.000
24A66VAL00.0460.02716.4511.1351.1350.0000.0000.0000.000
25A67MET0-0.020-0.00516.5520.5280.5280.0000.0000.0000.000
26A68LEU0-0.062-0.02812.6800.7210.7210.0000.0000.0000.000
27A69LEU00.0090.00711.8911.7891.7890.0000.0000.0000.000
28A70GLU-1-0.835-0.88712.59817.38617.3860.0000.0000.0000.000
29A71GLN0-0.107-0.05310.0271.3141.3140.0000.0000.0000.000
30A72VAL0-0.048-0.0327.3721.9661.9660.0000.0000.0000.000
31A73TYR0-0.034-0.0188.9731.6781.6780.0000.0000.0000.000
32A74ASP-1-0.831-0.91810.12226.26126.2610.0000.0000.0000.000
33A75ALA0-0.065-0.02812.162-0.182-0.1820.0000.0000.0000.000
34A76ASP-1-0.922-0.95113.54218.37518.3750.0000.0000.0000.000
35A77ALA0-0.052-0.02210.400-0.382-0.3820.0000.0000.0000.000
36A78PHE0-0.015-0.00111.4671.3931.3930.0000.0000.0000.000
37A79ASP-1-0.749-0.8829.69431.37931.3790.0000.0000.0000.000
38A80VAL00.0390.00712.437-1.052-1.0520.0000.0000.0000.000
39A81ASP-1-0.934-0.97513.73719.24419.2440.0000.0000.0000.000
40A82VAL0-0.026-0.01710.144-1.227-1.2270.0000.0000.0000.000
41A83ALA00.0710.05013.597-1.078-1.0780.0000.0000.0000.000
42A84LEU00.0160.01416.496-1.342-1.3420.0000.0000.0000.000
43A85HIS0-0.055-0.05416.572-1.853-1.8530.0000.0000.0000.000
44A86LEU00.0170.03115.185-0.871-0.8710.0000.0000.0000.000
45A87GLY00.0510.02817.998-0.860-0.8600.0000.0000.0000.000
46A88ILE0-0.042-0.02821.057-0.908-0.9080.0000.0000.0000.000
47A89ALA0-0.041-0.01920.096-0.697-0.6970.0000.0000.0000.000
48A90TYR0-0.040-0.05218.976-0.406-0.4060.0000.0000.0000.000
49A91VAL0-0.0040.00423.286-0.648-0.6480.0000.0000.0000.000
50A92LYS10.8500.92325.639-11.726-11.7260.0000.0000.0000.000
51A93THR0-0.047-0.02724.121-0.250-0.2500.0000.0000.0000.000
52A94GLY00.0030.00627.084-0.200-0.2000.0000.0000.0000.000
53A95ALA0-0.0010.01424.938-0.255-0.2550.0000.0000.0000.000
54A96VAL00.015-0.01125.8440.4400.4400.0000.0000.0000.000
55A97ASP-1-0.869-0.92727.46910.52910.5290.0000.0000.0000.000
56A98ARG10.9560.98819.512-14.894-14.8940.0000.0000.0000.000
57A99GLY00.013-0.00722.9400.5550.5550.0000.0000.0000.000
58A100THR0-0.058-0.04623.5040.2960.2960.0000.0000.0000.000
59A101GLU-1-0.916-0.93522.64513.52613.5260.0000.0000.0000.000
60A102LEU00.0170.01017.5980.3110.3110.0000.0000.0000.000
61A103LEU0-0.064-0.03221.0510.3180.3180.0000.0000.0000.000
62A104GLU-1-0.812-0.88723.18711.09611.0960.0000.0000.0000.000
63A105ARG10.9320.98217.675-16.440-16.4400.0000.0000.0000.000
64A106SER0-0.018-0.04119.4820.6190.6190.0000.0000.0000.000
65A107LEU0-0.086-0.04520.787-0.044-0.0440.0000.0000.0000.000
66A108ALA0-0.032-0.00523.638-0.258-0.2580.0000.0000.0000.000
67A109ASP-1-0.913-0.95219.50915.64315.6430.0000.0000.0000.000
68A110ALA0-0.044-0.01820.4560.2970.2970.0000.0000.0000.000
69A111PRO0-0.006-0.00122.379-0.330-0.3300.0000.0000.0000.000
70A112ASP-1-0.917-0.95723.88313.06913.0690.0000.0000.0000.000
71A113ASN0-0.001-0.00320.968-0.623-0.6230.0000.0000.0000.000
72A114VAL00.0690.02624.776-0.224-0.2240.0000.0000.0000.000
73A115LYS10.9230.98621.936-14.542-14.5420.0000.0000.0000.000
74A116VAL00.0200.00721.614-0.137-0.1370.0000.0000.0000.000
75A117ALA00.0800.04624.518-0.327-0.3270.0000.0000.0000.000
76A118THR0-0.082-0.05728.095-0.529-0.5290.0000.0000.0000.000
77A119VAL0-0.024-0.01224.748-0.398-0.3980.0000.0000.0000.000
78A120LEU00.0270.08726.942-0.210-0.2100.0000.0000.0000.000
79A121GLY00.0380.01228.558-0.356-0.3560.0000.0000.0000.000
80A122LEU0-0.053-0.05531.111-0.341-0.3410.0000.0000.0000.000
81A123THR0-0.052-0.07329.014-0.203-0.2030.0000.0000.0000.000
82A124TYR0-0.029-0.05730.026-0.246-0.2460.0000.0000.0000.000
83A125VAL0-0.035-0.00733.813-0.302-0.3020.0000.0000.0000.000
84A126GLN0-0.091-0.03833.206-0.481-0.4810.0000.0000.0000.000
85A127VAL0-0.023-0.01033.014-0.127-0.1270.0000.0000.0000.000
86A128GLN00.0320.05236.036-0.225-0.2250.0000.0000.0000.000
87A129LYS10.9750.99933.481-9.491-9.4910.0000.0000.0000.000
88A130TYR0-0.003-0.05637.0140.2580.2580.0000.0000.0000.000
89A131ASP-1-0.898-0.95639.1898.0698.0690.0000.0000.0000.000
90A132LEU00.0050.01333.4390.0590.0590.0000.0000.0000.000
91A133ALA0-0.019-0.00734.8000.1860.1860.0000.0000.0000.000
92A134VAL00.0160.01235.8810.0970.0970.0000.0000.0000.000
93A135PRO00.0280.00435.8220.0140.0140.0000.0000.0000.000
94A136LEU00.0000.01230.2220.0530.0530.0000.0000.0000.000
95A137LEU0-0.012-0.02533.8990.1110.1110.0000.0000.0000.000
96A138ILE0-0.014-0.00235.733-0.039-0.0390.0000.0000.0000.000
97A139LYS10.9780.99033.607-9.356-9.3560.0000.0000.0000.000
98A140VAL00.0160.01831.1740.0240.0240.0000.0000.0000.000
99A141ALA0-0.042-0.03233.837-0.019-0.0190.0000.0000.0000.000
100A142GLU-1-0.959-0.96337.2877.8907.8900.0000.0000.0000.000
101A143ALA00.0040.00032.940-0.012-0.0120.0000.0000.0000.000
102A144ASN0-0.057-0.03632.311-0.092-0.0920.0000.0000.0000.000
103A145PRO00.0620.04035.045-0.079-0.0790.0000.0000.0000.000
104A146ILE00.0130.00636.110-0.258-0.2580.0000.0000.0000.000
105A147ASN0-0.042-0.02732.947-0.199-0.1990.0000.0000.0000.000
106A148PHE00.0440.01036.646-0.059-0.0590.0000.0000.0000.000
107A149ASN0-0.017-0.01334.498-0.371-0.3710.0000.0000.0000.000
108A150VAL00.0020.00333.922-0.067-0.0670.0000.0000.0000.000
109A151ARG10.9560.99236.749-7.873-7.8730.0000.0000.0000.000
110A152PHE00.028-0.00840.236-0.132-0.1320.0000.0000.0000.000
111A153ARG10.9120.95936.730-8.579-8.5790.0000.0000.0000.000
112A154LEU00.0330.03739.145-0.065-0.0650.0000.0000.0000.000
113A155GLY00.0430.02440.381-0.136-0.1360.0000.0000.0000.000
114A156VAL0-0.040-0.03641.894-0.146-0.1460.0000.0000.0000.000
115A157ALA00.0020.00739.973-0.110-0.1100.0000.0000.0000.000
116A158LEU00.014-0.00142.132-0.084-0.0840.0000.0000.0000.000
117A159LYS10.9560.98044.782-6.511-6.5110.0000.0000.0000.000
118A160ASN0-0.072-0.03444.217-0.187-0.1870.0000.0000.0000.000
119A161LEU0-0.050-0.02442.275-0.075-0.0750.0000.0000.0000.000
120A162GLY00.0230.02146.547-0.087-0.0870.0000.0000.0000.000
121A163ARG10.9170.97143.376-7.333-7.3330.0000.0000.0000.000
122A164PHE00.010-0.01249.2250.0980.0980.0000.0000.0000.000
123A165ASP-1-0.880-0.94351.2526.1546.1540.0000.0000.0000.000
124A166GLU-1-0.821-0.91446.1517.0357.0350.0000.0000.0000.000
125A167ALA0-0.051-0.02746.7380.1210.1210.0000.0000.0000.000
126A168ILE0-0.020-0.02347.8180.0780.0780.0000.0000.0000.000
127A169ASP-1-0.869-0.92348.4256.4566.4560.0000.0000.0000.000
128A170SER0-0.026-0.02743.9210.1690.1690.0000.0000.0000.000
129A171PHE0-0.001-0.01745.0500.1610.1610.0000.0000.0000.000
130A172LYS10.9861.00447.283-6.135-6.1350.0000.0000.0000.000
131A173ILE00.0060.01743.7070.0220.0220.0000.0000.0000.000
132A174ALA0-0.040-0.02843.9860.0590.0590.0000.0000.0000.000
133A175LEU0-0.038-0.03944.9460.0370.0370.0000.0000.0000.000
134A176GLY00.0130.01847.907-0.090-0.0900.0000.0000.0000.000
135A177LEU0-0.064-0.01240.9780.0380.0380.0000.0000.0000.000
136A178ARG10.9220.95638.567-7.992-7.9920.0000.0000.0000.000
137A179PRO00.0640.04046.067-0.041-0.0410.0000.0000.0000.000
138A180ASN00.003-0.01448.862-0.209-0.2090.0000.0000.0000.000
139A181GLU-1-0.892-0.94044.3737.3957.3950.0000.0000.0000.000
140A182GLY00.0690.02947.823-0.058-0.0580.0000.0000.0000.000
141A183LYS10.9240.96640.931-7.856-7.8560.0000.0000.0000.000
142A184VAL0-0.019-0.01345.5640.0180.0180.0000.0000.0000.000
143A185HIS10.8260.91448.082-6.323-6.3230.0000.0000.0000.000
144A186ARG10.9550.98450.755-6.221-6.2210.0000.0000.0000.000
145A187ALA0-0.019-0.00448.053-0.066-0.0660.0000.0000.0000.000
146A188ILE0-0.036-0.01750.005-0.025-0.0250.0000.0000.0000.000
147A189ALA00.0100.01851.704-0.086-0.0860.0000.0000.0000.000
148A190PHE00.017-0.00551.731-0.051-0.0510.0000.0000.0000.000
149A191SER0-0.051-0.02750.971-0.014-0.0140.0000.0000.0000.000
150A192TYR00.019-0.00753.304-0.003-0.0030.0000.0000.0000.000
151A193GLU-1-0.911-0.95556.5235.4605.4600.0000.0000.0000.000
152A194GLN0-0.062-0.02654.378-0.063-0.0630.0000.0000.0000.000
153A195MET0-0.050-0.00955.705-0.007-0.0070.0000.0000.0000.000
154A196GLY00.0210.02058.563-0.078-0.0780.0000.0000.0000.000
155A197ARG10.7790.86156.147-5.740-5.7400.0000.0000.0000.000
156A198HIS00.0490.00360.4920.1110.1110.0000.0000.0000.000
157A199GLU-1-0.924-0.95962.4174.9224.9220.0000.0000.0000.000
158A200GLU-1-0.804-0.87658.8245.5315.5310.0000.0000.0000.000
159A201ALA0-0.005-0.00157.8520.0920.0920.0000.0000.0000.000
160A202LEU00.0010.00958.6010.0720.0720.0000.0000.0000.000
161A203PRO00.0290.00159.3750.0220.0220.0000.0000.0000.000
162A204HIS00.0350.04353.7980.1260.1260.0000.0000.0000.000
163A205PHE00.0130.00056.1280.0880.0880.0000.0000.0000.000
164A206LYS10.9340.96457.840-5.020-5.0200.0000.0000.0000.000
165A207LYS10.9230.98154.566-5.852-5.8520.0000.0000.0000.000
166A208ALA0-0.054-0.03753.5590.0740.0740.0000.0000.0000.000
167A209ASN00.015-0.00954.6400.1390.1390.0000.0000.0000.000
168A210GLU-1-0.831-0.89457.3055.5575.5570.0000.0000.0000.000
169A211LEU0-0.088-0.06151.2100.0450.0450.0000.0000.0000.000
170A212ASP-1-0.905-0.93552.6086.2656.2650.0000.0000.0000.000
171A213GLU-1-0.995-0.99554.3155.3995.3990.0000.0000.0000.000
172A214GLY0-0.0110.01054.447-0.001-0.0010.0000.0000.0000.000
173A215ALA0-0.087-0.06855.029-0.062-0.0620.0000.0000.0000.000
174A216SER00.0240.03556.530-0.092-0.0920.0000.0000.0000.000
175A217VAL00.0710.01358.7540.0120.0120.0000.0000.0000.000
176A218GLU-1-0.917-0.95460.9765.2925.2920.0000.0000.0000.000
177A219LEU0-0.008-0.01055.823-0.005-0.0050.0000.0000.0000.000
178A220ALA0-0.043-0.00760.1280.0180.0180.0000.0000.0000.000
179A221LEU0-0.051-0.02962.644-0.063-0.0630.0000.0000.0000.000
180A222VAL0-0.0130.00858.959-0.038-0.0380.0000.0000.0000.000
181A223PRO0-0.030-0.01760.0720.0770.0770.0000.0000.0000.000
182A224ARG10.9410.97655.054-5.586-5.5860.0000.0000.0000.000