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: 1NLNZ

Calculation Name: 2ASB-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2ASB

Chain ID: A

ChEMBL ID:

UniProt ID: P9WIV3

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 226
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2376307.261688
FMO2-HF: Nuclear repulsion 2292662.572425
FMO2-HF: Total energy -83644.689263
FMO2-MP2: Total energy -83891.607121


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:108:SER)


Summations of interaction energy for fragment #1(A:108:SER)
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.
-39.401-49.18442.777-20.07-12.926-0.064
Interaction energy analysis for fragmet #1(A:108:SER)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.032 / q_NPA : 0.018
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].
3A110ARG10.9160.9553.7213.0125.6700.006-1.479-1.1850.004
4A111GLU-1-0.926-0.9656.255-0.348-0.3480.0000.0000.0000.000
5A112GLY00.0480.0219.386-0.228-0.2280.0000.0000.0000.000
6A113GLU-1-0.875-0.9177.961-2.071-2.0710.0000.0000.0000.000
7A114ILE0-0.025-0.01211.0070.2840.2840.0000.0000.0000.000
8A115VAL00.0150.0077.277-0.276-0.2760.0000.0000.0000.000
9A116ALA0-0.022-0.00710.2870.2400.2400.0000.0000.0000.000
10A117GLY00.015-0.00310.7590.0020.0020.0000.0000.0000.000
11A118VAL0-0.098-0.04312.881-0.057-0.0570.0000.0000.0000.000
12A119ILE0-0.0050.02915.1440.1060.1060.0000.0000.0000.000
13A120GLN0-0.034-0.01813.829-0.027-0.0270.0000.0000.0000.000
14A121ARG10.9470.96917.984-0.276-0.2760.0000.0000.0000.000
15A122ASP-1-0.798-0.89818.7320.5800.5800.0000.0000.0000.000
16A123SER0-0.045-0.02020.970-0.014-0.0140.0000.0000.0000.000
17A124ARG10.9930.98822.648-0.391-0.3910.0000.0000.0000.000
18A125ALA00.0020.00219.016-0.024-0.0240.0000.0000.0000.000
19A126ASN00.010-0.01920.689-0.037-0.0370.0000.0000.0000.000
20A127ALA00.0030.02023.072-0.028-0.0280.0000.0000.0000.000
21A128ARG10.8880.94919.394-0.452-0.4520.0000.0000.0000.000
22A129GLY00.0210.01123.946-0.007-0.0070.0000.0000.0000.000
23A130LEU0-0.061-0.01018.240-0.009-0.0090.0000.0000.0000.000
24A131VAL00.0360.01917.3830.0000.0000.0000.0000.0000.000
25A132VAL00.0180.02114.0200.0210.0210.0000.0000.0000.000
26A133VAL00.001-0.00112.413-0.083-0.0830.0000.0000.0000.000
27A134ARG10.9781.00411.182-0.454-0.4540.0000.0000.0000.000
28A135ILE00.000-0.0306.258-0.280-0.2800.0000.0000.0000.000
29A136GLY00.003-0.0195.3030.5810.5810.0000.0000.0000.000
30A137THR0-0.056-0.0225.0050.4640.4640.0000.0000.0000.000
31A138GLU-1-0.799-0.9041.987-28.785-28.39512.981-6.829-6.541-0.074
32A139THR0-0.060-0.0781.690-3.751-17.47429.773-11.573-4.4770.004
33A140LYS10.9220.9623.425-8.794-8.3270.020-0.128-0.3590.002
34A141ALA0-0.016-0.0075.5310.7100.7100.0000.0000.0000.000
35A142SER00.0310.0284.7710.1170.196-0.001-0.003-0.0750.000
36A143GLU-1-0.882-0.9387.0030.4310.4310.0000.0000.0000.000
37A144GLY00.0100.0198.4330.3640.3640.0000.0000.0000.000
38A145VAL0-0.027-0.01610.138-0.136-0.1360.0000.0000.0000.000
39A146ILE00.0110.01213.706-0.046-0.0460.0000.0000.0000.000
40A147PRO00.0210.00015.7100.0020.0020.0000.0000.0000.000
41A148ALA00.0630.02318.823-0.036-0.0360.0000.0000.0000.000
42A149ALA0-0.025-0.01021.538-0.021-0.0210.0000.0000.0000.000
43A150GLU-1-0.883-0.90817.371-0.049-0.0490.0000.0000.0000.000
44A151GLN0-0.066-0.03920.010-0.034-0.0340.0000.0000.0000.000
45A152VAL0-0.009-0.00821.926-0.016-0.0160.0000.0000.0000.000
46A153PRO00.012-0.00224.5720.0140.0140.0000.0000.0000.000
47A154GLY0-0.005-0.00327.987-0.014-0.0140.0000.0000.0000.000
48A155GLU-1-0.780-0.80322.009-0.033-0.0330.0000.0000.0000.000
49A156SER0-0.039-0.03525.6680.0220.0220.0000.0000.0000.000
50A157TYR00.000-0.06420.1680.0010.0010.0000.0000.0000.000
51A158GLU-1-0.865-0.90522.4200.1410.1410.0000.0000.0000.000
52A159HIS00.0330.00820.6270.0200.0200.0000.0000.0000.000
53A160GLY0-0.015-0.01220.224-0.021-0.0210.0000.0000.0000.000
54A161ASN00.0070.01320.807-0.026-0.0260.0000.0000.0000.000
55A162ARG10.9110.95214.3400.0740.0740.0000.0000.0000.000
56A163LEU00.0150.01515.933-0.015-0.0150.0000.0000.0000.000
57A164ARG10.8180.88614.5390.3360.3360.0000.0000.0000.000
58A165CYS0-0.0080.01412.8130.0880.0880.0000.0000.0000.000
59A166TYR00.0430.02612.883-0.167-0.1670.0000.0000.0000.000
60A167VAL00.0030.0027.6960.2080.2080.0000.0000.0000.000
61A168VAL0-0.004-0.01411.096-0.137-0.1370.0000.0000.0000.000
62A169GLY00.0460.02210.459-0.077-0.0770.0000.0000.0000.000
63A170VAL0-0.0160.0123.7750.1660.3120.000-0.035-0.1120.000
64A171THR0-0.022-0.0147.237-0.443-0.4430.0000.0000.0000.000
65A172ARG10.9770.9858.1220.1730.1730.0000.0000.0000.000
66A173GLY00.0660.0479.008-0.218-0.2180.0000.0000.0000.000
67A174ALA0-0.033-0.02611.690-0.132-0.1320.0000.0000.0000.000
68A175ARG10.9160.95012.626-1.135-1.1350.0000.0000.0000.000
69A176GLU-1-0.877-0.9418.7271.9471.9470.0000.0000.0000.000
70A177PRO0-0.073-0.0394.517-0.830-0.747-0.001-0.008-0.0750.000
71A178LEU00.0230.0317.3030.3970.3970.0000.0000.0000.000
72A179ILE00.0180.0094.092-0.238-0.121-0.001-0.015-0.1020.000
73A180THR0-0.039-0.0238.351-0.205-0.2050.0000.0000.0000.000
74A181LEU0-0.004-0.0119.415-0.159-0.1590.0000.0000.0000.000
75A182SER0-0.020-0.05013.0330.0170.0170.0000.0000.0000.000
76A183ARG10.7750.81716.4420.0260.0260.0000.0000.0000.000
77A184THR00.0270.02519.096-0.033-0.0330.0000.0000.0000.000
78A185HIS00.0510.03918.066-0.037-0.0370.0000.0000.0000.000
79A186PRO00.0520.01120.251-0.020-0.0200.0000.0000.0000.000
80A187ASN00.003-0.02217.3820.0190.0190.0000.0000.0000.000
81A188LEU0-0.0230.00616.542-0.070-0.0700.0000.0000.0000.000
82A189VAL00.0270.01418.756-0.021-0.0210.0000.0000.0000.000
83A190ARG10.8770.93320.0970.3560.3560.0000.0000.0000.000
84A191LYS10.8800.92412.8961.1571.1570.0000.0000.0000.000
85A192LEU00.0050.00817.987-0.034-0.0340.0000.0000.0000.000
86A193PHE00.029-0.00219.6230.0150.0150.0000.0000.0000.000
87A194SER0-0.016-0.00418.376-0.012-0.0120.0000.0000.0000.000
88A195LEU0-0.058-0.02714.810-0.012-0.0120.0000.0000.0000.000
89A196GLU-1-0.854-0.91718.972-0.285-0.2850.0000.0000.0000.000
90A197VAL0-0.060-0.02022.5370.0410.0410.0000.0000.0000.000
91A198PRO00.0080.00922.829-0.029-0.0290.0000.0000.0000.000
92A199GLU-1-0.722-0.86223.906-0.321-0.3210.0000.0000.0000.000
93A200ILE0-0.076-0.03722.0240.0020.0020.0000.0000.0000.000
94A201ALA0-0.052-0.02519.424-0.031-0.0310.0000.0000.0000.000
95A202ASP-1-0.901-0.92320.712-0.452-0.4520.0000.0000.0000.000
96A203GLY00.0070.01323.1960.0080.0080.0000.0000.0000.000
97A204SER0-0.036-0.04124.5300.0380.0380.0000.0000.0000.000
98A205VAL0-0.058-0.03826.9230.0360.0360.0000.0000.0000.000
99A206GLU-1-0.754-0.84325.908-0.357-0.3570.0000.0000.0000.000
100A207ILE0-0.011-0.00923.3550.0300.0300.0000.0000.0000.000
101A208VAL00.0000.01025.932-0.021-0.0210.0000.0000.0000.000
102A209ALA0-0.023-0.01527.7620.0000.0000.0000.0000.0000.000
103A210VAL00.007-0.00424.643-0.001-0.0010.0000.0000.0000.000
104A211ALA0-0.0280.00627.6290.0050.0050.0000.0000.0000.000
105A212ARG10.8220.87621.6280.1500.1500.0000.0000.0000.000
106A213GLU-1-0.792-0.86628.192-0.070-0.0700.0000.0000.0000.000
107A214ALA00.0160.00624.8940.0020.0020.0000.0000.0000.000
108A215GLY00.0530.01526.8540.0170.0170.0000.0000.0000.000
109A216HIS0-0.092-0.02928.2700.0020.0020.0000.0000.0000.000
110A217ARG10.8210.87730.6880.0930.0930.0000.0000.0000.000
111A218SER0-0.011-0.01227.320-0.002-0.0020.0000.0000.0000.000
112A219LYS10.7800.90429.7490.1160.1160.0000.0000.0000.000
113A220ILE0-0.007-0.01326.758-0.010-0.0100.0000.0000.0000.000
114A221ALA00.0100.01729.8740.0130.0130.0000.0000.0000.000
115A222VAL0-0.017-0.01528.615-0.023-0.0230.0000.0000.0000.000
116A223ARG10.8830.91930.2370.2770.2770.0000.0000.0000.000
117A224SER00.0020.00030.568-0.028-0.0280.0000.0000.0000.000
118A225ASN0-0.047-0.02627.5410.0310.0310.0000.0000.0000.000
119A226VAL00.0010.00630.9570.0020.0020.0000.0000.0000.000
120A227ALA00.0230.00433.6680.0110.0110.0000.0000.0000.000
121A228GLY00.0110.00037.4450.0000.0000.0000.0000.0000.000
122A229LEU0-0.0200.01230.9000.0080.0080.0000.0000.0000.000
123A230ASN00.000-0.00235.626-0.004-0.0040.0000.0000.0000.000
124A231ALA00.0800.03231.905-0.006-0.0060.0000.0000.0000.000
125A232LYS10.9150.94931.7250.1410.1410.0000.0000.0000.000
126A233GLY0-0.022-0.02032.9470.0000.0000.0000.0000.0000.000
127A234ALA00.0270.02729.5540.0020.0020.0000.0000.0000.000
128A235CYS0-0.0100.00328.322-0.018-0.0180.0000.0000.0000.000
129A236ILE0-0.018-0.00228.9950.0030.0030.0000.0000.0000.000
130A237GLY00.0500.02430.5130.0000.0000.0000.0000.0000.000
131A238PRO00.0420.00431.2350.0140.0140.0000.0000.0000.000
132A239MET0-0.013-0.00933.2660.0020.0020.0000.0000.0000.000
133A240GLY00.0200.01433.0250.0070.0070.0000.0000.0000.000
134A241GLN0-0.085-0.05328.2320.0080.0080.0000.0000.0000.000
135A242ARG10.8480.90926.5260.2720.2720.0000.0000.0000.000
136A243VAL00.0500.01926.529-0.008-0.0080.0000.0000.0000.000
137A244ARG10.9210.95728.1010.1110.1110.0000.0000.0000.000
138A245ASN00.0110.02224.0880.0400.0400.0000.0000.0000.000
139A246VAL00.0060.01322.958-0.001-0.0010.0000.0000.0000.000
140A247MET0-0.048-0.01824.5610.0160.0160.0000.0000.0000.000
141A248SER0-0.052-0.03725.7800.0210.0210.0000.0000.0000.000
142A249GLU-1-0.777-0.85219.177-0.182-0.1820.0000.0000.0000.000
143A250LEU0-0.051-0.01521.4610.0150.0150.0000.0000.0000.000
144A251SER00.004-0.02124.0580.0170.0170.0000.0000.0000.000
145A252GLY0-0.0040.00326.4200.0140.0140.0000.0000.0000.000
146A253GLU-1-0.786-0.84326.286-0.126-0.1260.0000.0000.0000.000
147A254LYS10.8940.93229.0770.0630.0630.0000.0000.0000.000
148A255ILE00.0330.00226.384-0.007-0.0070.0000.0000.0000.000
149A256ASP-1-0.799-0.85630.759-0.109-0.1090.0000.0000.0000.000
150A257ILE0-0.014-0.01129.768-0.009-0.0090.0000.0000.0000.000
151A258ILE0-0.078-0.02932.8380.0120.0120.0000.0000.0000.000
152A259ASP-1-0.796-0.88733.776-0.177-0.1770.0000.0000.0000.000
153A260TYR0-0.068-0.07133.1590.0070.0070.0000.0000.0000.000
154A261ASP-1-0.797-0.88435.217-0.140-0.1400.0000.0000.0000.000
155A262ASP-1-0.826-0.89836.881-0.189-0.1890.0000.0000.0000.000
156A263ASP-1-0.892-0.94539.027-0.111-0.1110.0000.0000.0000.000
157A264PRO00.005-0.00340.8450.0000.0000.0000.0000.0000.000
158A265ALA00.0130.00841.9130.0010.0010.0000.0000.0000.000
159A266ARG10.8680.91242.8170.1290.1290.0000.0000.0000.000
160A267PHE00.0160.02133.741-0.002-0.0020.0000.0000.0000.000
161A268VAL0-0.003-0.01739.4550.0000.0000.0000.0000.0000.000
162A269ALA0-0.001-0.00541.2940.0030.0030.0000.0000.0000.000
163A270ASN0-0.049-0.02638.8690.0090.0090.0000.0000.0000.000
164A271ALA0-0.007-0.01837.242-0.001-0.0010.0000.0000.0000.000
165A272LEU0-0.0080.00038.1860.0020.0020.0000.0000.0000.000
166A273SER00.0050.03038.9960.0100.0100.0000.0000.0000.000
167A274PRO0-0.008-0.03638.404-0.004-0.0040.0000.0000.0000.000
168A275ALA0-0.0080.01641.3070.0040.0040.0000.0000.0000.000
169A276LYS10.8500.92342.9630.0880.0880.0000.0000.0000.000
170A277VAL00.0020.00045.6950.0030.0030.0000.0000.0000.000
171A278VAL0-0.013-0.00448.511-0.001-0.0010.0000.0000.0000.000
172A279SER0-0.011-0.01650.779-0.002-0.0020.0000.0000.0000.000
173A280VAL00.0290.01645.3940.0010.0010.0000.0000.0000.000
174A281SER0-0.024-0.00248.7510.0000.0000.0000.0000.0000.000
175A282VAL00.0300.01146.342-0.001-0.0010.0000.0000.0000.000
176A283ILE0-0.069-0.03648.6230.0030.0030.0000.0000.0000.000
177A284ASP-1-0.768-0.89747.631-0.077-0.0770.0000.0000.0000.000
178A285GLN0-0.008-0.00946.223-0.007-0.0070.0000.0000.0000.000
179A286THR0-0.043-0.02144.544-0.006-0.0060.0000.0000.0000.000
180A287ALA0-0.051-0.02543.263-0.004-0.0040.0000.0000.0000.000
181A288ARG10.8780.96036.1630.1280.1280.0000.0000.0000.000
182A289ALA0-0.019-0.00542.5990.0000.0000.0000.0000.0000.000
183A290ALA00.0290.00444.8050.0000.0000.0000.0000.0000.000
184A291ARG10.8620.93346.4950.0630.0630.0000.0000.0000.000
185A292VAL0-0.033-0.02545.417-0.002-0.0020.0000.0000.0000.000
186A293VAL00.0290.03148.8750.0030.0030.0000.0000.0000.000
187A294VAL0-0.012-0.00747.470-0.004-0.0040.0000.0000.0000.000
188A295PRO00.0510.02050.3880.0030.0030.0000.0000.0000.000
189A296ASP-1-0.849-0.94352.176-0.044-0.0440.0000.0000.0000.000
190A297PHE0-0.008-0.00851.4570.0000.0000.0000.0000.0000.000
191A298GLN0-0.037-0.01848.152-0.003-0.0030.0000.0000.0000.000
192A299LEU00.0580.03548.097-0.004-0.0040.0000.0000.0000.000
193A300SER00.016-0.01147.688-0.002-0.0020.0000.0000.0000.000
194A301LEU0-0.051-0.01342.886-0.001-0.0010.0000.0000.0000.000
195A302ALA00.0180.00043.403-0.004-0.0040.0000.0000.0000.000
196A303ILE00.0190.02543.245-0.005-0.0050.0000.0000.0000.000
197A304GLY00.0370.01541.465-0.004-0.0040.0000.0000.0000.000
198A305LYS10.8640.91039.4580.0280.0280.0000.0000.0000.000
199A306GLU-1-0.805-0.89439.427-0.028-0.0280.0000.0000.0000.000
200A307GLY00.0210.01740.734-0.001-0.0010.0000.0000.0000.000
201A308GLN0-0.034-0.03334.059-0.007-0.0070.0000.0000.0000.000
202A309ASN0-0.053-0.02137.289-0.014-0.0140.0000.0000.0000.000
203A310ALA00.0750.02538.799-0.008-0.0080.0000.0000.0000.000
204A311ARG10.7920.88135.2450.0570.0570.0000.0000.0000.000
205A312LEU0-0.028-0.02831.999-0.007-0.0070.0000.0000.0000.000
206A313ALA00.0320.02234.698-0.012-0.0120.0000.0000.0000.000
207A314ALA00.0340.02537.087-0.007-0.0070.0000.0000.0000.000
208A315ARG10.7990.89328.9520.1100.1100.0000.0000.0000.000
209A316LEU0-0.071-0.02531.043-0.010-0.0100.0000.0000.0000.000
210A317THR00.013-0.00733.282-0.008-0.0080.0000.0000.0000.000
211A318GLY0-0.033-0.01235.731-0.004-0.0040.0000.0000.0000.000
212A319TRP0-0.0090.01136.3070.0080.0080.0000.0000.0000.000
213A320ARG10.9470.96339.9200.0800.0800.0000.0000.0000.000
214A321ILE00.0140.00840.155-0.001-0.0010.0000.0000.0000.000
215A322ASP-1-0.815-0.87243.857-0.055-0.0550.0000.0000.0000.000
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