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: VQGQ1

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 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 226
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2375060.75743
FMO2-HF: Nuclear repulsion 2291417.894041
FMO2-HF: Total energy -83642.863389
FMO2-MP2: Total energy -83889.92578


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.
-29.112-61.26975.778-29.345-14.274-0.019
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 : 0.019 / q_NPA : 0.038
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].
3A110ARG11.0081.0103.2523.0486.0720.154-1.738-1.4390.003
4A111GLU-1-0.899-0.9615.822-0.334-0.3340.0000.0000.0000.000
5A112GLY00.0110.0008.956-0.244-0.2440.0000.0000.0000.000
6A113GLU-1-1.026-1.0127.609-3.097-3.0970.0000.0000.0000.000
7A114ILE0-0.021-0.01210.9630.2940.2940.0000.0000.0000.000
8A115VAL00.0370.0257.249-0.237-0.2370.0000.0000.0000.000
9A116ALA0-0.038-0.02110.2920.2240.2240.0000.0000.0000.000
10A117GLY00.015-0.00310.8420.0270.0270.0000.0000.0000.000
11A118VAL0-0.109-0.04812.992-0.065-0.0650.0000.0000.0000.000
12A119ILE0-0.0010.03115.1830.1070.1070.0000.0000.0000.000
13A120GLN00.0420.01213.7890.0080.0080.0000.0000.0000.000
14A121ARG10.9450.96518.016-0.299-0.2990.0000.0000.0000.000
15A122ASP-1-0.811-0.89718.6220.5970.5970.0000.0000.0000.000
16A123SER0-0.050-0.02320.985-0.016-0.0160.0000.0000.0000.000
17A124ARG10.9900.98622.798-0.387-0.3870.0000.0000.0000.000
18A125ALA00.0190.01319.020-0.026-0.0260.0000.0000.0000.000
19A126ASN0-0.001-0.03120.472-0.038-0.0380.0000.0000.0000.000
20A127ALA00.0080.02423.076-0.028-0.0280.0000.0000.0000.000
21A128ARG10.8800.94319.485-0.453-0.4530.0000.0000.0000.000
22A129GLY00.0230.01423.932-0.007-0.0070.0000.0000.0000.000
23A130LEU0-0.059-0.00618.046-0.010-0.0100.0000.0000.0000.000
24A131VAL00.0350.02517.2360.0000.0000.0000.0000.0000.000
25A132VAL00.0310.02414.0390.0200.0200.0000.0000.0000.000
26A133VAL0-0.0030.00012.296-0.083-0.0830.0000.0000.0000.000
27A134ARG10.9720.99811.217-0.485-0.4850.0000.0000.0000.000
28A135ILE0-0.031-0.0456.392-0.314-0.3140.0000.0000.0000.000
29A136GLY0-0.003-0.0225.4710.5710.5710.0000.0000.0000.000
30A137THR0-0.074-0.0545.0520.4450.4450.0000.0000.0000.000
31A138GLU-1-0.849-0.8731.554-19.355-31.24328.137-9.022-7.227-0.038
32A139THR0-0.058-0.1051.580-2.456-26.63247.467-18.327-4.9630.013
33A140LYS10.9320.9633.597-8.633-8.0490.022-0.217-0.3900.003
34A141ALA0-0.030-0.0105.7100.6120.6120.0000.0000.0000.000
35A142SER00.0350.0365.0140.3910.3910.0000.0000.0000.000
36A143GLU-1-0.907-0.9517.0400.5170.5170.0000.0000.0000.000
37A144GLY00.0200.0208.4340.3200.3200.0000.0000.0000.000
38A145VAL0-0.017-0.00710.140-0.134-0.1340.0000.0000.0000.000
39A146ILE0-0.0010.00013.701-0.045-0.0450.0000.0000.0000.000
40A147PRO00.016-0.00415.6350.0000.0000.0000.0000.0000.000
41A148ALA00.0690.02818.806-0.035-0.0350.0000.0000.0000.000
42A149ALA0-0.023-0.01321.527-0.021-0.0210.0000.0000.0000.000
43A150GLU-1-0.893-0.91817.198-0.037-0.0370.0000.0000.0000.000
44A151GLN0-0.073-0.04420.005-0.034-0.0340.0000.0000.0000.000
45A152VAL0-0.006-0.00421.925-0.018-0.0180.0000.0000.0000.000
46A153PRO00.008-0.00324.5750.0140.0140.0000.0000.0000.000
47A154GLY00.0010.00027.990-0.014-0.0140.0000.0000.0000.000
48A155GLU-1-0.779-0.80822.160-0.012-0.0120.0000.0000.0000.000
49A156SER00.0000.00425.6910.0230.0230.0000.0000.0000.000
50A157TYR00.016-0.05920.1650.0010.0010.0000.0000.0000.000
51A158GLU-1-0.928-0.95822.4440.1700.1700.0000.0000.0000.000
52A159HIS00.0320.01620.5620.0240.0240.0000.0000.0000.000
53A160GLY0-0.011-0.01220.264-0.021-0.0210.0000.0000.0000.000
54A161ASN00.0250.02120.946-0.018-0.0180.0000.0000.0000.000
55A162ARG10.8970.94714.0260.0040.0040.0000.0000.0000.000
56A163LEU00.0150.01415.897-0.019-0.0190.0000.0000.0000.000
57A164ARG10.9300.95914.5720.2970.2970.0000.0000.0000.000
58A165CYS0-0.0070.01412.7460.0770.0770.0000.0000.0000.000
59A166TYR00.0410.03112.897-0.175-0.1750.0000.0000.0000.000
60A167VAL00.0080.0057.4370.2120.2120.0000.0000.0000.000
61A168VAL0-0.009-0.01510.862-0.151-0.1510.0000.0000.0000.000
62A169GLY00.0330.01510.279-0.088-0.0880.0000.0000.0000.000
63A170VAL00.0010.0213.7710.1370.2910.000-0.033-0.1220.000
64A171THR0-0.036-0.0197.219-0.473-0.4730.0000.0000.0000.000
65A172ARG10.9800.9848.5360.1610.1610.0000.0000.0000.000
66A173GLY00.0700.0499.399-0.224-0.2240.0000.0000.0000.000
67A174ALA0-0.027-0.02112.120-0.125-0.1250.0000.0000.0000.000
68A175ARG10.9470.95112.865-0.970-0.9700.0000.0000.0000.000
69A176GLU-1-0.928-0.9638.9982.1262.1260.0000.0000.0000.000
70A177PRO0-0.071-0.0324.918-0.755-0.697-0.001-0.001-0.0550.000
71A178LEU00.0370.0397.6000.3370.3370.0000.0000.0000.000
72A179ILE00.0210.0134.305-0.220-0.133-0.001-0.007-0.0780.000
73A180THR0-0.028-0.0178.400-0.210-0.2100.0000.0000.0000.000
74A181LEU0-0.006-0.0169.468-0.155-0.1550.0000.0000.0000.000
75A182SER0-0.023-0.04213.0240.0100.0100.0000.0000.0000.000
76A183ARG10.7780.82716.4350.0020.0020.0000.0000.0000.000
77A184THR00.0260.02519.100-0.032-0.0320.0000.0000.0000.000
78A185HIS00.0460.03617.614-0.036-0.0360.0000.0000.0000.000
79A186PRO00.0600.01420.007-0.017-0.0170.0000.0000.0000.000
80A187ASN00.001-0.02416.8110.0270.0270.0000.0000.0000.000
81A188LEU0-0.0320.00016.547-0.069-0.0690.0000.0000.0000.000
82A189VAL00.0350.02018.756-0.020-0.0200.0000.0000.0000.000
83A190ARG10.8710.93520.0100.3590.3590.0000.0000.0000.000
84A191LYS10.9320.96713.1741.0831.0830.0000.0000.0000.000
85A192LEU00.0090.00917.892-0.033-0.0330.0000.0000.0000.000
86A193PHE00.0330.00319.5580.0150.0150.0000.0000.0000.000
87A194SER0-0.042-0.01618.306-0.024-0.0240.0000.0000.0000.000
88A195LEU0-0.028-0.01814.845-0.011-0.0110.0000.0000.0000.000
89A196GLU-1-0.888-0.94618.881-0.245-0.2450.0000.0000.0000.000
90A197VAL0-0.071-0.02722.4560.0400.0400.0000.0000.0000.000
91A198PRO00.0080.00822.702-0.030-0.0300.0000.0000.0000.000
92A199GLU-1-0.752-0.88423.775-0.312-0.3120.0000.0000.0000.000
93A200ILE0-0.079-0.03721.812-0.001-0.0010.0000.0000.0000.000
94A201ALA0-0.062-0.02919.216-0.032-0.0320.0000.0000.0000.000
95A202ASP-1-0.895-0.91820.551-0.448-0.4480.0000.0000.0000.000
96A203GLY00.0140.01723.0250.0060.0060.0000.0000.0000.000
97A204SER0-0.021-0.02924.4410.0370.0370.0000.0000.0000.000
98A205VAL0-0.055-0.03226.8380.0350.0350.0000.0000.0000.000
99A206GLU-1-0.801-0.89125.822-0.353-0.3530.0000.0000.0000.000
100A207ILE0-0.036-0.01823.3530.0300.0300.0000.0000.0000.000
101A208VAL00.0020.01225.882-0.023-0.0230.0000.0000.0000.000
102A209ALA0-0.019-0.01627.477-0.002-0.0020.0000.0000.0000.000
103A210VAL00.006-0.00324.4500.0000.0000.0000.0000.0000.000
104A211ALA0-0.037-0.00427.3380.0040.0040.0000.0000.0000.000
105A212ARG10.7920.85721.5590.1390.1390.0000.0000.0000.000
106A213GLU-1-0.805-0.88027.919-0.064-0.0640.0000.0000.0000.000
107A214ALA00.013-0.00124.8930.0020.0020.0000.0000.0000.000
108A215GLY00.0530.01426.8550.0170.0170.0000.0000.0000.000
109A216HIS0-0.089-0.02428.2780.0020.0020.0000.0000.0000.000
110A217ARG10.8220.87230.6870.0850.0850.0000.0000.0000.000
111A218SER0-0.0060.00127.390-0.003-0.0030.0000.0000.0000.000
112A219LYS10.7580.90129.7320.1130.1130.0000.0000.0000.000
113A220ILE0-0.005-0.01126.788-0.011-0.0110.0000.0000.0000.000
114A221ALA00.0100.01629.8150.0130.0130.0000.0000.0000.000
115A222VAL0-0.014-0.01528.690-0.023-0.0230.0000.0000.0000.000
116A223ARG10.9130.93629.9160.2870.2870.0000.0000.0000.000
117A224SER00.0050.00230.495-0.028-0.0280.0000.0000.0000.000
118A225ASN0-0.036-0.01427.4720.0280.0280.0000.0000.0000.000
119A226VAL00.0070.00830.8830.0020.0020.0000.0000.0000.000
120A227ALA00.0190.00433.5790.0110.0110.0000.0000.0000.000
121A228GLY00.008-0.00237.3560.0000.0000.0000.0000.0000.000
122A229LEU0-0.0130.01430.7890.0090.0090.0000.0000.0000.000
123A230ASN00.0040.00135.474-0.004-0.0040.0000.0000.0000.000
124A231ALA00.0790.03031.709-0.005-0.0050.0000.0000.0000.000
125A232LYS10.9540.98731.6040.1380.1380.0000.0000.0000.000
126A233GLY0-0.024-0.02132.8450.0010.0010.0000.0000.0000.000
127A234ALA00.0350.02729.4200.0030.0030.0000.0000.0000.000
128A235CYS0-0.015-0.00128.222-0.017-0.0170.0000.0000.0000.000
129A236ILE0-0.0180.00328.9120.0040.0040.0000.0000.0000.000
130A237GLY00.0450.01730.4420.0010.0010.0000.0000.0000.000
131A238PRO00.0450.00531.0550.0130.0130.0000.0000.0000.000
132A239MET0-0.012-0.00933.2090.0030.0030.0000.0000.0000.000
133A240GLY00.0090.00932.9570.0080.0080.0000.0000.0000.000
134A241GLN0-0.079-0.04628.1470.0060.0060.0000.0000.0000.000
135A242ARG10.8860.94826.5970.2580.2580.0000.0000.0000.000
136A243VAL00.0490.02326.478-0.006-0.0060.0000.0000.0000.000
137A244ARG10.9150.94528.0650.0980.0980.0000.0000.0000.000
138A245ASN00.0100.01724.0850.0400.0400.0000.0000.0000.000
139A246VAL00.0090.01623.1380.0010.0010.0000.0000.0000.000
140A247MET0-0.064-0.02424.5440.0170.0170.0000.0000.0000.000
141A248SER0-0.042-0.02025.9500.0220.0220.0000.0000.0000.000
142A249GLU-1-0.830-0.89419.289-0.128-0.1280.0000.0000.0000.000
143A250LEU0-0.062-0.02021.5120.0150.0150.0000.0000.0000.000
144A251SER00.003-0.01724.0800.0160.0160.0000.0000.0000.000
145A252GLY0-0.025-0.01126.4470.0120.0120.0000.0000.0000.000
146A253GLU-1-0.770-0.82926.331-0.114-0.1140.0000.0000.0000.000
147A254LYS10.9390.95029.0940.0530.0530.0000.0000.0000.000
148A255ILE00.0300.00226.484-0.007-0.0070.0000.0000.0000.000
149A256ASP-1-0.808-0.86130.717-0.104-0.1040.0000.0000.0000.000
150A257ILE0-0.004-0.02129.813-0.009-0.0090.0000.0000.0000.000
151A258ILE0-0.094-0.03132.7550.0120.0120.0000.0000.0000.000
152A259ASP-1-0.828-0.92833.721-0.180-0.1800.0000.0000.0000.000
153A260TYR0-0.055-0.03633.0670.0070.0070.0000.0000.0000.000
154A261ASP-1-0.875-0.95335.165-0.142-0.1420.0000.0000.0000.000
155A262ASP-1-0.866-0.94037.019-0.189-0.1890.0000.0000.0000.000
156A263ASP-1-0.902-0.94838.958-0.111-0.1110.0000.0000.0000.000
157A264PRO00.010-0.00240.5730.0010.0010.0000.0000.0000.000
158A265ALA00.0230.01341.6410.0020.0020.0000.0000.0000.000
159A266ARG10.9370.97542.6230.1200.1200.0000.0000.0000.000
160A267PHE00.0230.02533.595-0.001-0.0010.0000.0000.0000.000
161A268VAL00.001-0.01239.2960.0000.0000.0000.0000.0000.000
162A269ALA0-0.008-0.01241.0350.0040.0040.0000.0000.0000.000
163A270ASN0-0.055-0.03038.7850.0100.0100.0000.0000.0000.000
164A271ALA0-0.001-0.01236.9530.0000.0000.0000.0000.0000.000
165A272LEU0-0.0080.00138.0450.0030.0030.0000.0000.0000.000
166A273SER00.0180.04138.9920.0090.0090.0000.0000.0000.000
167A274PRO0-0.031-0.05038.417-0.004-0.0040.0000.0000.0000.000
168A275ALA0-0.0300.00941.2560.0040.0040.0000.0000.0000.000
169A276LYS10.8990.94444.0370.0820.0820.0000.0000.0000.000
170A277VAL00.0110.00345.5980.0030.0030.0000.0000.0000.000
171A278VAL0-0.021-0.01348.423-0.001-0.0010.0000.0000.0000.000
172A279SER0-0.027-0.02150.644-0.001-0.0010.0000.0000.0000.000
173A280VAL00.0410.01945.1130.0010.0010.0000.0000.0000.000
174A281SER0-0.039-0.01048.4680.0000.0000.0000.0000.0000.000
175A282VAL00.0460.01946.0460.0000.0000.0000.0000.0000.000
176A283ILE0-0.071-0.04248.1500.0040.0040.0000.0000.0000.000
177A284ASP-1-0.752-0.85346.393-0.081-0.0810.0000.0000.0000.000
178A285GLN0-0.029-0.01945.741-0.007-0.0070.0000.0000.0000.000
179A286THR0-0.046-0.01444.071-0.007-0.0070.0000.0000.0000.000
180A287ALA0-0.025-0.05442.817-0.004-0.0040.0000.0000.0000.000
181A288ARG10.9140.97935.3900.1310.1310.0000.0000.0000.000
182A289ALA0-0.0040.00142.1570.0000.0000.0000.0000.0000.000
183A290ALA00.0270.00144.3780.0000.0000.0000.0000.0000.000
184A291ARG10.9430.97946.0370.0630.0630.0000.0000.0000.000
185A292VAL0-0.021-0.01545.043-0.002-0.0020.0000.0000.0000.000
186A293VAL00.0190.02748.4980.0030.0030.0000.0000.0000.000
187A294VAL0-0.009-0.00647.279-0.004-0.0040.0000.0000.0000.000
188A295PRO00.0390.01650.2940.0030.0030.0000.0000.0000.000
189A296ASP-1-0.819-0.93352.144-0.042-0.0420.0000.0000.0000.000
190A297PHE0-0.015-0.01051.1980.0000.0000.0000.0000.0000.000
191A298GLN0-0.022-0.01447.867-0.003-0.0030.0000.0000.0000.000
192A299LEU00.0550.03548.082-0.004-0.0040.0000.0000.0000.000
193A300SER00.016-0.00847.559-0.001-0.0010.0000.0000.0000.000
194A301LEU0-0.062-0.01842.9440.0000.0000.0000.0000.0000.000
195A302ALA00.0180.00043.387-0.004-0.0040.0000.0000.0000.000
196A303ILE00.0290.03143.039-0.005-0.0050.0000.0000.0000.000
197A304GLY00.0390.01441.421-0.004-0.0040.0000.0000.0000.000
198A305LYS10.9830.98440.1060.0230.0230.0000.0000.0000.000
199A306GLU-1-0.929-0.96639.160-0.024-0.0240.0000.0000.0000.000
200A307GLY00.0190.01340.512-0.001-0.0010.0000.0000.0000.000
201A308GLN0-0.014-0.00934.579-0.009-0.0090.0000.0000.0000.000
202A309ASN0-0.042-0.01337.041-0.013-0.0130.0000.0000.0000.000
203A310ALA00.0710.02238.514-0.008-0.0080.0000.0000.0000.000
204A311ARG10.7810.86835.0420.0540.0540.0000.0000.0000.000
205A312LEU0-0.020-0.02431.782-0.008-0.0080.0000.0000.0000.000
206A313ALA00.0300.02234.351-0.012-0.0120.0000.0000.0000.000
207A314ALA00.0330.01936.658-0.008-0.0080.0000.0000.0000.000
208A315ARG10.8330.91528.2900.1140.1140.0000.0000.0000.000
209A316LEU0-0.073-0.02330.670-0.010-0.0100.0000.0000.0000.000
210A317THR00.007-0.01032.893-0.009-0.0090.0000.0000.0000.000
211A318GLY0-0.041-0.01135.298-0.004-0.0040.0000.0000.0000.000
212A319TRP0-0.0380.00035.8530.0080.0080.0000.0000.0000.000
213A320ARG10.9400.95839.4890.0810.0810.0000.0000.0000.000
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215A322ASP-1-0.925-0.95243.434-0.054-0.0540.0000.0000.0000.000
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