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: G5251

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 OptAll
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 -2378716.774471
FMO2-HF: Nuclear repulsion 2295071.573508
FMO2-HF: Total energy -83645.200963
FMO2-MP2: Total energy -83891.99423


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.
-36.435-47.05339.431-17.11-11.703-0.056
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 : -0.018 / q_NPA : 0.023
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].
3A110ARG10.8300.9093.7434.0036.1910.012-1.187-1.0130.003
4A111GLU-1-0.911-0.9666.156-0.515-0.5150.0000.0000.0000.000
5A112GLY00.0790.0469.598-0.193-0.1930.0000.0000.0000.000
6A113GLU-1-0.868-0.9098.105-1.910-1.9100.0000.0000.0000.000
7A114ILE0-0.030-0.01911.0690.2740.2740.0000.0000.0000.000
8A115VAL00.0050.0127.757-0.264-0.2640.0000.0000.0000.000
9A116ALA00.008-0.00410.5090.2360.2360.0000.0000.0000.000
10A117GLY00.0200.00711.179-0.028-0.0280.0000.0000.0000.000
11A118VAL0-0.086-0.03613.269-0.013-0.0130.0000.0000.0000.000
12A119ILE00.0070.02915.4720.0650.0650.0000.0000.0000.000
13A120GLN0-0.032-0.01314.495-0.023-0.0230.0000.0000.0000.000
14A121ARG10.9320.95618.250-0.165-0.1650.0000.0000.0000.000
15A122ASP-1-0.782-0.87319.0850.3520.3520.0000.0000.0000.000
16A123SER0-0.034-0.03020.927-0.023-0.0230.0000.0000.0000.000
17A124ARG10.9680.97422.621-0.279-0.2790.0000.0000.0000.000
18A125ALA00.0070.00019.280-0.019-0.0190.0000.0000.0000.000
19A126ASN00.002-0.00321.313-0.030-0.0300.0000.0000.0000.000
20A127ALA0-0.010-0.00323.729-0.021-0.0210.0000.0000.0000.000
21A128ARG10.8980.95819.271-0.286-0.2860.0000.0000.0000.000
22A129GLY00.0380.03124.130-0.008-0.0080.0000.0000.0000.000
23A130LEU0-0.064-0.02118.649-0.010-0.0100.0000.0000.0000.000
24A131VAL00.0290.01718.1870.0150.0150.0000.0000.0000.000
25A132VAL00.0130.02014.107-0.017-0.0170.0000.0000.0000.000
26A133VAL00.013-0.00113.053-0.055-0.0550.0000.0000.0000.000
27A134ARG10.9390.97411.145-0.297-0.2970.0000.0000.0000.000
28A135ILE0-0.009-0.0177.087-0.193-0.1930.0000.0000.0000.000
29A136GLY00.043-0.0035.5090.5510.5510.0000.0000.0000.000
30A137THR0-0.036-0.0055.3840.2230.2230.0000.0000.0000.000
31A138GLU-1-0.840-0.9131.859-25.363-27.95515.583-7.115-5.876-0.071
32A139THR0-0.020-0.0461.754-5.941-16.72323.831-8.753-4.2960.011
33A140LYS10.9740.9813.479-8.363-8.1410.0090.007-0.2380.001
34A141ALA0-0.030-0.0095.0380.1470.149-0.001-0.0010.0010.000
35A142SER00.0120.0125.1080.9060.9060.0000.0000.0000.000
36A143GLU-1-0.900-0.9617.2160.2090.2090.0000.0000.0000.000
37A144GLY00.0350.0208.3840.3630.3630.0000.0000.0000.000
38A145VAL0-0.031-0.01410.558-0.093-0.0930.0000.0000.0000.000
39A146ILE00.0340.02914.192-0.051-0.0510.0000.0000.0000.000
40A147PRO00.010-0.00715.8890.0230.0230.0000.0000.0000.000
41A148ALA00.0590.02319.071-0.029-0.0290.0000.0000.0000.000
42A149ALA0-0.021-0.00321.836-0.012-0.0120.0000.0000.0000.000
43A150GLU-1-0.840-0.90217.553-0.197-0.1970.0000.0000.0000.000
44A151GLN0-0.069-0.04120.395-0.030-0.0300.0000.0000.0000.000
45A152VAL00.014-0.00422.369-0.005-0.0050.0000.0000.0000.000
46A153PRO0-0.017-0.02225.1690.0150.0150.0000.0000.0000.000
47A154GLY00.0140.01328.464-0.007-0.0070.0000.0000.0000.000
48A155GLU-1-0.786-0.79622.532-0.134-0.1340.0000.0000.0000.000
49A156SER0-0.021-0.03526.1640.0150.0150.0000.0000.0000.000
50A157TYR0-0.011-0.06020.669-0.008-0.0080.0000.0000.0000.000
51A158GLU-1-0.853-0.88422.9390.0520.0520.0000.0000.0000.000
52A159HIS00.021-0.00620.5240.0020.0020.0000.0000.0000.000
53A160GLY0-0.003-0.00320.614-0.008-0.0080.0000.0000.0000.000
54A161ASN0-0.0090.00421.079-0.014-0.0140.0000.0000.0000.000
55A162ARG10.8520.91814.7410.1790.1790.0000.0000.0000.000
56A163LEU00.0250.02016.572-0.003-0.0030.0000.0000.0000.000
57A164ARG10.8160.88314.8850.3790.3790.0000.0000.0000.000
58A165CYS0-0.029-0.00413.4960.1210.1210.0000.0000.0000.000
59A166TYR00.0330.02913.316-0.145-0.1450.0000.0000.0000.000
60A167VAL0-0.011-0.0068.0940.1670.1670.0000.0000.0000.000
61A168VAL00.006-0.00111.495-0.089-0.0890.0000.0000.0000.000
62A169GLY00.0420.01910.445-0.016-0.0160.0000.0000.0000.000
63A170VAL0-0.034-0.0123.9740.0830.186-0.001-0.022-0.0810.000
64A171THR0-0.020-0.0017.431-0.301-0.3010.0000.0000.0000.000
65A172ARG10.9590.9778.0730.3210.3210.0000.0000.0000.000
66A173GLY00.0710.0418.902-0.179-0.1790.0000.0000.0000.000
67A174ALA0-0.033-0.02911.306-0.003-0.0030.0000.0000.0000.000
68A175ARG10.8400.91112.295-1.052-1.0520.0000.0000.0000.000
69A176GLU-1-0.809-0.8898.6291.5241.5240.0000.0000.0000.000
70A177PRO0-0.040-0.0324.204-0.746-0.605-0.001-0.027-0.1140.000
71A178LEU00.0220.0317.1360.1690.1690.0000.0000.0000.000
72A179ILE0-0.002-0.0034.383-0.382-0.282-0.001-0.012-0.0860.000
73A180THR0-0.030-0.0148.199-0.101-0.1010.0000.0000.0000.000
74A181LEU0-0.031-0.02210.047-0.173-0.1730.0000.0000.0000.000
75A182SER0-0.030-0.05413.4500.0520.0520.0000.0000.0000.000
76A183ARG10.7670.81316.9190.1440.1440.0000.0000.0000.000
77A184THR00.0060.01719.936-0.021-0.0210.0000.0000.0000.000
78A185HIS00.0720.04318.548-0.016-0.0160.0000.0000.0000.000
79A186PRO00.0320.00120.815-0.017-0.0170.0000.0000.0000.000
80A187ASN00.007-0.01817.5470.0330.0330.0000.0000.0000.000
81A188LEU0-0.0250.01016.979-0.064-0.0640.0000.0000.0000.000
82A189VAL00.0290.01519.060-0.019-0.0190.0000.0000.0000.000
83A190ARG10.8400.91120.1010.3820.3820.0000.0000.0000.000
84A191LYS10.8810.91912.8931.1681.1680.0000.0000.0000.000
85A192LEU00.0040.01218.088-0.023-0.0230.0000.0000.0000.000
86A193PHE00.0390.00719.7670.0170.0170.0000.0000.0000.000
87A194SER0-0.031-0.01418.5430.0050.0050.0000.0000.0000.000
88A195LEU0-0.044-0.00915.012-0.047-0.0470.0000.0000.0000.000
89A196GLU-1-0.821-0.90119.201-0.307-0.3070.0000.0000.0000.000
90A197VAL0-0.053-0.02522.7050.0430.0430.0000.0000.0000.000
91A198PRO00.0090.00422.482-0.029-0.0290.0000.0000.0000.000
92A199GLU-1-0.726-0.85323.560-0.306-0.3060.0000.0000.0000.000
93A200ILE0-0.072-0.03921.9640.0120.0120.0000.0000.0000.000
94A201ALA0-0.048-0.01719.288-0.030-0.0300.0000.0000.0000.000
95A202ASP-1-0.870-0.90520.316-0.404-0.4040.0000.0000.0000.000
96A203GLY00.0040.00823.0110.0100.0100.0000.0000.0000.000
97A204SER0-0.043-0.05224.6200.0340.0340.0000.0000.0000.000
98A205VAL0-0.065-0.03727.0650.0320.0320.0000.0000.0000.000
99A206GLU-1-0.749-0.84326.125-0.340-0.3400.0000.0000.0000.000
100A207ILE0-0.005-0.01223.7180.0280.0280.0000.0000.0000.000
101A208VAL00.0120.03726.042-0.022-0.0220.0000.0000.0000.000
102A209ALA0-0.001-0.00127.565-0.011-0.0110.0000.0000.0000.000
103A210VAL00.007-0.01324.739-0.002-0.0020.0000.0000.0000.000
104A211ALA0-0.0310.00527.7750.0030.0030.0000.0000.0000.000
105A212ARG10.7910.86622.1670.2340.2340.0000.0000.0000.000
106A213GLU-1-0.776-0.85928.725-0.111-0.1110.0000.0000.0000.000
107A214ALA00.0370.02325.5260.0060.0060.0000.0000.0000.000
108A215GLY00.0380.01127.5200.0160.0160.0000.0000.0000.000
109A216HIS0-0.080-0.02428.9000.0070.0070.0000.0000.0000.000
110A217ARG10.7720.84131.2560.1260.1260.0000.0000.0000.000
111A218SER00.012-0.01027.618-0.009-0.0090.0000.0000.0000.000
112A219LYS10.7580.88530.0380.1460.1460.0000.0000.0000.000
113A220ILE00.009-0.00327.000-0.013-0.0130.0000.0000.0000.000
114A221ALA0-0.0010.00529.9300.0160.0160.0000.0000.0000.000
115A222VAL0-0.016-0.01928.885-0.020-0.0200.0000.0000.0000.000
116A223ARG10.8550.92230.7340.2650.2650.0000.0000.0000.000
117A224SER0-0.011-0.01930.892-0.025-0.0250.0000.0000.0000.000
118A225ASN0-0.048-0.02127.7770.0280.0280.0000.0000.0000.000
119A226VAL00.0080.01130.8180.0040.0040.0000.0000.0000.000
120A227ALA00.0270.00933.5290.0070.0070.0000.0000.0000.000
121A228GLY00.0060.00137.3200.0010.0010.0000.0000.0000.000
122A229LEU0-0.0280.00330.6070.0070.0070.0000.0000.0000.000
123A230ASN00.0240.00335.175-0.008-0.0080.0000.0000.0000.000
124A231ALA00.0720.03832.012-0.005-0.0050.0000.0000.0000.000
125A232LYS10.8530.90531.6970.1510.1510.0000.0000.0000.000
126A233GLY0-0.005-0.00732.958-0.001-0.0010.0000.0000.0000.000
127A234ALA00.0280.02229.4270.0010.0010.0000.0000.0000.000
128A235CYS0-0.0020.00128.274-0.015-0.0150.0000.0000.0000.000
129A236ILE0-0.0130.00229.0050.0000.0000.0000.0000.0000.000
130A237GLY00.0520.02430.676-0.001-0.0010.0000.0000.0000.000
131A238PRO00.0440.00031.2480.0130.0130.0000.0000.0000.000
132A239MET0-0.021-0.01333.181-0.001-0.0010.0000.0000.0000.000
133A240GLY00.0290.02433.2820.0060.0060.0000.0000.0000.000
134A241GLN0-0.054-0.04328.4230.0070.0070.0000.0000.0000.000
135A242ARG10.7980.88926.7260.2640.2640.0000.0000.0000.000
136A243VAL00.0450.01726.753-0.013-0.0130.0000.0000.0000.000
137A244ARG10.8970.95428.4110.1280.1280.0000.0000.0000.000
138A245ASN0-0.0030.01624.2120.0340.0340.0000.0000.0000.000
139A246VAL00.0110.01123.143-0.002-0.0020.0000.0000.0000.000
140A247MET0-0.037-0.01624.7370.0090.0090.0000.0000.0000.000
141A248SER0-0.060-0.04326.2760.0180.0180.0000.0000.0000.000
142A249GLU-1-0.775-0.86019.530-0.289-0.2890.0000.0000.0000.000
143A250LEU0-0.050-0.01121.9160.0070.0070.0000.0000.0000.000
144A251SER0-0.001-0.03024.4440.0190.0190.0000.0000.0000.000
145A252GLY00.0280.02726.7780.0170.0170.0000.0000.0000.000
146A253GLU-1-0.783-0.82826.765-0.183-0.1830.0000.0000.0000.000
147A254LYS10.8680.91729.5410.0990.0990.0000.0000.0000.000
148A255ILE00.0420.00326.718-0.008-0.0080.0000.0000.0000.000
149A256ASP-1-0.776-0.83331.094-0.134-0.1340.0000.0000.0000.000
150A257ILE0-0.029-0.02029.854-0.011-0.0110.0000.0000.0000.000
151A258ILE0-0.066-0.02333.1380.0120.0120.0000.0000.0000.000
152A259ASP-1-0.768-0.86233.909-0.178-0.1780.0000.0000.0000.000
153A260TYR0-0.080-0.06633.1070.0060.0060.0000.0000.0000.000
154A261ASP-1-0.817-0.89335.177-0.146-0.1460.0000.0000.0000.000
155A262ASP-1-0.778-0.88136.395-0.195-0.1950.0000.0000.0000.000
156A263ASP-1-0.848-0.91538.789-0.116-0.1160.0000.0000.0000.000
157A264PRO0-0.019-0.02240.744-0.001-0.0010.0000.0000.0000.000
158A265ALA0-0.0060.00341.7880.0010.0010.0000.0000.0000.000
159A266ARG10.8730.90242.6620.1330.1330.0000.0000.0000.000
160A267PHE00.0130.01833.804-0.003-0.0030.0000.0000.0000.000
161A268VAL0-0.005-0.01339.380-0.002-0.0020.0000.0000.0000.000
162A269ALA0-0.006-0.00741.3700.0030.0030.0000.0000.0000.000
163A270ASN0-0.056-0.03038.9080.0090.0090.0000.0000.0000.000
164A271ALA00.001-0.01037.211-0.001-0.0010.0000.0000.0000.000
165A272LEU00.0010.00338.2700.0000.0000.0000.0000.0000.000
166A273SER00.0170.02439.2080.0100.0100.0000.0000.0000.000
167A274PRO00.018-0.01438.345-0.006-0.0060.0000.0000.0000.000
168A275ALA0-0.0020.04241.2420.0040.0040.0000.0000.0000.000
169A276LYS10.8320.89342.7130.1020.1020.0000.0000.0000.000
170A277VAL0-0.002-0.00146.0300.0030.0030.0000.0000.0000.000
171A278VAL0-0.013-0.00448.8560.0000.0000.0000.0000.0000.000
172A279SER0-0.017-0.01851.0630.0000.0000.0000.0000.0000.000
173A280VAL00.0410.01845.571-0.001-0.0010.0000.0000.0000.000
174A281SER0-0.043-0.02348.9010.0020.0020.0000.0000.0000.000
175A282VAL00.0010.00846.2760.0000.0000.0000.0000.0000.000
176A283ILE0-0.064-0.03248.7340.0040.0040.0000.0000.0000.000
177A284ASP-1-0.747-0.86147.679-0.089-0.0890.0000.0000.0000.000
178A285GLN00.0190.00545.745-0.007-0.0070.0000.0000.0000.000
179A286THR0-0.062-0.04444.311-0.007-0.0070.0000.0000.0000.000
180A287ALA0-0.066-0.03943.241-0.005-0.0050.0000.0000.0000.000
181A288ARG10.8640.93436.3000.1450.1450.0000.0000.0000.000
182A289ALA00.0050.01142.733-0.002-0.0020.0000.0000.0000.000
183A290ALA00.0380.01144.8870.0020.0020.0000.0000.0000.000
184A291ARG10.8610.92646.7190.0720.0720.0000.0000.0000.000
185A292VAL0-0.014-0.01945.470-0.003-0.0030.0000.0000.0000.000
186A293VAL00.0290.04048.9350.0030.0030.0000.0000.0000.000
187A294VAL0-0.012-0.00847.645-0.004-0.0040.0000.0000.0000.000
188A295PRO00.0540.02250.5870.0030.0030.0000.0000.0000.000
189A296ASP-1-0.872-0.94652.189-0.058-0.0580.0000.0000.0000.000
190A297PHE00.001-0.00551.617-0.001-0.0010.0000.0000.0000.000
191A298GLN0-0.023-0.01248.226-0.005-0.0050.0000.0000.0000.000
192A299LEU00.0430.03348.199-0.005-0.0050.0000.0000.0000.000
193A300SER00.017-0.01247.953-0.003-0.0030.0000.0000.0000.000
194A301LEU0-0.061-0.01642.966-0.001-0.0010.0000.0000.0000.000
195A302ALA00.021-0.00543.578-0.006-0.0060.0000.0000.0000.000
196A303ILE00.0270.02943.407-0.006-0.0060.0000.0000.0000.000
197A304GLY00.0390.01641.973-0.006-0.0060.0000.0000.0000.000
198A305LYS10.8520.89740.2810.0630.0630.0000.0000.0000.000
199A306GLU-1-0.785-0.87739.851-0.066-0.0660.0000.0000.0000.000
200A307GLY00.0290.02640.768-0.003-0.0030.0000.0000.0000.000
201A308GLN0-0.031-0.03034.573-0.005-0.0050.0000.0000.0000.000
202A309ASN0-0.062-0.02837.649-0.015-0.0150.0000.0000.0000.000
203A310ALA00.0760.03539.107-0.007-0.0070.0000.0000.0000.000
204A311ARG10.7840.86535.5130.0940.0940.0000.0000.0000.000
205A312LEU0-0.020-0.02232.374-0.007-0.0070.0000.0000.0000.000
206A313ALA00.0310.01834.943-0.011-0.0110.0000.0000.0000.000
207A314ALA00.0190.01837.149-0.006-0.0060.0000.0000.0000.000
208A315ARG10.7990.87529.4280.1500.1500.0000.0000.0000.000
209A316LEU0-0.068-0.01731.063-0.011-0.0110.0000.0000.0000.000
210A317THR00.008-0.00433.277-0.007-0.0070.0000.0000.0000.000
211A318GLY0-0.014-0.00135.536-0.001-0.0010.0000.0000.0000.000
212A319TRP0-0.0100.00836.2870.0080.0080.0000.0000.0000.000
213A320ARG10.9110.94840.0190.1000.1000.0000.0000.0000.000
214A321ILE00.0180.00540.1580.0010.0010.0000.0000.0000.000
215A322ASP-1-0.796-0.85844.126-0.070-0.0700.0000.0000.0000.000
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