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: 94QL2

Calculation Name: 2A22-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2A22

Chain ID: A

ChEMBL ID:

UniProt ID: Q5CYJ7

Base Structure: X-ray

Registration Date: 2023-06-26

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 193
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2181445.856743
FMO2-HF: Nuclear repulsion 2105850.346108
FMO2-HF: Total energy -75595.510635
FMO2-MP2: Total energy -75814.776147


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:4:ASP)


Summations of interaction energy for fragment #1(A:4: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.
45.70448.666-0.001-1.609-1.3510.008
Interaction energy analysis for fragmet #1(A:4:ASP)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : -1 / q_Mulliken : -0.897 / q_NPA : -0.951
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].
3A6GLY0-0.044-0.0183.816-4.808-1.846-0.001-1.609-1.3510.008
4A7ASP-1-0.833-0.8945.68629.47829.4780.0000.0000.0000.000
5A8LEU0-0.061-0.0368.209-1.291-1.2910.0000.0000.0000.000
6A9VAL00.0190.00010.952-0.380-0.3800.0000.0000.0000.000
7A10LEU0-0.0050.00913.666-0.691-0.6910.0000.0000.0000.000
8A11LEU0-0.006-0.00316.696-0.363-0.3630.0000.0000.0000.000
9A12ILE00.039-0.00219.911-0.315-0.3150.0000.0000.0000.000
10A13GLY00.0890.03922.7360.0620.0620.0000.0000.0000.000
11A14ASP-1-0.739-0.87925.9559.4979.4970.0000.0000.0000.000
12A15LEU0-0.0240.01625.535-0.134-0.1340.0000.0000.0000.000
13A16LYS10.8700.92529.786-9.007-9.0070.0000.0000.0000.000
14A17ILE0-0.0180.05429.545-0.271-0.2710.0000.0000.0000.000
15A18PRO00.011-0.02133.1270.0800.0800.0000.0000.0000.000
16A19TYR0-0.067-0.04335.840-0.206-0.2060.0000.0000.0000.000
17A20GLY00.0100.00636.405-0.200-0.2000.0000.0000.0000.000
18A21ALA00.000-0.00333.5600.0030.0030.0000.0000.0000.000
19A22LYS10.8510.89734.814-8.617-8.6170.0000.0000.0000.000
20A23GLU-1-0.835-0.89130.8139.1179.1170.0000.0000.0000.000
21A24LEU00.0190.00624.601-0.079-0.0790.0000.0000.0000.000
22A25PRO00.0370.02427.941-0.136-0.1360.0000.0000.0000.000
23A26SER00.0440.01427.4810.4210.4210.0000.0000.0000.000
24A27ASN0-0.001-0.01026.7100.3380.3380.0000.0000.0000.000
25A28PHE0-0.003-0.00324.0070.3730.3730.0000.0000.0000.000
26A29ARG10.9520.98122.480-11.481-11.4810.0000.0000.0000.000
27A30GLU-1-0.937-0.98020.59213.80013.8000.0000.0000.0000.000
28A31LEU0-0.055-0.02118.7330.7620.7620.0000.0000.0000.000
29A32LEU0-0.007-0.02217.6230.8780.8780.0000.0000.0000.000
30A33ALA0-0.0220.00817.7730.2760.2760.0000.0000.0000.000
31A34THR0-0.045-0.01013.3021.4221.4220.0000.0000.0000.000
32A35ASP-1-0.862-0.94210.44622.49022.4900.0000.0000.0000.000
33A36LYS10.8880.9398.422-30.815-30.8150.0000.0000.0000.000
34A37ILE0-0.0120.0189.0621.0141.0140.0000.0000.0000.000
35A38ASN0-0.016-0.0226.011-1.319-1.3190.0000.0000.0000.000
36A39TYR0-0.015-0.0118.552-1.262-1.2620.0000.0000.0000.000
37A40VAL00.0150.02312.378-0.158-0.1580.0000.0000.0000.000
38A41LEU0-0.032-0.01116.101-0.275-0.2750.0000.0000.0000.000
39A42CYS0-0.034-0.02018.731-0.438-0.4380.0000.0000.0000.000
40A43THR00.0410.00022.078-0.113-0.1130.0000.0000.0000.000
41A44GLY00.0890.05625.285-0.411-0.4110.0000.0000.0000.000
42A45ASN0-0.116-0.07627.505-0.038-0.0380.0000.0000.0000.000
43A46VAL00.0250.01325.4890.0090.0090.0000.0000.0000.000
44A47CYS0-0.082-0.01828.629-0.106-0.1060.0000.0000.0000.000
45A48SER00.0380.03030.519-0.218-0.2180.0000.0000.0000.000
46A49GLN00.027-0.00227.7400.2300.2300.0000.0000.0000.000
47A50GLU-1-0.904-0.95027.9609.9469.9460.0000.0000.0000.000
48A51TYR00.028-0.01626.3560.5050.5050.0000.0000.0000.000
49A52VAL0-0.0090.00224.5850.5430.5430.0000.0000.0000.000
50A53GLU-1-0.871-0.92923.17110.88610.8860.0000.0000.0000.000
51A54MET0-0.0270.01121.3190.5350.5350.0000.0000.0000.000
52A55LEU00.013-0.02020.2990.6720.6720.0000.0000.0000.000
53A56LYS10.7720.86818.599-12.594-12.5940.0000.0000.0000.000
54A57ASN0-0.064-0.04117.7580.7870.7870.0000.0000.0000.000
55A58ILE0-0.0330.01514.6220.5280.5280.0000.0000.0000.000
56A59THR00.010-0.00510.6401.2211.2210.0000.0000.0000.000
57A60LYS10.9490.98910.385-21.746-21.7460.0000.0000.0000.000
58A61ASN0-0.056-0.0339.185-1.709-1.7090.0000.0000.0000.000
59A62VAL00.0360.02513.3700.1940.1940.0000.0000.0000.000
60A63TYR0-0.001-0.00214.474-0.328-0.3280.0000.0000.0000.000
61A64ILE00.012-0.00119.3060.0340.0340.0000.0000.0000.000
62A65VAL0-0.0430.00022.863-0.160-0.1600.0000.0000.0000.000
63A66SER0-0.011-0.00725.786-0.081-0.0810.0000.0000.0000.000
64A67GLY0-0.017-0.03029.4540.0120.0120.0000.0000.0000.000
65A68ASP-1-0.884-0.95131.5398.2248.2240.0000.0000.0000.000
66A69LEU0-0.009-0.01534.300-0.229-0.2290.0000.0000.0000.000
67A70ASP-1-0.773-0.88630.2729.6049.6040.0000.0000.0000.000
68A71SER0-0.017-0.01433.506-0.032-0.0320.0000.0000.0000.000
69A72ALA0-0.015-0.00934.663-0.155-0.1550.0000.0000.0000.000
70A73ILE0-0.052-0.00628.4560.1290.1290.0000.0000.0000.000
71A74PHE0-0.0080.00628.736-0.188-0.1880.0000.0000.0000.000
72A75ASN0-0.019-0.02724.2320.5650.5650.0000.0000.0000.000
73A76PRO0-0.007-0.00723.181-0.194-0.1940.0000.0000.0000.000
74A77ASP-1-0.825-0.89221.04413.06413.0640.0000.0000.0000.000
75A78PRO00.0040.00022.741-0.409-0.4090.0000.0000.0000.000
76A79GLU-1-0.947-0.97524.37110.33710.3370.0000.0000.0000.000
77A80SER0-0.059-0.03825.788-0.395-0.3950.0000.0000.0000.000
78A81ASN0-0.051-0.03327.660-0.406-0.4060.0000.0000.0000.000
79A82GLY00.0500.02929.052-0.299-0.2990.0000.0000.0000.000
80A83VAL0-0.036-0.00729.859-0.056-0.0560.0000.0000.0000.000
81A84PHE00.0450.01824.3840.3850.3850.0000.0000.0000.000
82A85PRO0-0.0230.00624.068-0.321-0.3210.0000.0000.0000.000
83A86GLU-1-0.828-0.91327.3388.9088.9080.0000.0000.0000.000
84A87TYR0-0.050-0.04025.623-0.092-0.0920.0000.0000.0000.000
85A88VAL00.0060.00619.828-0.002-0.0020.0000.0000.0000.000
86A89VAL0-0.030-0.02119.983-0.073-0.0730.0000.0000.0000.000
87A90VAL0-0.015-0.00214.3330.0220.0220.0000.0000.0000.000
88A91GLN0-0.037-0.01613.055-0.995-0.9950.0000.0000.0000.000
89A92ILE0-0.016-0.01210.2410.6300.6300.0000.0000.0000.000
90A93GLY00.0630.0369.471-0.227-0.2270.0000.0000.0000.000
91A94GLU-1-0.972-0.98710.25420.54120.5410.0000.0000.0000.000
92A95PHE0-0.052-0.02513.571-1.398-1.3980.0000.0000.0000.000
93A96LYS10.8950.97715.135-11.974-11.9740.0000.0000.0000.000
94A97ILE0-0.015-0.02215.514-0.558-0.5580.0000.0000.0000.000
95A98GLY00.0090.00318.894-0.115-0.1150.0000.0000.0000.000
96A99LEU0-0.0010.00520.3870.1360.1360.0000.0000.0000.000
97A100MET00.020-0.01023.226-0.249-0.2490.0000.0000.0000.000
98A101HIS00.0340.02926.853-0.264-0.2640.0000.0000.0000.000
99A102GLY00.0370.01129.2010.0250.0250.0000.0000.0000.000
100A103ASN0-0.014-0.00631.494-0.023-0.0230.0000.0000.0000.000
101A104GLN00.018-0.01431.370-0.183-0.1830.0000.0000.0000.000
102A105VAL0-0.064-0.01531.793-0.078-0.0780.0000.0000.0000.000
103A106LEU0-0.0280.01434.993-0.144-0.1440.0000.0000.0000.000
104A107PRO00.044-0.00938.668-0.037-0.0370.0000.0000.0000.000
105A108TRP00.0470.00336.2000.1270.1270.0000.0000.0000.000
106A109ASP-1-0.780-0.86832.2709.2479.2470.0000.0000.0000.000
107A110ASP-1-0.829-0.89134.6298.0868.0860.0000.0000.0000.000
108A111PRO0-0.003-0.00233.4320.1650.1650.0000.0000.0000.000
109A112GLY00.0280.02533.5180.2150.2150.0000.0000.0000.000
110A113SER00.009-0.00535.2470.1500.1500.0000.0000.0000.000
111A114LEU0-0.032-0.03329.6940.1540.1540.0000.0000.0000.000
112A115GLU-1-0.801-0.89130.4579.5039.5030.0000.0000.0000.000
113A116GLN0-0.034-0.03031.1290.0950.0950.0000.0000.0000.000
114A117TRP00.011-0.00129.6100.0740.0740.0000.0000.0000.000
115A118GLN00.0140.00925.786-0.062-0.0620.0000.0000.0000.000
116A119ARG10.8420.91726.835-8.878-8.8780.0000.0000.0000.000
117A120ARG10.9020.96729.018-8.708-8.7080.0000.0000.0000.000
118A121LEU0-0.027-0.02024.8920.0240.0240.0000.0000.0000.000
119A122ASP-1-0.923-0.95124.66811.70311.7030.0000.0000.0000.000
120A123CYS0-0.078-0.03121.5180.2410.2410.0000.0000.0000.000
121A124ASP-1-0.803-0.91219.20713.44713.4470.0000.0000.0000.000
122A125ILE00.004-0.00417.643-0.220-0.2200.0000.0000.0000.000
123A126LEU0-0.013-0.00321.5340.0440.0440.0000.0000.0000.000
124A127VAL0-0.023-0.01020.380-0.110-0.1100.0000.0000.0000.000
125A128THR00.0360.00323.795-0.193-0.1930.0000.0000.0000.000
126A129GLY00.004-0.00127.0740.2210.2210.0000.0000.0000.000
127A130HIS10.7720.91428.953-8.810-8.8100.0000.0000.0000.000
128A131THR0-0.035-0.07232.430-0.169-0.1690.0000.0000.0000.000
129A132HIS0-0.0050.02732.002-0.197-0.1970.0000.0000.0000.000
130A133LYS10.9760.99832.711-8.569-8.5690.0000.0000.0000.000
131A134LEU0-0.0140.01126.6260.1710.1710.0000.0000.0000.000
132A135ARG10.7780.86128.261-9.730-9.7300.0000.0000.0000.000
133A136VAL00.0610.03124.7310.3570.3570.0000.0000.0000.000
134A137PHE0-0.061-0.02527.186-0.366-0.3660.0000.0000.0000.000
135A138GLU-1-0.838-0.91026.31111.00711.0070.0000.0000.0000.000
136A139LYS10.8670.93027.901-9.417-9.4170.0000.0000.0000.000
137A140ASN0-0.055-0.03229.065-0.028-0.0280.0000.0000.0000.000
138A141GLY00.001-0.00226.2870.0550.0550.0000.0000.0000.000
139A142LYS10.8360.94723.976-11.154-11.1540.0000.0000.0000.000
140A143LEU00.0040.00220.771-0.285-0.2850.0000.0000.0000.000
141A144PHE0-0.029-0.01724.0830.1220.1220.0000.0000.0000.000
142A145LEU0-0.002-0.00620.907-0.031-0.0310.0000.0000.0000.000
143A146ASN00.0270.01225.1080.0560.0560.0000.0000.0000.000
144A147PRO00.0320.01123.281-0.058-0.0580.0000.0000.0000.000
145A148GLY00.0440.03325.378-0.039-0.0390.0000.0000.0000.000
146A149THR0-0.034-0.01427.9870.1320.1320.0000.0000.0000.000
147A150ALA00.0430.00825.9200.0250.0250.0000.0000.0000.000
148A151THR0-0.064-0.06727.5970.1090.1090.0000.0000.0000.000
149A152GLY0-0.0100.00530.732-0.156-0.1560.0000.0000.0000.000
150A153ALA0-0.0110.01933.293-0.312-0.3120.0000.0000.0000.000
151A154PHE00.008-0.00835.2910.0440.0440.0000.0000.0000.000
152A155SER00.0320.00836.716-0.097-0.0970.0000.0000.0000.000
153A156ALA00.008-0.00838.579-0.005-0.0050.0000.0000.0000.000
154A157LEU0-0.082-0.03037.281-0.088-0.0880.0000.0000.0000.000
155A158THR0-0.043-0.03335.537-0.003-0.0030.0000.0000.0000.000
156A159PRO0-0.046-0.00937.7270.1460.1460.0000.0000.0000.000
157A160ASP-1-0.906-0.96538.6247.5487.5480.0000.0000.0000.000
158A161ALA0-0.0300.00133.6860.1150.1150.0000.0000.0000.000
159A162PRO0-0.031-0.00431.738-0.064-0.0640.0000.0000.0000.000
160A163PRO0-0.015-0.00329.7260.1410.1410.0000.0000.0000.000
161A164SER0-0.035-0.04327.044-0.043-0.0430.0000.0000.0000.000
162A165PHE0-0.023-0.00619.7540.0270.0270.0000.0000.0000.000
163A166MET0-0.038-0.00920.8260.0060.0060.0000.0000.0000.000
164A167LEU00.0020.01515.1480.3000.3000.0000.0000.0000.000
165A168MET00.0020.00415.352-0.398-0.3980.0000.0000.0000.000
166A169ALA0-0.005-0.00212.1800.9820.9820.0000.0000.0000.000
167A170LEU00.0030.00411.198-1.452-1.4520.0000.0000.0000.000
168A171GLN00.027-0.0028.4851.2431.2430.0000.0000.0000.000
169A172GLY00.0440.03610.113-1.589-1.5890.0000.0000.0000.000
170A173ASN00.020-0.00611.874-1.290-1.2900.0000.0000.0000.000
171A174LYS10.8100.89314.224-18.704-18.7040.0000.0000.0000.000
172A175VAL00.0530.03114.4551.1731.1730.0000.0000.0000.000
173A176VAL0-0.001-0.00315.497-0.971-0.9710.0000.0000.0000.000
174A177LEU0-0.031-0.01416.6660.7410.7410.0000.0000.0000.000
175A178TYR0-0.002-0.00715.882-0.936-0.9360.0000.0000.0000.000
176A179VAL00.0240.00420.2900.0900.0900.0000.0000.0000.000
177A180TYR0-0.001-0.01218.509-0.280-0.2800.0000.0000.0000.000
178A181ASP-1-0.738-0.85224.6269.9419.9410.0000.0000.0000.000
179A182LEU0-0.044-0.00428.2610.0970.0970.0000.0000.0000.000
180A183ARG10.8730.89930.501-9.766-9.7660.0000.0000.0000.000
181A184ASP-1-0.894-0.94633.9688.4858.4850.0000.0000.0000.000
182A185GLY0-0.026-0.00634.191-0.019-0.0190.0000.0000.0000.000
183A186LYS10.8940.94729.195-10.332-10.3320.0000.0000.0000.000
184A187THR00.0170.00625.063-0.201-0.2010.0000.0000.0000.000
185A188ASN0-0.101-0.06227.9010.0330.0330.0000.0000.0000.000
186A189VAL00.0250.00721.5340.2200.2200.0000.0000.0000.000
187A190ALA0-0.0080.01424.871-0.304-0.3040.0000.0000.0000.000
188A191MET0-0.0170.00520.3890.4560.4560.0000.0000.0000.000
189A192SER0-0.052-0.02722.140-0.815-0.8150.0000.0000.0000.000
190A193GLU-1-0.824-0.91119.19616.73216.7320.0000.0000.0000.000
191A194PHE0-0.005-0.00520.153-0.853-0.8530.0000.0000.0000.000
192A195SER0-0.016-0.01819.1710.9580.9580.0000.0000.0000.000
193A196LYS10.9781.01119.155-13.439-13.4390.0000.0000.0000.000