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: LZRQ9

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 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 193
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2179243.036231
FMO2-HF: Nuclear repulsion 2103648.35478
FMO2-HF: Total energy -75594.68145
FMO2-MP2: Total energy -75813.943514


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.
50.23752.481-0.021-1.098-1.1250.003
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 : -0.908 / q_NPA : -0.971
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].
3A6GLY0-0.031-0.0083.816-3.466-1.222-0.021-1.098-1.1250.003
4A7ASP-1-0.841-0.9065.55528.75528.7550.0000.0000.0000.000
5A8LEU0-0.058-0.0368.084-1.213-1.2130.0000.0000.0000.000
6A9VAL00.0230.00410.959-0.298-0.2980.0000.0000.0000.000
7A10LEU0-0.0080.00513.754-0.658-0.6580.0000.0000.0000.000
8A11LEU0-0.018-0.00916.957-0.318-0.3180.0000.0000.0000.000
9A12ILE00.024-0.00620.017-0.299-0.2990.0000.0000.0000.000
10A13GLY00.0970.03922.9610.0790.0790.0000.0000.0000.000
11A14ASP-1-0.808-0.91326.1539.4479.4470.0000.0000.0000.000
12A15LEU0-0.0240.01225.801-0.140-0.1400.0000.0000.0000.000
13A16LYS10.9000.95830.082-8.770-8.7700.0000.0000.0000.000
14A17ILE0-0.0200.05529.807-0.267-0.2670.0000.0000.0000.000
15A18PRO00.011-0.02633.3730.0810.0810.0000.0000.0000.000
16A19TYR0-0.057-0.03736.070-0.205-0.2050.0000.0000.0000.000
17A20GLY00.0020.00136.681-0.197-0.1970.0000.0000.0000.000
18A21ALA00.0100.00033.830-0.002-0.0020.0000.0000.0000.000
19A22LYS10.9630.97335.020-8.261-8.2610.0000.0000.0000.000
20A23GLU-1-0.945-0.96631.0059.1329.1320.0000.0000.0000.000
21A24LEU00.0130.00224.736-0.080-0.0800.0000.0000.0000.000
22A25PRO00.0400.02827.957-0.131-0.1310.0000.0000.0000.000
23A26SER00.0460.01427.5050.4270.4270.0000.0000.0000.000
24A27ASN00.012-0.00526.7230.3410.3410.0000.0000.0000.000
25A28PHE0-0.0060.00123.9740.3630.3630.0000.0000.0000.000
26A29ARG10.9420.97222.485-11.151-11.1510.0000.0000.0000.000
27A30GLU-1-0.933-0.97820.54813.57913.5790.0000.0000.0000.000
28A31LEU0-0.051-0.01918.7400.7250.7250.0000.0000.0000.000
29A32LEU0-0.008-0.02217.6050.8190.8190.0000.0000.0000.000
30A33ALA0-0.0190.01117.8660.2670.2670.0000.0000.0000.000
31A34THR0-0.052-0.01213.1691.2841.2840.0000.0000.0000.000
32A35ASP-1-0.833-0.93010.32022.24122.2410.0000.0000.0000.000
33A36LYS10.8510.9238.348-28.110-28.1100.0000.0000.0000.000
34A37ILE0-0.0120.0179.0750.8910.8910.0000.0000.0000.000
35A38ASN0-0.009-0.0106.147-1.268-1.2680.0000.0000.0000.000
36A39TYR0-0.024-0.0178.139-0.243-0.2430.0000.0000.0000.000
37A40VAL00.0190.02812.529-0.192-0.1920.0000.0000.0000.000
38A41LEU0-0.038-0.02015.889-0.227-0.2270.0000.0000.0000.000
39A42CYS0-0.008-0.00118.718-0.423-0.4230.0000.0000.0000.000
40A43THR00.031-0.00322.164-0.126-0.1260.0000.0000.0000.000
41A44GLY00.0910.05425.266-0.389-0.3890.0000.0000.0000.000
42A45ASN0-0.067-0.04727.574-0.022-0.0220.0000.0000.0000.000
43A46VAL00.0170.00925.7800.0220.0220.0000.0000.0000.000
44A47CYS0-0.082-0.01628.916-0.116-0.1160.0000.0000.0000.000
45A48SER00.0370.03330.778-0.176-0.1760.0000.0000.0000.000
46A49GLN00.0800.02928.1010.1940.1940.0000.0000.0000.000
47A50GLU-1-0.908-0.95128.1299.8619.8610.0000.0000.0000.000
48A51TYR00.030-0.01426.5460.4870.4870.0000.0000.0000.000
49A52VAL0-0.021-0.00224.7900.5150.5150.0000.0000.0000.000
50A53GLU-1-0.929-0.96723.36110.77510.7750.0000.0000.0000.000
51A54MET0-0.0280.00021.8340.5470.5470.0000.0000.0000.000
52A55LEU00.013-0.02120.5030.6390.6390.0000.0000.0000.000
53A56LYS10.8080.90118.800-12.486-12.4860.0000.0000.0000.000
54A57ASN0-0.042-0.02217.8950.8440.8440.0000.0000.0000.000
55A58ILE0-0.0400.01214.7970.5160.5160.0000.0000.0000.000
56A59THR00.004-0.00610.6861.1891.1890.0000.0000.0000.000
57A60LYS10.9510.9849.992-22.062-22.0620.0000.0000.0000.000
58A61ASN0-0.029-0.0109.524-1.650-1.6500.0000.0000.0000.000
59A62VAL00.0400.02713.5020.1140.1140.0000.0000.0000.000
60A63TYR0-0.003-0.00114.340-0.278-0.2780.0000.0000.0000.000
61A64ILE00.018-0.00119.2800.0110.0110.0000.0000.0000.000
62A65VAL0-0.049-0.00622.897-0.137-0.1370.0000.0000.0000.000
63A66SER0-0.009-0.00425.694-0.088-0.0880.0000.0000.0000.000
64A67GLY0-0.022-0.03129.4030.0110.0110.0000.0000.0000.000
65A68ASP-1-0.905-0.95831.5268.1138.1130.0000.0000.0000.000
66A69LEU0-0.019-0.02134.376-0.225-0.2250.0000.0000.0000.000
67A70ASP-1-0.771-0.88430.3559.4759.4750.0000.0000.0000.000
68A71SER0-0.024-0.01833.654-0.032-0.0320.0000.0000.0000.000
69A72ALA0-0.012-0.00534.933-0.145-0.1450.0000.0000.0000.000
70A73ILE0-0.047-0.00628.6540.1210.1210.0000.0000.0000.000
71A74PHE0-0.022-0.00428.760-0.163-0.1630.0000.0000.0000.000
72A75ASN0-0.016-0.03024.3710.5610.5610.0000.0000.0000.000
73A76PRO0-0.007-0.01023.390-0.188-0.1880.0000.0000.0000.000
74A77ASP-1-0.848-0.91421.20413.02513.0250.0000.0000.0000.000
75A78PRO0-0.0160.01122.656-0.432-0.4320.0000.0000.0000.000
76A79GLU-1-0.951-0.98124.32810.24810.2480.0000.0000.0000.000
77A80SER0-0.060-0.05625.737-0.378-0.3780.0000.0000.0000.000
78A81ASN0-0.031-0.02027.561-0.287-0.2870.0000.0000.0000.000
79A82GLY00.0370.01829.094-0.300-0.3000.0000.0000.0000.000
80A83VAL0-0.029-0.00329.846-0.061-0.0610.0000.0000.0000.000
81A84PHE00.0350.02224.5470.3960.3960.0000.0000.0000.000
82A85PRO0-0.0220.01123.858-0.324-0.3240.0000.0000.0000.000
83A86GLU-1-0.862-0.94527.1078.8058.8050.0000.0000.0000.000
84A87TYR0-0.058-0.04925.331-0.115-0.1150.0000.0000.0000.000
85A88VAL00.0180.01519.6000.0090.0090.0000.0000.0000.000
86A89VAL0-0.026-0.01919.750-0.090-0.0900.0000.0000.0000.000
87A90VAL0-0.018-0.00114.1240.0610.0610.0000.0000.0000.000
88A91GLN0-0.036-0.01812.908-1.167-1.1670.0000.0000.0000.000
89A92ILE0-0.017-0.0159.9820.6190.6190.0000.0000.0000.000
90A93GLY00.0660.0379.396-0.288-0.2880.0000.0000.0000.000
91A94GLU-1-0.980-0.99010.14219.77519.7750.0000.0000.0000.000
92A95PHE0-0.050-0.02213.428-1.305-1.3050.0000.0000.0000.000
93A96LYS10.9020.97514.971-12.041-12.0410.0000.0000.0000.000
94A97ILE0-0.023-0.02214.967-0.563-0.5630.0000.0000.0000.000
95A98GLY00.0210.00618.661-0.090-0.0900.0000.0000.0000.000
96A99LEU00.0000.00520.3780.1100.1100.0000.0000.0000.000
97A100MET00.004-0.01622.933-0.276-0.2760.0000.0000.0000.000
98A101HIS00.0500.04426.558-0.270-0.2700.0000.0000.0000.000
99A102GLY00.0350.01129.0370.0170.0170.0000.0000.0000.000
100A103ASN0-0.015-0.00931.245-0.024-0.0240.0000.0000.0000.000
101A104GLN00.0650.03030.452-0.238-0.2380.0000.0000.0000.000
102A105VAL0-0.067-0.01431.483-0.072-0.0720.0000.0000.0000.000
103A106LEU0-0.0440.00434.702-0.147-0.1470.0000.0000.0000.000
104A107PRO00.049-0.00838.378-0.038-0.0380.0000.0000.0000.000
105A108TRP00.031-0.00935.8770.1180.1180.0000.0000.0000.000
106A109ASP-1-0.830-0.88332.3008.9888.9880.0000.0000.0000.000
107A110ASP-1-0.840-0.90734.3357.9467.9460.0000.0000.0000.000
108A111PRO00.003-0.00333.1380.1640.1640.0000.0000.0000.000
109A112GLY00.0310.02633.2570.2170.2170.0000.0000.0000.000
110A113SER00.0220.00635.0110.1680.1680.0000.0000.0000.000
111A114LEU0-0.025-0.02929.5550.1630.1630.0000.0000.0000.000
112A115GLU-1-0.829-0.91430.2129.3639.3630.0000.0000.0000.000
113A116GLN0-0.047-0.03630.9290.0530.0530.0000.0000.0000.000
114A117TRP00.0210.00529.3680.0940.0940.0000.0000.0000.000
115A118GLN00.0180.01325.826-0.079-0.0790.0000.0000.0000.000
116A119ARG10.8500.93226.666-8.817-8.8170.0000.0000.0000.000
117A120ARG10.9250.97428.890-8.664-8.6640.0000.0000.0000.000
118A121LEU0-0.037-0.02524.7100.0170.0170.0000.0000.0000.000
119A122ASP-1-0.921-0.93824.53311.57211.5720.0000.0000.0000.000
120A123CYS0-0.059-0.01521.3790.2750.2750.0000.0000.0000.000
121A124ASP-1-0.840-0.93719.08213.37913.3790.0000.0000.0000.000
122A125ILE0-0.021-0.01817.350-0.232-0.2320.0000.0000.0000.000
123A126LEU0-0.027-0.01721.2840.0450.0450.0000.0000.0000.000
124A127VAL0-0.025-0.01420.145-0.123-0.1230.0000.0000.0000.000
125A128THR00.0340.00123.493-0.144-0.1440.0000.0000.0000.000
126A129GLY00.004-0.00326.8460.2090.2090.0000.0000.0000.000
127A130HIS10.8040.93328.879-8.697-8.6970.0000.0000.0000.000
128A131THR0-0.045-0.09532.390-0.156-0.1560.0000.0000.0000.000
129A132HIS00.0020.03032.121-0.178-0.1780.0000.0000.0000.000
130A133LYS10.9801.00132.711-8.511-8.5110.0000.0000.0000.000
131A134LEU0-0.0060.01326.3710.1610.1610.0000.0000.0000.000
132A135ARG10.8270.90528.213-9.608-9.6080.0000.0000.0000.000
133A136VAL00.0720.04024.6640.3370.3370.0000.0000.0000.000
134A137PHE0-0.082-0.04126.966-0.361-0.3610.0000.0000.0000.000
135A138GLU-1-0.834-0.89826.01210.81910.8190.0000.0000.0000.000
136A139LYS10.9180.95727.635-9.245-9.2450.0000.0000.0000.000
137A140ASN0-0.089-0.05628.8570.0220.0220.0000.0000.0000.000
138A141GLY0-0.013-0.01726.1120.0640.0640.0000.0000.0000.000
139A142LYS10.8830.97024.088-10.656-10.6560.0000.0000.0000.000
140A143LEU00.0180.00920.477-0.304-0.3040.0000.0000.0000.000
141A144PHE0-0.030-0.01723.8060.1200.1200.0000.0000.0000.000
142A145LEU0-0.005-0.01220.771-0.047-0.0470.0000.0000.0000.000
143A146ASN00.0300.02524.8610.0850.0850.0000.0000.0000.000
144A147PRO00.0290.00823.370-0.069-0.0690.0000.0000.0000.000
145A148GLY00.0400.02825.446-0.042-0.0420.0000.0000.0000.000
146A149THR0-0.025-0.00828.1540.1330.1330.0000.0000.0000.000
147A150ALA00.0440.01026.2320.0200.0200.0000.0000.0000.000
148A151THR0-0.074-0.08627.8420.0760.0760.0000.0000.0000.000
149A152GLY0-0.0030.00830.927-0.152-0.1520.0000.0000.0000.000
150A153ALA0-0.0050.02433.521-0.306-0.3060.0000.0000.0000.000
151A154PHE00.021-0.00335.5990.0380.0380.0000.0000.0000.000
152A155SER00.0150.00136.927-0.085-0.0850.0000.0000.0000.000
153A156ALA00.016-0.00438.749-0.004-0.0040.0000.0000.0000.000
154A157LEU0-0.088-0.03836.969-0.091-0.0910.0000.0000.0000.000
155A158THR0-0.046-0.04935.563-0.010-0.0100.0000.0000.0000.000
156A159PRO0-0.050-0.01137.8960.1420.1420.0000.0000.0000.000
157A160ASP-1-0.918-0.96838.6417.4237.4230.0000.0000.0000.000
158A161ALA0-0.031-0.00133.7430.1090.1090.0000.0000.0000.000
159A162PRO0-0.036-0.00731.615-0.064-0.0640.0000.0000.0000.000
160A163PRO0-0.008-0.00129.7020.1340.1340.0000.0000.0000.000
161A164SER0-0.032-0.04326.934-0.053-0.0530.0000.0000.0000.000
162A165PHE0-0.022-0.00619.6600.0480.0480.0000.0000.0000.000
163A166MET0-0.044-0.00920.664-0.010-0.0100.0000.0000.0000.000
164A167LEU00.0040.01115.1050.2940.2940.0000.0000.0000.000
165A168MET0-0.0060.00815.457-0.343-0.3430.0000.0000.0000.000
166A169ALA00.0000.00211.7900.9410.9410.0000.0000.0000.000
167A170LEU0-0.0060.00010.955-1.279-1.2790.0000.0000.0000.000
168A171GLN00.0290.0018.9051.8541.8540.0000.0000.0000.000
169A172GLY00.0350.03210.056-1.421-1.4210.0000.0000.0000.000
170A173ASN00.021-0.00411.853-0.799-0.7990.0000.0000.0000.000
171A174LYS10.9120.94014.335-19.078-19.0780.0000.0000.0000.000
172A175VAL00.0640.04314.3831.0821.0820.0000.0000.0000.000
173A176VAL00.0140.00915.418-0.864-0.8640.0000.0000.0000.000
174A177LEU0-0.028-0.01716.3780.6800.6800.0000.0000.0000.000
175A178TYR00.004-0.00615.514-0.877-0.8770.0000.0000.0000.000
176A179VAL00.0160.00220.0470.0960.0960.0000.0000.0000.000
177A180TYR00.000-0.01419.2320.0050.0050.0000.0000.0000.000
178A181ASP-1-0.766-0.90124.4669.9499.9490.0000.0000.0000.000
179A182LEU0-0.061-0.00728.1200.0740.0740.0000.0000.0000.000
180A183ARG10.9130.94030.384-9.445-9.4450.0000.0000.0000.000
181A184ASP-1-0.901-0.94433.8288.2688.2680.0000.0000.0000.000
182A185GLY0-0.027-0.00834.099-0.015-0.0150.0000.0000.0000.000
183A186LYS10.9160.95430.023-9.791-9.7910.0000.0000.0000.000
184A187THR00.0130.00024.908-0.202-0.2020.0000.0000.0000.000
185A188ASN0-0.094-0.04227.7040.0080.0080.0000.0000.0000.000
186A189VAL00.0320.01121.3240.2380.2380.0000.0000.0000.000
187A190ALA0-0.0180.00624.635-0.283-0.2830.0000.0000.0000.000
188A191MET0-0.0140.01220.2160.4030.4030.0000.0000.0000.000
189A192SER0-0.051-0.03121.818-0.763-0.7630.0000.0000.0000.000
190A193GLU-1-0.917-0.96719.18216.03316.0330.0000.0000.0000.000
191A194PHE00.0010.00219.989-0.812-0.8120.0000.0000.0000.000
192A195SER0-0.033-0.02419.1710.8980.8980.0000.0000.0000.000
193A196LYS10.9651.00119.035-13.191-13.1910.0000.0000.0000.000