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

tag_button

FMODB ID: 3QZ5L

Calculation Name: 2QLZ-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2QLZ

Chain ID: A

ChEMBL ID:

UniProt ID: Q8U4J2

Base Structure: X-ray

Registration Date: 2023-03-14

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 223
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2558642.745166
FMO2-HF: Nuclear repulsion 2467237.18708
FMO2-HF: Total energy -91405.558086
FMO2-MP2: Total energy -91670.781085


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:2:GLU)


Summations of interaction energy for fragment #1(A:2:GLU)
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.
-11.1-9.927-0.011-0.488-0.6740.002
Interaction energy analysis for fragmet #1(A:2:GLU)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : -1 / q_Mulliken : -0.972 / q_NPA : -0.992
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].
3A4ASP-1-0.813-0.9043.86422.58323.765-0.010-0.485-0.6880.002
4A5LEU00.015-0.0186.233-2.773-2.7730.0000.0000.0000.000
5A6PHE00.0080.0348.615-2.098-2.0980.0000.0000.0000.000
6A7TYR00.0180.0139.908-2.684-2.6840.0000.0000.0000.000
7A8ILE0-0.071-0.0349.415-1.940-1.9400.0000.0000.0000.000
8A9LEU00.022-0.00612.132-1.651-1.6510.0000.0000.0000.000
9A10GLY0-0.0040.01714.147-1.374-1.3740.0000.0000.0000.000
10A11ASN0-0.024-0.02016.173-0.916-0.9160.0000.0000.0000.000
11A12LYS10.9780.97918.610-10.874-10.8740.0000.0000.0000.000
12A13VAL00.0350.01721.006-0.238-0.2380.0000.0000.0000.000
13A14ARG10.8940.95414.450-17.983-17.9830.0000.0000.0000.000
14A15ARG10.9470.96617.652-13.851-13.8510.0000.0000.0000.000
15A16ASP-1-0.811-0.89118.96311.51911.5190.0000.0000.0000.000
16A17LEU0-0.019-0.01219.075-0.125-0.1250.0000.0000.0000.000
17A18LEU00.0210.00314.194-0.122-0.1220.0000.0000.0000.000
18A19SER0-0.018-0.00518.325-0.269-0.2690.0000.0000.0000.000
19A20HIS10.8110.90221.208-11.889-11.8890.0000.0000.0000.000
20A21LEU0-0.034-0.02517.187-0.211-0.2110.0000.0000.0000.000
21A22THR0-0.0080.00518.349-0.004-0.0040.0000.0000.0000.000
22A23CYS0-0.093-0.03220.633-0.643-0.6430.0000.0000.0000.000
23A24MET0-0.015-0.00120.622-0.397-0.3970.0000.0000.0000.000
24A25GLU-1-0.865-0.94424.19811.33011.3300.0000.0000.0000.000
25A27TYR00.0200.02525.626-0.417-0.4170.0000.0000.0000.000
26A28PHE00.0460.02428.8090.1140.1140.0000.0000.0000.000
27A29SER0-0.047-0.03227.9690.0330.0330.0000.0000.0000.000
28A30LEU0-0.006-0.01821.8190.1150.1150.0000.0000.0000.000
29A31LEU0-0.032-0.02223.9240.4760.4760.0000.0000.0000.000
30A32SER00.004-0.00126.438-0.306-0.3060.0000.0000.0000.000
31A33SER0-0.0230.00129.007-0.059-0.0590.0000.0000.0000.000
32A34LYS10.8450.92031.633-8.918-8.9180.0000.0000.0000.000
33A35VAL0-0.073-0.03126.5690.0780.0780.0000.0000.0000.000
34A36SER00.0330.02729.9500.0310.0310.0000.0000.0000.000
35A37VAL0-0.010-0.01424.5170.1620.1620.0000.0000.0000.000
36A38SER00.0420.02326.8270.0300.0300.0000.0000.0000.000
37A39SER00.0460.00826.0380.4000.4000.0000.0000.0000.000
38A40THR0-0.0110.00224.5150.6060.6060.0000.0000.0000.000
39A41ALA00.0440.00222.3450.4970.4970.0000.0000.0000.000
40A42VAL00.0260.02920.9810.6950.6950.0000.0000.0000.000
41A43ALA00.0210.00720.0350.6920.6920.0000.0000.0000.000
42A44LYS10.9320.97815.343-16.706-16.7060.0000.0000.0000.000
43A45HIS00.024-0.00316.4641.7591.7590.0000.0000.0000.000
44A46LEU00.0280.01615.2011.0461.0460.0000.0000.0000.000
45A47LYS10.9620.98814.421-17.078-17.0780.0000.0000.0000.000
46A48ILE0-0.083-0.04211.4831.1981.1980.0000.0000.0000.000
47A49MET00.0470.02410.3531.5731.5730.0000.0000.0000.000
48A50GLU-1-0.858-0.90810.18920.96020.9600.0000.0000.0000.000
49A51ARG10.8810.9318.840-20.079-20.0790.0000.0000.0000.000
50A52GLU-1-0.871-0.9285.82336.29236.2920.0000.0000.0000.000
51A53GLY00.0330.0295.1844.1314.122-0.001-0.0030.0140.000
52A54VAL0-0.019-0.0087.020-0.314-0.3140.0000.0000.0000.000
53A55LEU0-0.069-0.0349.315-2.213-2.2130.0000.0000.0000.000
54A56GLN00.0390.02811.5172.6892.6890.0000.0000.0000.000
55A57SER0-0.115-0.07713.862-1.716-1.7160.0000.0000.0000.000
56A58TYR00.0150.00016.3940.0000.0000.0000.0000.0000.000
57A59GLU-1-0.925-0.97320.35313.01313.0130.0000.0000.0000.000
58A60LYS10.9150.96623.556-10.495-10.4950.0000.0000.0000.000
59A61GLU-1-0.794-0.91727.1869.9589.9580.0000.0000.0000.000
60A62GLU-1-0.913-0.94630.4078.6648.6640.0000.0000.0000.000
61A63ARG10.7490.85333.703-9.040-9.0400.0000.0000.0000.000
62A64PHE00.0460.02327.189-0.009-0.0090.0000.0000.0000.000
63A65ILE00.0240.01730.962-0.303-0.3030.0000.0000.0000.000
64A66GLY00.0590.03532.279-0.286-0.2860.0000.0000.0000.000
65A67PRO0-0.035-0.01431.5570.3290.3290.0000.0000.0000.000
66A68THR0-0.0280.00026.3950.1170.1170.0000.0000.0000.000
67A69LYS10.9300.96527.203-9.686-9.6860.0000.0000.0000.000
68A70LYS10.9901.00218.489-15.159-15.1590.0000.0000.0000.000
69A71TYR0-0.037-0.01321.705-0.190-0.1900.0000.0000.0000.000
70A72TYR00.027-0.01216.5440.6410.6410.0000.0000.0000.000
71A73LYS10.9310.96916.675-15.482-15.4820.0000.0000.0000.000
72A74ILE00.0190.00912.8480.9410.9410.0000.0000.0000.000
73A75SER0-0.004-0.0089.425-1.527-1.5270.0000.0000.0000.000
74A76ILE0-0.0270.0007.1591.4251.4250.0000.0000.0000.000
75A77ALA00.0240.00510.404-1.929-1.9290.0000.0000.0000.000
76A78LYS10.9250.9675.033-34.206-34.2060.0000.0000.0000.000
77A79SER00.0360.03010.987-0.802-0.8020.0000.0000.0000.000
78A80TYR0-0.017-0.0246.2022.4572.4570.0000.0000.0000.000
79A81VAL00.0210.03511.581-1.111-1.1110.0000.0000.0000.000
80A82PHE0-0.009-0.02212.4041.1481.1480.0000.0000.0000.000
81A83THR0-0.019-0.00114.470-0.816-0.8160.0000.0000.0000.000
82A84LEU00.0090.00017.1170.5650.5650.0000.0000.0000.000
83A85THR0-0.0050.00919.442-0.374-0.3740.0000.0000.0000.000
84A86PRO0-0.002-0.01922.4380.3680.3680.0000.0000.0000.000
85A87GLU-1-0.888-0.93324.38510.17110.1710.0000.0000.0000.000
86A88MET0-0.044-0.01719.6180.4050.4050.0000.0000.0000.000
87A89PHE0-0.005-0.01512.5180.0910.0910.0000.0000.0000.000
88A90TRP00.0110.01513.3890.9360.9360.0000.0000.0000.000
89A91TYR00.0350.0037.2550.1220.1220.0000.0000.0000.000
90A92LYS10.9540.9779.516-19.361-19.3610.0000.0000.0000.000
91A93GLY0-0.0150.0017.119-0.482-0.4820.0000.0000.0000.000
92A94LEU0-0.067-0.0418.1690.2920.2920.0000.0000.0000.000
93A95ASP-1-0.886-0.9488.56529.01129.0110.0000.0000.0000.000
94A96LEU0-0.038-0.02211.040-1.464-1.4640.0000.0000.0000.000
95A97GLY0-0.018-0.02414.1870.9790.9790.0000.0000.0000.000
96A98ASP-1-0.938-0.95816.88712.72912.7290.0000.0000.0000.000
97A99ALA0-0.044-0.02420.0980.0610.0610.0000.0000.0000.000
98A100GLU-1-0.920-0.94921.65012.26812.2680.0000.0000.0000.000
99A101LEU0-0.066-0.04324.0320.0260.0260.0000.0000.0000.000
100A102ARG10.9540.96822.780-11.907-11.9070.0000.0000.0000.000
101A103ASP-1-0.910-0.93927.0289.5279.5270.0000.0000.0000.000
102A104PHE0-0.049-0.03022.8120.1860.1860.0000.0000.0000.000
103A105GLU-1-0.872-0.92027.6358.5878.5870.0000.0000.0000.000
104A106ILE0-0.048-0.03324.8050.2350.2350.0000.0000.0000.000
105A107SER0-0.006-0.01028.372-0.191-0.1910.0000.0000.0000.000
106A108LEU0-0.012-0.01926.9700.1560.1560.0000.0000.0000.000
107A109SER0-0.0250.00231.007-0.024-0.0240.0000.0000.0000.000
108A110GLY00.010-0.00534.3730.0250.0250.0000.0000.0000.000
109A111LEU0-0.087-0.04428.5520.0300.0300.0000.0000.0000.000
110A112ASP-1-0.856-0.93232.9387.7067.7060.0000.0000.0000.000
111A113THR0-0.043-0.03033.9980.1540.1540.0000.0000.0000.000
112A114GLU-1-1.034-1.01535.6867.3037.3030.0000.0000.0000.000
113A115PRO00.0520.06933.660-0.123-0.1230.0000.0000.0000.000
114A116SER0-0.008-0.01036.907-0.071-0.0710.0000.0000.0000.000
115A117THR0-0.044-0.02937.5260.0670.0670.0000.0000.0000.000
116A118LEU00.0870.02630.9450.1280.1280.0000.0000.0000.000
117A119LYS10.9400.96732.671-7.842-7.8420.0000.0000.0000.000
118A120GLU-1-0.851-0.91933.0707.8887.8880.0000.0000.0000.000
119A121MET00.0830.05731.2860.2840.2840.0000.0000.0000.000
120A122ILE0-0.030-0.01427.6950.3360.3360.0000.0000.0000.000
121A123THR0-0.087-0.05928.4170.2870.2870.0000.0000.0000.000
122A124ASP-1-0.852-0.94829.5678.9118.9110.0000.0000.0000.000
123A125PHE0-0.039-0.01221.7570.2220.2220.0000.0000.0000.000
124A126ILE0-0.020-0.01624.4810.4090.4090.0000.0000.0000.000
125A127LYS10.9330.97525.461-8.519-8.5190.0000.0000.0000.000
126A128ALA00.0630.02725.5820.1810.1810.0000.0000.0000.000
127A129ASN0-0.017-0.01821.0010.2210.2210.0000.0000.0000.000
128A130LYS10.8350.91821.555-11.687-11.6870.0000.0000.0000.000
129A131GLU-1-0.778-0.88523.68510.33610.3360.0000.0000.0000.000
130A132LEU00.0000.00418.1190.2130.2130.0000.0000.0000.000
131A133GLU-1-0.890-0.94318.26013.84813.8480.0000.0000.0000.000
132A134LYS10.8290.90819.714-9.965-9.9650.0000.0000.0000.000
133A135VAL00.0180.02120.1730.0710.0710.0000.0000.0000.000
134A136LEU0-0.035-0.02214.6600.3730.3730.0000.0000.0000.000
135A137GLU-1-0.872-0.93017.02715.35215.3520.0000.0000.0000.000
136A138ALA00.0360.04218.7920.0660.0660.0000.0000.0000.000
137A139PHE0-0.029-0.03914.9100.0740.0740.0000.0000.0000.000
138A140LYS10.9280.96414.378-16.953-16.9530.0000.0000.0000.000
139A141THR0-0.013-0.01717.0070.1520.1520.0000.0000.0000.000
140A142ILE0-0.006-0.00320.443-0.196-0.1960.0000.0000.0000.000
141A143GLU-1-0.802-0.88217.16113.56713.5670.0000.0000.0000.000
142A144SER0-0.041-0.01617.9450.4100.4100.0000.0000.0000.000
143A145TYR0-0.023-0.00619.232-0.268-0.2680.0000.0000.0000.000
144A146ARG10.8820.91221.255-12.488-12.4880.0000.0000.0000.000
145A147SER0-0.0060.00917.942-0.423-0.4230.0000.0000.0000.000
146A148SER0-0.013-0.01420.890-0.242-0.2420.0000.0000.0000.000
147A149LEU0-0.048-0.01923.067-0.332-0.3320.0000.0000.0000.000
148A150MET00.0590.04123.212-0.498-0.4980.0000.0000.0000.000
149A151ARG10.8980.95622.898-12.206-12.2060.0000.0000.0000.000
150A152LYS10.9620.97524.839-11.129-11.1290.0000.0000.0000.000
151A153ILE00.0360.02728.303-0.320-0.3200.0000.0000.0000.000
152A154LYS10.8690.93422.860-12.680-12.6800.0000.0000.0000.000
153A155GLU-1-0.945-0.97226.95110.76110.7610.0000.0000.0000.000
154A156ALA0-0.008-0.01530.253-0.256-0.2560.0000.0000.0000.000
155A157TYR00.0340.00032.388-0.222-0.2220.0000.0000.0000.000
156A158LEU0-0.034-0.00930.402-0.210-0.2100.0000.0000.0000.000
157A159LYS10.8860.93531.956-9.590-9.5900.0000.0000.0000.000
158A160GLU-1-0.961-0.96236.1587.9047.9040.0000.0000.0000.000
159A161ILE0-0.040-0.01437.140-0.209-0.2090.0000.0000.0000.000
160A162GLY0-0.0010.00836.007-0.154-0.1540.0000.0000.0000.000
161A163ASP-1-0.867-0.93136.1718.1458.1450.0000.0000.0000.000
162A164MET00.021-0.01131.2300.3400.3400.0000.0000.0000.000
163A165THR0-0.040-0.01732.284-0.233-0.2330.0000.0000.0000.000
164A166GLN00.0670.03633.7830.1280.1280.0000.0000.0000.000
165A167LEU00.0210.01228.8890.1220.1220.0000.0000.0000.000
166A168ALA0-0.030-0.01829.1960.2560.2560.0000.0000.0000.000
167A169ILE00.0080.01329.6870.2290.2290.0000.0000.0000.000
168A170LEU00.0360.02431.2460.0850.0850.0000.0000.0000.000
169A171HIS00.002-0.01723.000-0.114-0.1140.0000.0000.0000.000
170A172TYR0-0.047-0.03926.4590.4150.4150.0000.0000.0000.000
171A173LEU0-0.030-0.03427.7710.1270.1270.0000.0000.0000.000
172A174LEU0-0.0010.01427.668-0.020-0.0200.0000.0000.0000.000
173A175LEU0-0.093-0.03522.2850.2380.2380.0000.0000.0000.000
174A176ASN0-0.052-0.01024.7890.4180.4180.0000.0000.0000.000
175A177GLY00.0310.02027.117-0.189-0.1890.0000.0000.0000.000
176A178ARG10.9490.97030.438-8.680-8.6800.0000.0000.0000.000
177A179ALA00.0280.01131.0540.3200.3200.0000.0000.0000.000
178A180THR0-0.0050.02933.122-0.279-0.2790.0000.0000.0000.000
179A181VAL00.0300.00035.2540.1610.1610.0000.0000.0000.000
180A182GLU-1-0.873-0.92536.3528.2178.2170.0000.0000.0000.000
181A183GLU-1-0.945-0.99031.4729.1959.1950.0000.0000.0000.000
182A184LEU0-0.007-0.00931.6180.2880.2880.0000.0000.0000.000
183A185SER0-0.065-0.04033.2050.1310.1310.0000.0000.0000.000
184A186ASP-1-0.791-0.90830.9189.6719.6710.0000.0000.0000.000
185A187ARG10.9050.96924.351-11.008-11.0080.0000.0000.0000.000
186A188LEU0-0.026-0.02029.5690.3320.3320.0000.0000.0000.000
187A189ASN0-0.072-0.02530.076-0.126-0.1260.0000.0000.0000.000
188A190LEU0-0.0040.01333.901-0.166-0.1660.0000.0000.0000.000
189A191LYS10.9840.99637.177-6.991-6.9910.0000.0000.0000.000
190A192GLU-1-0.827-0.94139.5307.4937.4930.0000.0000.0000.000
191A193ARG10.7780.87941.005-6.666-6.6660.0000.0000.0000.000
192A194GLU-1-0.827-0.92540.4337.4837.4830.0000.0000.0000.000
193A195VAL0-0.0010.00736.8790.0410.0410.0000.0000.0000.000
194A196ARG10.8670.90739.395-6.993-6.9930.0000.0000.0000.000
195A197GLU-1-0.864-0.89842.2706.6466.6460.0000.0000.0000.000
196A198LYS10.9280.96338.247-7.787-7.7870.0000.0000.0000.000
197A199ILE00.0100.00537.7850.0560.0560.0000.0000.0000.000
198A200SER0-0.059-0.02440.215-0.071-0.0710.0000.0000.0000.000
199A201GLU-1-0.904-0.95942.0617.1157.1150.0000.0000.0000.000
200A202MET0-0.017-0.00434.9280.0170.0170.0000.0000.0000.000
201A203ALA0-0.005-0.00940.2330.0280.0280.0000.0000.0000.000
202A204ARG10.8870.96642.200-6.662-6.6620.0000.0000.0000.000
203A205PHE0-0.021-0.02439.639-0.109-0.1090.0000.0000.0000.000
204A206VAL0-0.0010.00635.9800.1680.1680.0000.0000.0000.000
205A207PRO00.0300.02538.413-0.103-0.1030.0000.0000.0000.000
206A208VAL00.0140.02437.1550.1840.1840.0000.0000.0000.000
207A209LYS10.9470.98439.472-7.094-7.0940.0000.0000.0000.000
208A210ILE0-0.005-0.00439.8920.1890.1890.0000.0000.0000.000
209A211ILE0-0.016-0.01639.229-0.190-0.1900.0000.0000.0000.000
210A212ASN00.011-0.01941.323-0.003-0.0030.0000.0000.0000.000
211A213ASP-1-0.831-0.88644.0866.4086.4080.0000.0000.0000.000
212A214ASN0-0.018-0.02539.563-0.008-0.0080.0000.0000.0000.000
213A215THR0-0.0190.00036.2620.2730.2730.0000.0000.0000.000
214A216VAL0-0.0080.00135.992-0.200-0.2000.0000.0000.0000.000
215A217VAL0-0.003-0.02734.8840.2400.2400.0000.0000.0000.000
216A218LEU00.0360.02032.253-0.174-0.1740.0000.0000.0000.000
217A219ASP-1-0.937-0.98636.2807.0487.0480.0000.0000.0000.000
218A220GLU-1-0.886-0.96433.8868.4078.4070.0000.0000.0000.000
219A221ASP-1-0.868-0.92537.9537.1077.1070.0000.0000.0000.000
220A222GLN0-0.057-0.01641.415-0.080-0.0800.0000.0000.0000.000
221A223ILE0-0.037-0.02235.810-0.003-0.0030.0000.0000.0000.000
222A224LEU0-0.039-0.01635.2240.0720.0720.0000.0000.0000.000
223A225ARG10.8220.92739.120-7.365-7.3650.0000.0000.0000.000