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: LJG29

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 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 223
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2559108.415352
FMO2-HF: Nuclear repulsion 2467701.37122
FMO2-HF: Total energy -91407.044131
FMO2-MP2: Total energy -91672.34381


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.
-8.906-7.701-0.011-0.496-0.6980.002
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 : -0.977 / q_NPA : -0.999
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-1-0.817-0.9153.86421.58322.788-0.011-0.496-0.6980.002
4A5LEU00.011-0.0206.177-2.525-2.5250.0000.0000.0000.000
5A6PHE00.0090.0348.495-2.155-2.1550.0000.0000.0000.000
6A7TYR00.0610.0339.684-2.959-2.9590.0000.0000.0000.000
7A8ILE0-0.075-0.0389.493-1.893-1.8930.0000.0000.0000.000
8A9LEU00.010-0.00612.004-1.605-1.6050.0000.0000.0000.000
9A10GLY00.0070.01714.048-1.375-1.3750.0000.0000.0000.000
10A11ASN0-0.030-0.02516.077-1.015-1.0150.0000.0000.0000.000
11A12LYS10.9940.99118.542-10.894-10.8940.0000.0000.0000.000
12A13VAL00.0280.01021.088-0.244-0.2440.0000.0000.0000.000
13A14ARG10.8560.94014.082-18.507-18.5070.0000.0000.0000.000
14A15ARG10.9440.96417.267-13.947-13.9470.0000.0000.0000.000
15A16ASP-1-0.794-0.87218.82811.56811.5680.0000.0000.0000.000
16A17LEU0-0.014-0.00219.398-0.137-0.1370.0000.0000.0000.000
17A18LEU00.0240.00514.210-0.113-0.1130.0000.0000.0000.000
18A19SER0-0.0200.00618.484-0.282-0.2820.0000.0000.0000.000
19A20HIS10.8150.89821.061-11.952-11.9520.0000.0000.0000.000
20A21LEU0-0.043-0.02917.528-0.215-0.2150.0000.0000.0000.000
21A22THR0-0.018-0.00718.3280.0160.0160.0000.0000.0000.000
22A23CYS0-0.099-0.04120.832-0.694-0.6940.0000.0000.0000.000
23A24MET0-0.023-0.00320.625-0.401-0.4010.0000.0000.0000.000
24A25GLU-1-0.790-0.88224.37411.47511.4750.0000.0000.0000.000
25A27TYR00.0280.04025.322-0.411-0.4110.0000.0000.0000.000
26A28PHE00.0430.02129.0040.1260.1260.0000.0000.0000.000
27A29SER0-0.045-0.02628.1790.0290.0290.0000.0000.0000.000
28A30LEU0-0.002-0.01521.9120.1190.1190.0000.0000.0000.000
29A31LEU0-0.025-0.01723.8070.4650.4650.0000.0000.0000.000
30A32SER0-0.019-0.01926.638-0.311-0.3110.0000.0000.0000.000
31A33SER0-0.027-0.00729.044-0.048-0.0480.0000.0000.0000.000
32A34LYS10.7780.87631.543-8.906-8.9060.0000.0000.0000.000
33A35VAL0-0.078-0.03726.5520.0810.0810.0000.0000.0000.000
34A36SER00.0290.02829.9500.0460.0460.0000.0000.0000.000
35A37VAL0-0.014-0.02224.3600.1620.1620.0000.0000.0000.000
36A38SER00.0470.02626.8380.0710.0710.0000.0000.0000.000
37A39SER00.0680.02026.0370.3730.3730.0000.0000.0000.000
38A40THR0-0.022-0.01124.5290.6250.6250.0000.0000.0000.000
39A41ALA00.0310.00822.3140.5130.5130.0000.0000.0000.000
40A42VAL00.0400.02720.9640.7030.7030.0000.0000.0000.000
41A43ALA00.0160.00820.0880.7000.7000.0000.0000.0000.000
42A44LYS10.9500.98116.332-15.865-15.8650.0000.0000.0000.000
43A45HIS00.0340.00916.4741.8051.8050.0000.0000.0000.000
44A46LEU00.0210.01615.2251.0511.0510.0000.0000.0000.000
45A47LYS10.8620.92314.335-17.576-17.5760.0000.0000.0000.000
46A48ILE0-0.077-0.04211.6121.3501.3500.0000.0000.0000.000
47A49MET00.0520.02910.3721.6521.6520.0000.0000.0000.000
48A50GLU-1-0.789-0.83810.38120.99120.9910.0000.0000.0000.000
49A51ARG10.8890.9348.965-20.372-20.3720.0000.0000.0000.000
50A52GLU-1-0.855-0.9105.85536.62236.6220.0000.0000.0000.000
51A53GLY00.0480.0345.3334.3094.3090.0000.0000.0000.000
52A54VAL0-0.011-0.0077.181-0.528-0.5280.0000.0000.0000.000
53A55LEU0-0.067-0.0329.511-2.299-2.2990.0000.0000.0000.000
54A56GLN00.0320.01611.6722.7952.7950.0000.0000.0000.000
55A57SER0-0.106-0.08814.009-1.819-1.8190.0000.0000.0000.000
56A58TYR00.0140.00316.672-0.028-0.0280.0000.0000.0000.000
57A59GLU-1-0.867-0.93620.56513.63313.6330.0000.0000.0000.000
58A60LYS10.9230.96423.890-10.513-10.5130.0000.0000.0000.000
59A61GLU-1-0.791-0.91627.46110.11910.1190.0000.0000.0000.000
60A62GLU-1-0.907-0.93930.6268.7688.7680.0000.0000.0000.000
61A63ARG10.7620.86933.705-9.101-9.1010.0000.0000.0000.000
62A64PHE00.0270.01527.4160.0320.0320.0000.0000.0000.000
63A65ILE00.0120.00531.318-0.297-0.2970.0000.0000.0000.000
64A66GLY00.0800.04032.277-0.357-0.3570.0000.0000.0000.000
65A67PRO0-0.035-0.01431.8140.3410.3410.0000.0000.0000.000
66A68THR0-0.033-0.00426.8060.0740.0740.0000.0000.0000.000
67A69LYS10.9420.97427.479-9.710-9.7100.0000.0000.0000.000
68A70LYS10.8820.94018.943-15.356-15.3560.0000.0000.0000.000
69A71TYR0-0.030-0.01122.166-0.166-0.1660.0000.0000.0000.000
70A72TYR00.034-0.01016.5970.6570.6570.0000.0000.0000.000
71A73LYS10.9300.97416.604-15.866-15.8660.0000.0000.0000.000
72A74ILE00.0240.00913.1251.0021.0020.0000.0000.0000.000
73A75SER0-0.023-0.0139.801-1.625-1.6250.0000.0000.0000.000
74A76ILE0-0.0190.0017.4621.4591.4590.0000.0000.0000.000
75A77ALA00.0280.00510.574-1.925-1.9250.0000.0000.0000.000
76A78LYS10.8170.8995.588-31.666-31.6660.0000.0000.0000.000
77A79SER00.0400.03310.866-0.756-0.7560.0000.0000.0000.000
78A80TYR0-0.014-0.0186.0522.0662.0660.0000.0000.0000.000
79A81VAL00.0330.03011.491-1.070-1.0700.0000.0000.0000.000
80A82PHE0-0.013-0.02112.3561.0681.0680.0000.0000.0000.000
81A83THR0-0.024-0.00814.427-0.860-0.8600.0000.0000.0000.000
82A84LEU00.0030.00117.1050.5480.5480.0000.0000.0000.000
83A85THR0-0.0060.00119.425-0.342-0.3420.0000.0000.0000.000
84A86PRO0-0.004-0.01422.4430.3560.3560.0000.0000.0000.000
85A87GLU-1-0.885-0.92724.40810.07510.0750.0000.0000.0000.000
86A88MET0-0.045-0.02019.6440.4060.4060.0000.0000.0000.000
87A89PHE00.001-0.01012.6670.0610.0610.0000.0000.0000.000
88A90TRP0-0.0090.00913.6610.8420.8420.0000.0000.0000.000
89A91TYR00.0290.0006.9080.1150.1150.0000.0000.0000.000
90A92LYS10.9550.9779.490-18.759-18.7590.0000.0000.0000.000
91A93GLY00.0080.0127.055-0.549-0.5490.0000.0000.0000.000
92A94LEU0-0.054-0.0338.1100.2140.2140.0000.0000.0000.000
93A95ASP-1-0.834-0.9118.51029.49929.4990.0000.0000.0000.000
94A96LEU0-0.016-0.00510.993-1.387-1.3870.0000.0000.0000.000
95A97GLY0-0.024-0.02914.1871.0051.0050.0000.0000.0000.000
96A98ASP-1-0.954-0.96316.90912.63412.6340.0000.0000.0000.000
97A99ALA0-0.028-0.01720.1530.0630.0630.0000.0000.0000.000
98A100GLU-1-0.834-0.89221.68112.17212.1720.0000.0000.0000.000
99A101LEU0-0.053-0.03824.0610.0280.0280.0000.0000.0000.000
100A102ARG10.8460.90221.943-12.206-12.2060.0000.0000.0000.000
101A103ASP-1-0.932-0.94926.9709.4789.4780.0000.0000.0000.000
102A104PHE0-0.024-0.01922.5010.2060.2060.0000.0000.0000.000
103A105GLU-1-0.875-0.90627.5928.5568.5560.0000.0000.0000.000
104A106ILE0-0.034-0.02424.8490.2310.2310.0000.0000.0000.000
105A107SER0-0.009-0.02928.342-0.175-0.1750.0000.0000.0000.000
106A108LEU0-0.015-0.01826.9030.1440.1440.0000.0000.0000.000
107A109SER00.0000.01430.990-0.072-0.0720.0000.0000.0000.000
108A110GLY0-0.021-0.02434.3640.0210.0210.0000.0000.0000.000
109A111LEU0-0.078-0.03628.5280.0220.0220.0000.0000.0000.000
110A112ASP-1-0.853-0.93032.9437.5837.5830.0000.0000.0000.000
111A113THR0-0.047-0.02734.0100.1720.1720.0000.0000.0000.000
112A114GLU-1-1.015-1.00735.6927.2557.2550.0000.0000.0000.000
113A115PRO00.0180.03833.656-0.112-0.1120.0000.0000.0000.000
114A116SER0-0.007-0.00436.939-0.070-0.0700.0000.0000.0000.000
115A117THR0-0.076-0.06937.6710.0640.0640.0000.0000.0000.000
116A118LEU00.0720.01930.9720.1350.1350.0000.0000.0000.000
117A119LYS10.9490.97332.732-7.757-7.7570.0000.0000.0000.000
118A120GLU-1-0.788-0.85433.1297.8217.8210.0000.0000.0000.000
119A121MET00.0690.04831.3200.2810.2810.0000.0000.0000.000
120A122ILE0-0.017-0.00927.8760.3190.3190.0000.0000.0000.000
121A123THR0-0.086-0.06228.4680.2720.2720.0000.0000.0000.000
122A124ASP-1-0.786-0.90529.6088.8078.8070.0000.0000.0000.000
123A125PHE0-0.033-0.00521.9240.2060.2060.0000.0000.0000.000
124A126ILE0-0.027-0.02324.4530.4160.4160.0000.0000.0000.000
125A127LYS10.8520.92625.494-8.427-8.4270.0000.0000.0000.000
126A128ALA00.0500.02025.6320.1830.1830.0000.0000.0000.000
127A129ASN0-0.025-0.02321.3890.3310.3310.0000.0000.0000.000
128A130LYS10.8360.90721.570-11.756-11.7560.0000.0000.0000.000
129A131GLU-1-0.767-0.86323.68810.25810.2580.0000.0000.0000.000
130A132LEU00.0040.00118.1850.2220.2220.0000.0000.0000.000
131A133GLU-1-0.870-0.92518.45413.55413.5540.0000.0000.0000.000
132A134LYS10.8140.89519.698-9.725-9.7250.0000.0000.0000.000
133A135VAL00.0140.01420.2320.0820.0820.0000.0000.0000.000
134A136LEU0-0.036-0.01814.8940.3750.3750.0000.0000.0000.000
135A137GLU-1-0.784-0.86516.97415.54915.5490.0000.0000.0000.000
136A138ALA00.0310.03018.7510.0850.0850.0000.0000.0000.000
137A139PHE0-0.030-0.03314.7190.1060.1060.0000.0000.0000.000
138A140LYS10.8530.90314.598-15.880-15.8800.0000.0000.0000.000
139A141THR0-0.016-0.01216.9310.1580.1580.0000.0000.0000.000
140A142ILE0-0.011-0.01220.365-0.176-0.1760.0000.0000.0000.000
141A143GLU-1-0.798-0.87617.07613.38513.3850.0000.0000.0000.000
142A144SER0-0.024-0.00717.6090.4370.4370.0000.0000.0000.000
143A145TYR0-0.0100.00319.129-0.246-0.2460.0000.0000.0000.000
144A146ARG10.8790.90720.932-12.541-12.5410.0000.0000.0000.000
145A147SER0-0.0230.00517.962-0.412-0.4120.0000.0000.0000.000
146A148SER0-0.003-0.01620.806-0.176-0.1760.0000.0000.0000.000
147A149LEU0-0.044-0.02023.067-0.345-0.3450.0000.0000.0000.000
148A150MET00.0610.04023.099-0.500-0.5000.0000.0000.0000.000
149A151ARG10.8310.90723.026-12.139-12.1390.0000.0000.0000.000
150A152LYS10.9510.97124.996-11.045-11.0450.0000.0000.0000.000
151A153ILE00.0400.02828.302-0.324-0.3240.0000.0000.0000.000
152A154LYS10.8090.88024.156-12.234-12.2340.0000.0000.0000.000
153A155GLU-1-0.818-0.88027.73110.54310.5430.0000.0000.0000.000
154A156ALA0-0.004-0.01330.417-0.257-0.2570.0000.0000.0000.000
155A157TYR00.033-0.01032.555-0.209-0.2090.0000.0000.0000.000
156A158LEU0-0.043-0.01330.506-0.200-0.2000.0000.0000.0000.000
157A159LYS10.8310.89131.458-9.753-9.7530.0000.0000.0000.000
158A160GLU-1-0.965-0.96136.3237.8387.8380.0000.0000.0000.000
159A161ILE0-0.037-0.01036.995-0.210-0.2100.0000.0000.0000.000
160A162GLY0-0.0020.00636.188-0.155-0.1550.0000.0000.0000.000
161A163ASP-1-0.822-0.89936.3578.2148.2140.0000.0000.0000.000
162A164MET00.006-0.00631.5310.3390.3390.0000.0000.0000.000
163A165THR0-0.026-0.02332.546-0.269-0.2690.0000.0000.0000.000
164A166GLN00.0340.02733.9830.1410.1410.0000.0000.0000.000
165A167LEU00.0160.01229.3200.1300.1300.0000.0000.0000.000
166A168ALA0-0.029-0.01629.1680.2560.2560.0000.0000.0000.000
167A169ILE00.0080.01129.5390.2270.2270.0000.0000.0000.000
168A170LEU00.0300.02630.9240.0800.0800.0000.0000.0000.000
169A171HIS0-0.005-0.01922.985-0.133-0.1330.0000.0000.0000.000
170A172TYR0-0.026-0.02625.9830.3970.3970.0000.0000.0000.000
171A173LEU0-0.011-0.01727.6300.1330.1330.0000.0000.0000.000
172A174LEU0-0.0030.01327.545-0.030-0.0300.0000.0000.0000.000
173A175LEU0-0.096-0.03622.1180.2270.2270.0000.0000.0000.000
174A176ASN0-0.079-0.03024.8130.3890.3890.0000.0000.0000.000
175A177GLY00.0290.01726.984-0.184-0.1840.0000.0000.0000.000
176A178ARG10.9480.96330.310-8.675-8.6750.0000.0000.0000.000
177A179ALA00.0130.01130.9190.3190.3190.0000.0000.0000.000
178A180THR0-0.032-0.02232.984-0.282-0.2820.0000.0000.0000.000
179A181VAL00.005-0.01235.1140.1750.1750.0000.0000.0000.000
180A182GLU-1-0.840-0.90635.8688.3488.3480.0000.0000.0000.000
181A183GLU-1-0.857-0.91231.3709.0359.0350.0000.0000.0000.000
182A184LEU0-0.008-0.00931.4930.3010.3010.0000.0000.0000.000
183A185SER0-0.074-0.05033.0600.1220.1220.0000.0000.0000.000
184A186ASP-1-0.748-0.87531.5079.5779.5770.0000.0000.0000.000
185A187ARG10.8830.94824.117-11.094-11.0940.0000.0000.0000.000
186A188LEU0-0.018-0.01829.6340.3340.3340.0000.0000.0000.000
187A189ASN0-0.092-0.04630.210-0.102-0.1020.0000.0000.0000.000
188A190LEU00.0020.02334.105-0.168-0.1680.0000.0000.0000.000
189A191LYS10.9010.93937.347-7.221-7.2210.0000.0000.0000.000
190A192GLU-1-0.770-0.89939.3917.4587.4580.0000.0000.0000.000
191A193ARG10.7770.86840.861-6.678-6.6780.0000.0000.0000.000
192A194GLU-1-0.762-0.87640.5487.4337.4330.0000.0000.0000.000
193A195VAL00.0140.01436.7580.0380.0380.0000.0000.0000.000
194A196ARG10.8380.89039.247-7.046-7.0460.0000.0000.0000.000
195A197GLU-1-0.854-0.88442.1236.6356.6350.0000.0000.0000.000
196A198LYS10.8240.87538.239-7.719-7.7190.0000.0000.0000.000
197A199ILE00.0110.00537.8390.0560.0560.0000.0000.0000.000
198A200SER0-0.053-0.02240.068-0.073-0.0730.0000.0000.0000.000
199A201GLU-1-0.836-0.89441.8377.2787.2780.0000.0000.0000.000
200A202MET0-0.003-0.00134.7640.0130.0130.0000.0000.0000.000
201A203ALA0-0.003-0.00440.0910.0280.0280.0000.0000.0000.000
202A204ARG10.8870.96642.057-6.684-6.6840.0000.0000.0000.000
203A205PHE0-0.028-0.02539.573-0.110-0.1100.0000.0000.0000.000
204A206VAL00.0050.00635.7200.1680.1680.0000.0000.0000.000
205A207PRO00.0240.01638.468-0.097-0.0970.0000.0000.0000.000
206A208VAL00.0010.01336.9500.1830.1830.0000.0000.0000.000
207A209LYS10.8370.92239.333-7.171-7.1710.0000.0000.0000.000
208A210ILE0-0.008-0.00539.7540.1930.1930.0000.0000.0000.000
209A211ILE0-0.001-0.00439.068-0.184-0.1840.0000.0000.0000.000
210A212ASN00.006-0.02441.4510.0070.0070.0000.0000.0000.000
211A213ASP-1-0.862-0.91243.9546.4076.4070.0000.0000.0000.000
212A214ASN0-0.012-0.01239.5830.0310.0310.0000.0000.0000.000
213A215THR0-0.014-0.00436.2400.2770.2770.0000.0000.0000.000
214A216VAL0-0.0070.00035.803-0.195-0.1950.0000.0000.0000.000
215A217VAL00.006-0.02334.7930.2510.2510.0000.0000.0000.000
216A218LEU00.0420.02532.149-0.171-0.1710.0000.0000.0000.000
217A219ASP-1-0.849-0.92836.1467.0167.0160.0000.0000.0000.000
218A220GLU-1-0.884-0.95634.6098.3288.3280.0000.0000.0000.000
219A221ASP-1-0.848-0.91837.8297.0937.0930.0000.0000.0000.000
220A222GLN0-0.047-0.01741.294-0.103-0.1030.0000.0000.0000.000
221A223ILE0-0.033-0.01935.600-0.011-0.0110.0000.0000.0000.000
222A224LEU0-0.038-0.01335.1320.0660.0660.0000.0000.0000.000
223A225ARG10.8030.91539.239-7.288-7.2880.0000.0000.0000.000