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: K3753

Calculation Name: 2QOP-A-Xray319

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2QOP

Chain ID: A

ChEMBL ID:

UniProt ID: P0ACS9

Base Structure: X-ray

Registration Date: 2021-09-07

Reference: C. Watanabe, S. Koyama, K. Kamisaka, D. Takaya, T. Honma et. al., Interaction energy analysis of Apo structure dataset on FMODB, To be pubulished.

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. 1.20200129
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 208
LigandCharge
Software ABINIT-MP - Open Ver.1 Rev. 15 / 20190524
Total energy (hartree)
FMO2-HF: Electronic energy -2365187.949539
FMO2-HF: Nuclear repulsion 2280911.985585
FMO2-HF: Total energy -84275.963954
FMO2-MP2: Total energy -84517.989839


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:6:ACE )


Summations of interaction energy for fragment #1(A:6:ACE )
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.
-0.0881.502-0.004-0.631-0.957-0.002
Interaction energy analysis for fragmet #1(A:6:ACE )
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.007 / q_NPA : -0.015
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].
3A8GLU -1-0.818-0.9073.8090.0211.505-0.004-0.616-0.865-0.002
4A9ALA 0-0.032-0.0134.4090.3930.4990.000-0.015-0.0920.000
5A10GLN 00.038-0.0065.2410.1680.1680.0000.0000.0000.000
6A11GLU -1-0.917-0.9387.644-0.551-0.5510.0000.0000.0000.000
7A12THR 0-0.054-0.0398.7510.1800.1800.0000.0000.0000.000
8A13ARG 10.9080.97210.2280.2950.2950.0000.0000.0000.000
9A14GLN 00.0840.02311.9610.0610.0610.0000.0000.0000.000
10A15HIS 00.0170.02213.8410.0260.0260.0000.0000.0000.000
11A16ILE 0-0.032-0.02314.1770.0430.0430.0000.0000.0000.000
12A17LEU 00.0130.01416.2140.0210.0210.0000.0000.0000.000
13A18ASP -1-0.855-0.92018.299-0.182-0.1820.0000.0000.0000.000
14A19VAL 0-0.072-0.04119.4670.0190.0190.0000.0000.0000.000
15A20ALA 00.004-0.00520.7300.0140.0140.0000.0000.0000.000
16A21LEU 00.0170.02222.5970.0100.0100.0000.0000.0000.000
17A22ARG 10.9360.97321.5220.1040.1040.0000.0000.0000.000
18A23LEU 00.0290.01023.7010.0070.0070.0000.0000.0000.000
19A24PHE 0-0.027-0.01824.2200.0070.0070.0000.0000.0000.000
20A25SER 0-0.018-0.01228.5160.0030.0030.0000.0000.0000.000
21A26GLN 0-0.067-0.04029.0240.0040.0040.0000.0000.0000.000
22A27GLN 0-0.036-0.01429.7610.0020.0020.0000.0000.0000.000
23A28GLY 00.0360.04131.9510.0030.0030.0000.0000.0000.000
24A29VAL 00.0200.00028.142-0.001-0.0010.0000.0000.0000.000
25A30SER 0-0.0100.00030.3490.0030.0030.0000.0000.0000.000
26A31SER 0-0.058-0.02332.7250.0040.0040.0000.0000.0000.000
27A32THR 00.0300.02526.5390.0030.0030.0000.0000.0000.000
28A33SER 0-0.051-0.03126.652-0.001-0.0010.0000.0000.0000.000
29A34LEU 00.1020.02320.196-0.003-0.0030.0000.0000.0000.000
30A35GLY 0-0.064-0.05021.5430.0030.0030.0000.0000.0000.000
31A36GLU -1-0.886-0.94923.310-0.006-0.0060.0000.0000.0000.000
32A37ILE 00.0340.02919.850-0.003-0.0030.0000.0000.0000.000
33A38ALA 0-0.022-0.00418.687-0.005-0.0050.0000.0000.0000.000
34A39LYS 10.9200.95118.963-0.031-0.0310.0000.0000.0000.000
35A40ALA 00.0120.01220.4070.0000.0000.0000.0000.0000.000
36A41ALA 00.0240.02016.548-0.009-0.0090.0000.0000.0000.000
37A42GLY 0-0.063-0.00816.798-0.009-0.0090.0000.0000.0000.000
38A43VAL 00.0090.00813.0610.0180.0180.0000.0000.0000.000
39A44THR 00.011-0.00114.943-0.007-0.0070.0000.0000.0000.000
40A45ARG 11.0080.98116.522-0.052-0.0520.0000.0000.0000.000
41A46GLY 0-0.010-0.00917.020-0.008-0.0080.0000.0000.0000.000
42A47ALA 00.0310.02012.1280.0170.0170.0000.0000.0000.000
43A48ILE 0-0.013-0.00313.411-0.020-0.0200.0000.0000.0000.000
44A49TYR 0-0.014-0.01715.952-0.018-0.0180.0000.0000.0000.000
45A50TRP 0-0.049-0.0019.5670.0260.0260.0000.0000.0000.000
46A51HIS 0-0.042-0.0168.818-0.025-0.0250.0000.0000.0000.000
47A52PHE 00.0310.01313.598-0.020-0.0200.0000.0000.0000.000
48A53LYS 10.9370.96817.3760.0270.0270.0000.0000.0000.000
49A54ASP -1-0.859-0.95920.241-0.008-0.0080.0000.0000.0000.000
50A55LYS 10.9200.95322.5280.0090.0090.0000.0000.0000.000
51A56SER 00.0440.02424.968-0.008-0.0080.0000.0000.0000.000
52A57ASP -1-0.851-0.90619.295-0.066-0.0660.0000.0000.0000.000
53A58LEU 0-0.026-0.00219.158-0.012-0.0120.0000.0000.0000.000
54A59PHE 0-0.002-0.01321.130-0.013-0.0130.0000.0000.0000.000
55A60SER 0-0.009-0.03423.343-0.003-0.0030.0000.0000.0000.000
56A61GLU -1-0.903-0.94517.013-0.166-0.1660.0000.0000.0000.000
57A62ILE 0-0.038-0.00620.077-0.020-0.0200.0000.0000.0000.000
58A63TRP 00.006-0.01622.225-0.008-0.0080.0000.0000.0000.000
59A64GLU -1-0.947-0.94919.781-0.124-0.1240.0000.0000.0000.000
60A65LEU 0-0.054-0.01515.829-0.021-0.0210.0000.0000.0000.000
61A66SER 0-0.109-0.06519.8410.0030.0030.0000.0000.0000.000
62A67GLU -1-0.811-0.89622.028-0.094-0.0940.0000.0000.0000.000
63A68SER 0-0.003-0.00924.649-0.004-0.0040.0000.0000.0000.000
64A69ASN 00.0420.02224.682-0.003-0.0030.0000.0000.0000.000
65A70ILE 0-0.023-0.03826.5310.0020.0020.0000.0000.0000.000
66A71GLY 0-0.0040.00729.1150.0050.0050.0000.0000.0000.000
67A72GLU -1-0.905-0.95424.035-0.165-0.1650.0000.0000.0000.000
68A73LEU 0-0.015-0.01127.8460.0040.0040.0000.0000.0000.000
69A74GLU -1-0.983-0.98730.529-0.076-0.0760.0000.0000.0000.000
70A75LEU 00.0200.00429.0780.0060.0060.0000.0000.0000.000
71A76GLU -1-0.977-0.96529.536-0.116-0.1160.0000.0000.0000.000
72A77TYR 0-0.003-0.03431.6100.0070.0070.0000.0000.0000.000
73A78GLN 00.014-0.00434.8650.0020.0020.0000.0000.0000.000
74A79ALA 0-0.0310.00333.7550.0040.0040.0000.0000.0000.000
75A80LYS 10.8790.94934.1080.0910.0910.0000.0000.0000.000
76A81PHE 0-0.056-0.02137.4770.0050.0050.0000.0000.0000.000
77A82PRO 00.0230.01940.1030.0000.0000.0000.0000.0000.000
78A83GLY 0-0.029-0.01841.3680.0030.0030.0000.0000.0000.000
79A84ASP -1-0.841-0.91342.683-0.048-0.0480.0000.0000.0000.000
80A85PRO 00.0320.01441.589-0.003-0.0030.0000.0000.0000.000
81A86LEU 00.056-0.00342.036-0.001-0.0010.0000.0000.0000.000
82A87SER 0-0.059-0.05542.4830.0000.0000.0000.0000.0000.000
83A88VAL 00.0160.03136.789-0.002-0.0020.0000.0000.0000.000
84A89LEU 0-0.004-0.00638.298-0.003-0.0030.0000.0000.0000.000
85A90ARG 10.8860.95140.2640.0550.0550.0000.0000.0000.000
86A91GLU -1-0.855-0.96037.271-0.068-0.0680.0000.0000.0000.000
87A92ILE 00.0120.02333.909-0.003-0.0030.0000.0000.0000.000
88A93LEU 0-0.016-0.01735.677-0.002-0.0020.0000.0000.0000.000
89A94ILE 0-0.0020.00038.1860.0020.0020.0000.0000.0000.000
90A95HIS 00.0750.04729.5560.0050.0050.0000.0000.0000.000
91A96VAL 0-0.0050.01033.466-0.003-0.0030.0000.0000.0000.000
92A97LEU 0-0.0060.00134.7360.0000.0000.0000.0000.0000.000
93A98GLU -1-0.935-0.96635.576-0.070-0.0700.0000.0000.0000.000
94A99SER 0-0.004-0.01630.4860.0000.0000.0000.0000.0000.000
95A100THR 0-0.020-0.03131.614-0.003-0.0030.0000.0000.0000.000
96A101VAL 0-0.0240.00233.5280.0040.0040.0000.0000.0000.000
97A102THR 0-0.063-0.06132.0420.0020.0020.0000.0000.0000.000
98A103GLU -1-0.913-0.94527.397-0.126-0.1260.0000.0000.0000.000
99A104GLU -1-0.872-0.95726.062-0.093-0.0930.0000.0000.0000.000
100A105ARG 10.8720.93018.4280.2200.2200.0000.0000.0000.000
101A106ARG 10.8750.95025.5150.0970.0970.0000.0000.0000.000
102A107ARG 10.8370.94728.7520.0850.0850.0000.0000.0000.000
103A108LEU 0-0.039-0.03326.3180.0060.0060.0000.0000.0000.000
104A109LEU 00.0370.02826.6170.0070.0070.0000.0000.0000.000
105A110MET 0-0.007-0.01528.6530.0070.0070.0000.0000.0000.000
106A111GLU -1-0.868-0.93431.843-0.043-0.0430.0000.0000.0000.000
107A112ILE 0-0.032-0.01628.4850.0060.0060.0000.0000.0000.000
108A113ILE 0-0.054-0.02830.1370.0050.0050.0000.0000.0000.000
109A114PHE 0-0.005-0.01333.6990.0040.0040.0000.0000.0000.000
110A115HIS 00.0130.02735.7880.0050.0050.0000.0000.0000.000
111A116LYS 10.8230.93632.7420.0450.0450.0000.0000.0000.000
112A117CYS 0-0.022-0.01132.666-0.002-0.0020.0000.0000.0000.000
113A118GLU -1-0.933-0.97632.365-0.018-0.0180.0000.0000.0000.000
114A119PHE 0-0.025-0.03033.8280.0010.0010.0000.0000.0000.000
115A120VAL 00.0090.01035.9220.0020.0020.0000.0000.0000.000
116A121GLY 00.0160.00435.5640.0010.0010.0000.0000.0000.000
117A122GLU -1-0.902-0.97030.104-0.013-0.0130.0000.0000.0000.000
118A123MET 0-0.047-0.00128.641-0.002-0.0020.0000.0000.0000.000
119A124ALA 00.0320.01732.303-0.003-0.0030.0000.0000.0000.000
120A125VAL 00.002-0.00330.059-0.001-0.0010.0000.0000.0000.000
121A126VAL 00.0580.02127.606-0.002-0.0020.0000.0000.0000.000
122A127GLN 00.0160.02530.567-0.002-0.0020.0000.0000.0000.000
123A128GLN 0-0.061-0.04434.1220.0000.0000.0000.0000.0000.000
124A129ALA 00.0120.01529.425-0.001-0.0010.0000.0000.0000.000
125A130GLN 00.0330.00130.805-0.003-0.0030.0000.0000.0000.000
126A131ARG 10.9050.96832.7470.0320.0320.0000.0000.0000.000
127A132ASN 00.0370.00133.6520.0020.0020.0000.0000.0000.000
128A133LEU 00.0280.04029.215-0.001-0.0010.0000.0000.0000.000
129A134CYS 0-0.081-0.03933.295-0.001-0.0010.0000.0000.0000.000
130A135LEU 0-0.012-0.03536.5990.0010.0010.0000.0000.0000.000
131A136GLU -1-0.866-0.92334.541-0.050-0.0500.0000.0000.0000.000
132A137SER 0-0.053-0.01135.446-0.003-0.0030.0000.0000.0000.000
133A138TYR 0-0.047-0.03336.8440.0000.0000.0000.0000.0000.000
134A139ASP -1-0.836-0.91239.236-0.042-0.0420.0000.0000.0000.000
135A140ARG 10.9550.98330.9970.0760.0760.0000.0000.0000.000
136A141ILE 00.0030.01437.945-0.001-0.0010.0000.0000.0000.000
137A142GLU -1-0.892-0.96940.456-0.037-0.0370.0000.0000.0000.000
138A143GLN 00.013-0.00340.7510.0010.0010.0000.0000.0000.000
139A144THR 00.0330.01739.429-0.001-0.0010.0000.0000.0000.000
140A145LEU 0-0.029-0.02141.6350.0010.0010.0000.0000.0000.000
141A146LYS 10.9210.95245.1750.0380.0380.0000.0000.0000.000
142A147HIS 00.0550.04541.228-0.001-0.0010.0000.0000.0000.000
143A148CYS 0-0.012-0.00644.3900.0000.0000.0000.0000.0000.000
144A149ILE 0-0.080-0.03046.9820.0020.0020.0000.0000.0000.000
145A150GLU -1-0.972-0.99246.621-0.041-0.0410.0000.0000.0000.000
146A151ALA 0-0.0160.00047.4840.0010.0010.0000.0000.0000.000
147A152LYS 10.8670.93649.5740.0320.0320.0000.0000.0000.000
148A153MET 00.0030.01747.0470.0000.0000.0000.0000.0000.000
149A154LEU 0-0.007-0.00247.5420.0000.0000.0000.0000.0000.000
150A155PRO 0-0.036-0.01451.6940.0010.0010.0000.0000.0000.000
151A156ALA 00.0360.00453.726-0.001-0.0010.0000.0000.0000.000
152A157ASP -1-0.913-0.94554.992-0.027-0.0270.0000.0000.0000.000
153A158LEU 00.0120.01849.8800.0010.0010.0000.0000.0000.000
154A159MET 0-0.034-0.01152.3890.0000.0000.0000.0000.0000.000
155A160THR 00.0250.00946.9470.0000.0000.0000.0000.0000.000
156A161ARG 10.9941.00943.7210.0350.0350.0000.0000.0000.000
157A162ARG 10.8930.92647.5350.0270.0270.0000.0000.0000.000
158A163ALA 00.0450.02747.6400.0000.0000.0000.0000.0000.000
159A164ALA 00.0300.02043.216-0.002-0.0020.0000.0000.0000.000
160A165ILE 0-0.055-0.03243.556-0.001-0.0010.0000.0000.0000.000
161A166ILE 0-0.0090.00245.3280.0000.0000.0000.0000.0000.000
162A167MET 00.0150.02339.8600.0000.0000.0000.0000.0000.000
163A168ARG 10.9660.97534.8000.0560.0560.0000.0000.0000.000
164A169GLY 00.005-0.00241.255-0.001-0.0010.0000.0000.0000.000
165A170TYR 0-0.047-0.04543.9290.0010.0010.0000.0000.0000.000
166A171ILE 0-0.0020.00538.3800.0000.0000.0000.0000.0000.000
167A172SER 0-0.005-0.02638.302-0.002-0.0020.0000.0000.0000.000
168A173GLY 00.0180.02839.6430.0010.0010.0000.0000.0000.000
169A174LEU 00.0240.00942.3710.0010.0010.0000.0000.0000.000
170A175MET 0-0.044-0.01734.4740.0000.0000.0000.0000.0000.000
171A176GLU -1-0.929-0.96538.757-0.038-0.0380.0000.0000.0000.000
172A177ASN 0-0.032-0.02839.8940.0030.0030.0000.0000.0000.000
173A178TRP 0-0.0220.00035.9880.0000.0000.0000.0000.0000.000
174A179LEU 0-0.057-0.03434.6930.0000.0000.0000.0000.0000.000
175A180PHE 0-0.0410.01738.5140.0020.0020.0000.0000.0000.000
176A181ALA 0-0.034-0.02741.4340.0020.0020.0000.0000.0000.000
177A182PRO 00.0560.05139.6330.0000.0000.0000.0000.0000.000
178A183GLN 0-0.032-0.03541.761-0.002-0.0020.0000.0000.0000.000
179A184SER 0-0.104-0.04444.9860.0010.0010.0000.0000.0000.000
180A185PHE 00.015-0.00143.4450.0010.0010.0000.0000.0000.000
181A186ASP -1-0.863-0.94142.315-0.051-0.0510.0000.0000.0000.000
182A187LEU 00.0300.01038.5020.0000.0000.0000.0000.0000.000
183A188LYS 10.9530.97736.5540.0590.0590.0000.0000.0000.000
184A189LYS 10.8640.92040.0310.0440.0440.0000.0000.0000.000
185A190GLU -1-0.872-0.91643.236-0.040-0.0400.0000.0000.0000.000
186A191ALA 00.0040.01840.2760.0010.0010.0000.0000.0000.000
187A192ARG 10.8980.92940.5900.0590.0590.0000.0000.0000.000
188A193ASP -1-0.859-0.91443.801-0.041-0.0410.0000.0000.0000.000
189A194TYR 0-0.023-0.01743.4820.0020.0020.0000.0000.0000.000
190A195VAL 0-0.0120.00041.2460.0010.0010.0000.0000.0000.000
191A196ALA 00.0160.01244.5880.0000.0000.0000.0000.0000.000
192A197ILE 00.0560.03447.8030.0010.0010.0000.0000.0000.000
193A198LEU 0-0.075-0.02944.1300.0010.0010.0000.0000.0000.000
194A199LEU 0-0.004-0.02344.2730.0010.0010.0000.0000.0000.000
195A200GLU -1-0.935-0.96848.223-0.035-0.0350.0000.0000.0000.000
196A201MET 0-0.049-0.01848.7110.0030.0030.0000.0000.0000.000
197A202TYR 0-0.012-0.01546.2560.0010.0010.0000.0000.0000.000
198A203LEU 00.0360.00551.1610.0010.0010.0000.0000.0000.000
199A204LEU 0-0.052-0.02054.2750.0010.0010.0000.0000.0000.000
200A205CYS 0-0.046-0.00255.1490.0020.0020.0000.0000.0000.000
201A206PRO 00.0960.05056.9740.0000.0000.0000.0000.0000.000
202A207THR 0-0.084-0.02757.693-0.001-0.0010.0000.0000.0000.000
203A208LEU 0-0.008-0.03051.8470.0000.0000.0000.0000.0000.000
204A209ARG 10.8950.96855.3780.0280.0280.0000.0000.0000.000
205A210ASN 0-0.020-0.02056.8880.0000.0000.0000.0000.0000.000
206A211PRO 00.0080.00259.6220.0000.0000.0000.0000.0000.000
207A212ALA 00.0120.00060.7970.0000.0000.0000.0000.0000.000
208A213NME 0-0.0120.01461.1270.0000.0000.0000.0000.0000.000