Manual

About

FMODB

FMODB: The database of quantum mechanical data based on the FMO method

Last updated: 2024-05-02

All entries: 37386

Number of unique PDB entries: 7781

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FMODB ID: GQKN1

Calculation Name: 2QC7-A-Xray308

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2QC7

Chain ID: A

ChEMBL ID:

UniProt ID: P30040

Base Structure: X-ray

Registration Date: 2021-09-06

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. 1.20200116
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 226
LigandCharge
Software ABINIT-MP - Open Ver.1 Rev. 15 / 20190524
Total energy (hartree)
FMO2-HF: Electronic energy -2552481.017769
FMO2-HF: Nuclear repulsion 2464417.990928
FMO2-HF: Total energy -88063.026841
FMO2-MP2: Total energy -88322.367974


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:32:ACE )


Summations of interaction energy for fragment #1(A:32: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.
2.0162.794-0.001-0.348-0.4280
Interaction energy analysis for fragmet #1(A:32:ACE )
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.028 / q_NPA : 0.004
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].
3A34HIS 00.0030.0183.8670.8871.463-0.004-0.255-0.3160.000
4A35THR 0-0.0130.0066.8190.0510.0510.0000.0000.0000.000
5A36LYS 10.8960.9398.9210.2570.2570.0000.0000.0000.000
6A37GLY 00.0610.02412.2020.0440.0440.0000.0000.0000.000
7A38ALA 0-0.0050.01110.6830.0250.0250.0000.0000.0000.000
8A39LEU 00.011-0.00412.226-0.070-0.0700.0000.0000.0000.000
9A40PRO 00.0260.0019.3660.0470.0470.0000.0000.0000.000
10A41LEU 0-0.011-0.00511.649-0.023-0.0230.0000.0000.0000.000
11A42ASP -1-0.757-0.87413.805-0.010-0.0100.0000.0000.0000.000
12A43THR 00.017-0.01015.601-0.002-0.0020.0000.0000.0000.000
13A44VAL 0-0.036-0.00618.382-0.003-0.0030.0000.0000.0000.000
14A45THR 0-0.059-0.02916.120-0.004-0.0040.0000.0000.0000.000
15A46PHE 00.0380.01017.911-0.003-0.0030.0000.0000.0000.000
16A47TYR 0-0.029-0.01419.371-0.004-0.0040.0000.0000.0000.000
17A48LYS 10.9330.95221.9700.0350.0350.0000.0000.0000.000
18A49VAL 00.000-0.00519.006-0.005-0.0050.0000.0000.0000.000
19A50ILE 00.0420.03720.723-0.002-0.0020.0000.0000.0000.000
20A51PRO 00.005-0.00623.625-0.001-0.0010.0000.0000.0000.000
21A52LYS 10.8310.92724.8750.0290.0290.0000.0000.0000.000
22A53SER 0-0.0080.00223.946-0.007-0.0070.0000.0000.0000.000
23A54LYS 10.8900.96226.1390.0040.0040.0000.0000.0000.000
24A55PHE 00.0290.01525.0810.0060.0060.0000.0000.0000.000
25A56VAL 00.0470.01519.777-0.007-0.0070.0000.0000.0000.000
26A57LEU 0-0.041-0.02218.4580.0100.0100.0000.0000.0000.000
27A58VAL 0-0.0100.00516.250-0.001-0.0010.0000.0000.0000.000
28A59LYS 10.9080.9509.388-0.446-0.4460.0000.0000.0000.000
29A60PHE 0-0.007-0.00413.3920.0290.0290.0000.0000.0000.000
30A61ASP -1-0.817-0.9639.8460.6370.6370.0000.0000.0000.000
31A62THR 0-0.0190.0049.625-0.018-0.0180.0000.0000.0000.000
32A63GLN 00.0860.0406.8040.0670.0670.0000.0000.0000.000
33A64TYR 0-0.072-0.0324.1280.1090.3110.003-0.093-0.1120.000
34A65PRO 0-0.0320.0105.4950.0690.0690.0000.0000.0000.000
35A66TYR 0-0.041-0.0386.0810.2800.2800.0000.0000.0000.000
36A67GLY 00.0630.0328.398-0.133-0.1330.0000.0000.0000.000
37A68GLU -1-0.866-0.93711.5290.2080.2080.0000.0000.0000.000
38A69LYS 10.9730.96913.111-0.286-0.2860.0000.0000.0000.000
39A70GLN 00.0550.0267.127-0.014-0.0140.0000.0000.0000.000
40A71ASP -1-0.843-0.98110.3580.1980.1980.0000.0000.0000.000
41A72GLU -1-0.845-0.92011.6740.0360.0360.0000.0000.0000.000
42A73PHE 0-0.030-0.01010.279-0.035-0.0350.0000.0000.0000.000
43A74LYS 10.7990.9457.890-0.233-0.2330.0000.0000.0000.000
44A75ARG 10.9390.97611.708-0.096-0.0960.0000.0000.0000.000
45A76LEU 00.007-0.00615.350-0.016-0.0160.0000.0000.0000.000
46A77ALA 00.0470.05013.528-0.014-0.0140.0000.0000.0000.000
47A78GLU -1-0.967-0.94313.580-0.139-0.1390.0000.0000.0000.000
48A79ASN 0-0.072-0.03816.786-0.013-0.0130.0000.0000.0000.000
49A80SER 0-0.015-0.04618.134-0.003-0.0030.0000.0000.0000.000
50A81ALA 0-0.083-0.04919.389-0.002-0.0020.0000.0000.0000.000
51A82SER 0-0.066-0.02621.104-0.007-0.0070.0000.0000.0000.000
52A83SER 0-0.012-0.02323.9030.0110.0110.0000.0000.0000.000
53A84ASP -1-0.917-0.91924.605-0.044-0.0440.0000.0000.0000.000
54A85ASP -1-0.858-0.94625.991-0.016-0.0160.0000.0000.0000.000
55A86LEU 0-0.094-0.04920.9620.0050.0050.0000.0000.0000.000
56A87LEU 00.0030.02318.212-0.010-0.0100.0000.0000.0000.000
57A88VAL 0-0.0010.00415.2540.0160.0160.0000.0000.0000.000
58A89ALA 0-0.040-0.01914.243-0.028-0.0280.0000.0000.0000.000
59A90GLU -1-0.894-0.9638.7750.1670.1670.0000.0000.0000.000
60A91VAL 0-0.0150.00112.181-0.035-0.0350.0000.0000.0000.000
61A92GLY 00.0660.0339.0010.0360.0360.0000.0000.0000.000
62A93ILE 0-0.030-0.0109.9730.0260.0260.0000.0000.0000.000
63A94SER 0-0.029-0.02211.0850.0850.0850.0000.0000.0000.000
64A95ASP -1-0.886-0.95612.8080.1580.1580.0000.0000.0000.000
65A96TYR 0-0.045-0.01313.925-0.030-0.0300.0000.0000.0000.000
66A97GLY 0-0.015-0.00715.375-0.009-0.0090.0000.0000.0000.000
67A98ASP -1-0.911-0.94715.4570.0580.0580.0000.0000.0000.000
68A99LYS 10.9020.94115.807-0.035-0.0350.0000.0000.0000.000
69A100LEU 00.0460.01210.803-0.008-0.0080.0000.0000.0000.000
70A101ASN 0-0.008-0.00212.867-0.002-0.0020.0000.0000.0000.000
71A102MET 00.0730.03016.0060.0020.0020.0000.0000.0000.000
72A103GLU -1-0.840-0.91118.1190.0490.0490.0000.0000.0000.000
73A104LEU 0-0.052-0.03116.904-0.008-0.0080.0000.0000.0000.000
74A105SER 00.0450.02518.5590.0020.0020.0000.0000.0000.000
75A106GLU -1-0.959-0.97620.2980.1030.1030.0000.0000.0000.000
76A107LYS 10.8530.94622.877-0.059-0.0590.0000.0000.0000.000
77A108TYR 0-0.148-0.13621.677-0.011-0.0110.0000.0000.0000.000
78A109LYS 11.0160.99722.728-0.075-0.0750.0000.0000.0000.000
79A110LEU 0-0.045-0.00318.8760.0030.0030.0000.0000.0000.000
80A111ASP -1-0.809-0.89921.3610.1600.1600.0000.0000.0000.000
81A112LYS 10.8800.92214.961-0.239-0.2390.0000.0000.0000.000
82A113GLU -1-1.013-0.98917.9310.1750.1750.0000.0000.0000.000
83A114SER 0-0.011-0.01919.896-0.002-0.0020.0000.0000.0000.000
84A115TYR 0-0.0620.01914.1940.0100.0100.0000.0000.0000.000
85A116PRO 0-0.073-0.05214.0330.0130.0130.0000.0000.0000.000
86A117VAL 00.0420.01415.546-0.029-0.0290.0000.0000.0000.000
87A118PHE 0-0.023-0.01315.3030.0040.0040.0000.0000.0000.000
88A119TYR 00.0050.00019.511-0.011-0.0110.0000.0000.0000.000
89A120LEU 0-0.015-0.01021.384-0.003-0.0030.0000.0000.0000.000
90A121PHE 0-0.013-0.01020.983-0.001-0.0010.0000.0000.0000.000
91A122ARG 10.9740.96725.079-0.032-0.0320.0000.0000.0000.000
92A123ASP -1-0.846-0.94228.1980.0030.0030.0000.0000.0000.000
93A124GLY 0-0.038-0.01427.418-0.001-0.0010.0000.0000.0000.000
94A125ASP -1-0.823-0.88828.4290.0290.0290.0000.0000.0000.000
95A126PHE 00.0330.01023.8370.0020.0020.0000.0000.0000.000
96A127GLU -1-0.959-0.95626.8440.0440.0440.0000.0000.0000.000
97A128ASN 0-0.172-0.07429.1940.0010.0010.0000.0000.0000.000
98A129PRO 0-0.0180.01324.820-0.003-0.0030.0000.0000.0000.000
99A130VAL 00.0200.00226.8080.0040.0040.0000.0000.0000.000
100A131PRO 00.0380.02324.2260.0030.0030.0000.0000.0000.000
101A132TYR 0-0.0490.00021.752-0.013-0.0130.0000.0000.0000.000
102A133THR 0-0.004-0.01123.3440.0100.0100.0000.0000.0000.000
103A134GLY 00.023-0.00624.503-0.004-0.0040.0000.0000.0000.000
104A135ALA 00.0250.00222.3030.0100.0100.0000.0000.0000.000
105A136VAL 0-0.0070.01616.797-0.010-0.0100.0000.0000.0000.000
106A137LYS 10.9500.98318.218-0.057-0.0570.0000.0000.0000.000
107A138VAL 00.0610.01917.767-0.011-0.0110.0000.0000.0000.000
108A139GLY 0-0.064-0.04320.122-0.008-0.0080.0000.0000.0000.000
109A140ALA 0-0.055-0.03422.902-0.006-0.0060.0000.0000.0000.000
110A141ILE 00.1000.04818.834-0.006-0.0060.0000.0000.0000.000
111A142GLN 00.0580.02221.548-0.010-0.0100.0000.0000.0000.000
112A143ARG 10.9220.96624.189-0.046-0.0460.0000.0000.0000.000
113A144TRP 00.0240.03023.663-0.002-0.0020.0000.0000.0000.000
114A145LEU 00.0680.03621.983-0.002-0.0020.0000.0000.0000.000
115A146LYS 10.9380.96726.646-0.016-0.0160.0000.0000.0000.000
116A147GLY 0-0.055-0.03029.176-0.003-0.0030.0000.0000.0000.000
117A148GLN 0-0.080-0.02728.0320.0020.0020.0000.0000.0000.000
118A149GLY 00.0030.00330.378-0.001-0.0010.0000.0000.0000.000
119A150VAL 0-0.005-0.00825.736-0.002-0.0020.0000.0000.0000.000
120A151TYR 0-0.062-0.02529.1240.0010.0010.0000.0000.0000.000
121A152LEU 0-0.016-0.00524.042-0.002-0.0020.0000.0000.0000.000
122A153GLY 0-0.0080.00827.0890.0020.0020.0000.0000.0000.000
123A154MET 0-0.001-0.01726.2630.0000.0000.0000.0000.0000.000
124A155PRO 00.0600.02422.627-0.006-0.0060.0000.0000.0000.000
125A156GLY 0-0.040-0.02324.6940.0020.0020.0000.0000.0000.000
126A157CYS 0-0.0230.01126.7210.0020.0020.0000.0000.0000.000
127A158LEU 00.020-0.00129.590-0.003-0.0030.0000.0000.0000.000
128A159PRO 00.1150.07431.9180.0020.0020.0000.0000.0000.000
129A160VAL 00.0340.02434.9780.0020.0020.0000.0000.0000.000
130A161TYR 0-0.005-0.02934.8510.0010.0010.0000.0000.0000.000
131A162ASP -1-0.883-0.91533.681-0.022-0.0220.0000.0000.0000.000
132A163ALA 0-0.038-0.02236.6070.0020.0020.0000.0000.0000.000
133A164LEU 00.0190.00639.5950.0010.0010.0000.0000.0000.000
134A165ALA 00.0110.01938.3730.0010.0010.0000.0000.0000.000
135A166GLY 00.0400.01640.3900.0020.0020.0000.0000.0000.000
136A167GLU -1-1.014-1.01342.372-0.016-0.0160.0000.0000.0000.000
137A168PHE 0-0.013-0.02543.1510.0010.0010.0000.0000.0000.000
138A169ILE 0-0.036-0.01542.7830.0010.0010.0000.0000.0000.000
139A170ARG 10.8730.95244.7380.0130.0130.0000.0000.0000.000
140A171ALA 0-0.052-0.01348.1970.0010.0010.0000.0000.0000.000
141A172SER 00.0500.03050.2230.0000.0000.0000.0000.0000.000
142A173GLY 00.0290.01851.175-0.001-0.0010.0000.0000.0000.000
143A174VAL 0-0.073-0.04851.903-0.001-0.0010.0000.0000.0000.000
144A175GLU -1-0.789-0.99550.730-0.014-0.0140.0000.0000.0000.000
145A176ALA 00.0900.07147.607-0.001-0.0010.0000.0000.0000.000
146A177ARG 10.9760.96847.1660.0170.0170.0000.0000.0000.000
147A178GLN 0-0.0350.04547.761-0.001-0.0010.0000.0000.0000.000
148A179ALA 00.0230.02545.027-0.001-0.0010.0000.0000.0000.000
149A180LEU 0-0.007-0.01642.243-0.002-0.0020.0000.0000.0000.000
150A181LEU 0-0.029-0.02743.531-0.002-0.0020.0000.0000.0000.000
151A182LYS 10.9480.98042.6640.0230.0230.0000.0000.0000.000
152A183GLN 0-0.013-0.01140.008-0.003-0.0030.0000.0000.0000.000
153A184GLY 00.0380.01939.630-0.002-0.0020.0000.0000.0000.000
154A185GLN 0-0.045-0.03541.052-0.001-0.0010.0000.0000.0000.000
155A186ASP -1-0.877-0.92938.250-0.036-0.0360.0000.0000.0000.000
156A187ASN 00.0040.00534.9030.0000.0000.0000.0000.0000.000
157A188LEU 0-0.057-0.00835.657-0.004-0.0040.0000.0000.0000.000
158A189SER 00.027-0.00236.538-0.002-0.0020.0000.0000.0000.000
159A190SER 0-0.099-0.09532.003-0.001-0.0010.0000.0000.0000.000
160A191VAL 00.0280.06328.729-0.006-0.0060.0000.0000.0000.000
161A192LYS 10.8840.95322.0530.1200.1200.0000.0000.0000.000
162A193GLU -1-0.721-0.86026.350-0.082-0.0820.0000.0000.0000.000
163A194THR 0-0.123-0.07622.507-0.003-0.0030.0000.0000.0000.000
164A195GLN 00.069-0.00424.8740.0060.0060.0000.0000.0000.000
165A196LYS 10.9280.98527.1220.0810.0810.0000.0000.0000.000
166A197LYS 10.9550.99323.3310.0970.0970.0000.0000.0000.000
167A198TRP 0-0.009-0.00822.9170.0020.0020.0000.0000.0000.000
168A199ALA 00.0920.05029.6440.0060.0060.0000.0000.0000.000
169A200GLU -1-0.872-0.95932.589-0.056-0.0560.0000.0000.0000.000
170A201GLN 00.0200.06029.0270.0070.0070.0000.0000.0000.000
171A202TYR 00.040-0.02332.1090.0020.0020.0000.0000.0000.000
172A203LEU 00.0670.04835.4590.0030.0030.0000.0000.0000.000
173A204LYS 10.8390.91335.6470.0460.0460.0000.0000.0000.000
174A205ILE 0-0.054-0.01833.9180.0020.0020.0000.0000.0000.000
175A206MET 0-0.010-0.00838.0790.0020.0020.0000.0000.0000.000
176A207GLY 0-0.024-0.02241.3600.0020.0020.0000.0000.0000.000
177A208LYS 10.9560.98835.8930.0340.0340.0000.0000.0000.000
178A209ILE 0-0.097-0.01041.0020.0020.0020.0000.0000.0000.000
179A210LEU 0-0.095-0.02744.0290.0010.0010.0000.0000.0000.000
180A211ASP -1-0.919-0.94244.624-0.022-0.0220.0000.0000.0000.000
181A212GLN 0-0.067-0.03641.7270.0030.0030.0000.0000.0000.000
182A213GLY 00.1080.04645.9150.0010.0010.0000.0000.0000.000
183A214GLU -1-0.872-0.96545.388-0.011-0.0110.0000.0000.0000.000
184A215ASP -1-0.946-0.96444.750-0.007-0.0070.0000.0000.0000.000
185A216PHE 0-0.069-0.02938.0860.0000.0000.0000.0000.0000.000
186A217PRO 00.028-0.00138.6970.0000.0000.0000.0000.0000.000
187A218ALA 00.025-0.00538.4510.0000.0000.0000.0000.0000.000
188A219SER 00.0330.04239.0630.0010.0010.0000.0000.0000.000
189A220GLU -1-0.884-0.94735.211-0.023-0.0230.0000.0000.0000.000
190A221MET 0-0.0130.01534.025-0.001-0.0010.0000.0000.0000.000
191A222THR 00.001-0.00234.0610.0030.0030.0000.0000.0000.000
192A223ARG 10.8840.94132.2640.0250.0250.0000.0000.0000.000
193A224ILE 0-0.010-0.02628.8230.0010.0010.0000.0000.0000.000
194A225ALA 00.0320.02729.8050.0010.0010.0000.0000.0000.000
195A226ARG 10.9140.96930.5600.0020.0020.0000.0000.0000.000
196A227LEU 0-0.0120.00028.0320.0030.0030.0000.0000.0000.000
197A228ILE 00.0240.01524.7860.0010.0010.0000.0000.0000.000
198A229GLU -1-0.918-0.94625.7420.0210.0210.0000.0000.0000.000
199A230LYS 10.8410.90126.906-0.009-0.0090.0000.0000.0000.000
200A231ASN 00.0530.04120.992-0.003-0.0030.0000.0000.0000.000
201A232LYS 10.9280.98022.941-0.007-0.0070.0000.0000.0000.000
202A233MET 0-0.079-0.05021.648-0.011-0.0110.0000.0000.0000.000
203A234SER 00.0290.01416.3940.0100.0100.0000.0000.0000.000
204A235ASP -1-0.791-0.91314.7880.0260.0260.0000.0000.0000.000
205A236GLY 0-0.042-0.01416.142-0.004-0.0040.0000.0000.0000.000
206A237LYS 10.9800.98117.2300.0690.0690.0000.0000.0000.000
207A238LYS 10.9180.96319.478-0.004-0.0040.0000.0000.0000.000
208A239GLU -1-0.875-0.92918.584-0.030-0.0300.0000.0000.0000.000
209A240GLU -1-0.972-0.99420.752-0.086-0.0860.0000.0000.0000.000
210A241LEU 0-0.061-0.03623.1500.0040.0040.0000.0000.0000.000
211A242GLN 00.0400.03123.3530.0040.0040.0000.0000.0000.000
212A243LYS 10.8880.96321.3660.0710.0710.0000.0000.0000.000
213A244SER 00.012-0.05025.9790.0040.0040.0000.0000.0000.000
214A245LEU 0-0.101-0.03928.3000.0030.0030.0000.0000.0000.000
215A246ASN 00.035-0.02425.7980.0070.0070.0000.0000.0000.000
216A247ILE 0-0.055-0.02229.6750.0010.0010.0000.0000.0000.000
217A248LEU 0-0.003-0.01732.0830.0020.0020.0000.0000.0000.000
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