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: QYY5Y

Calculation Name: 4TQL-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4TQL

Chain ID: A

ChEMBL ID:

UniProt ID:

Base Structure: X-ray

Registration Date: 2023-06-21

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 231
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2574258.890453
FMO2-HF: Nuclear repulsion 2475016.201116
FMO2-HF: Total energy -99242.689336
FMO2-MP2: Total energy -99523.899367


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:9:TYR)


Summations of interaction energy for fragment #1(A:9:TYR)
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.
-34.264-22.86521.469-10.294-22.567-0.026
Interaction energy analysis for fragmet #1(A:9:TYR)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.067 / q_NPA : 0.017
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].
3A11GLN00.0460.0273.177-4.018-1.633-0.004-1.082-1.2990.003
4A12MET0-0.0120.0192.883-1.1440.1950.199-0.401-1.1370.000
5A13VAL0-0.020-0.0052.835-2.383-0.6702.552-0.968-3.2980.010
6A14GLN0-0.021-0.0265.298-0.506-0.348-0.001-0.013-0.1430.000
7A15GLU-1-0.777-0.8958.011-0.394-0.3940.0000.0000.0000.000
8A16LEU00.0130.0094.646-0.112-0.010-0.001-0.002-0.0980.000
9A17GLU-1-0.841-0.9238.4310.4240.4240.0000.0000.0000.000
10A18LYS10.8760.93810.435-0.003-0.0030.0000.0000.0000.000
11A19ALA0-0.030-0.01211.3990.0160.0160.0000.0000.0000.000
12A20ARG10.9160.94610.5050.0520.0520.0000.0000.0000.000
13A21ASP-1-0.854-0.92013.5290.0900.0900.0000.0000.0000.000
14A22ARG10.8730.93213.5990.3450.3450.0000.0000.0000.000
15A23MET0-0.026-0.00413.5700.0000.0000.0000.0000.0000.000
16A24GLU-1-0.783-0.89517.869-0.001-0.0010.0000.0000.0000.000
17A25LYS10.8360.92519.287-0.020-0.0200.0000.0000.0000.000
18A26LEU00.0030.00220.081-0.001-0.0010.0000.0000.0000.000
19A27TYR0-0.002-0.00622.0910.0130.0130.0000.0000.0000.000
20A28LYS10.8810.91722.5520.0090.0090.0000.0000.0000.000
21A29GLU-1-0.911-0.93925.144-0.087-0.0870.0000.0000.0000.000
22A30MET0-0.031-0.00626.8060.0020.0020.0000.0000.0000.000
23A31VAL0-0.032-0.02227.1160.0040.0040.0000.0000.0000.000
24A32GLU-1-0.843-0.90829.640-0.011-0.0110.0000.0000.0000.000
25A33LEU0-0.049-0.02831.4290.0050.0050.0000.0000.0000.000
26A34ILE0-0.021-0.01230.5550.0040.0040.0000.0000.0000.000
27A35GLN00.0320.01333.7730.0030.0030.0000.0000.0000.000
28A36LYS10.9110.94533.9020.0320.0320.0000.0000.0000.000
29A37ALA00.0200.01537.1980.0020.0020.0000.0000.0000.000
30A38ILE00.008-0.01336.4170.0020.0020.0000.0000.0000.000
31A39GLU-1-0.886-0.93739.956-0.012-0.0120.0000.0000.0000.000
32A40LEU0-0.036-0.02541.4730.0030.0030.0000.0000.0000.000
33A41MET0-0.0190.01539.5920.0010.0010.0000.0000.0000.000
34A42ARG10.9220.96244.2850.0150.0150.0000.0000.0000.000
35A43LYS10.8890.92943.6640.0200.0200.0000.0000.0000.000
36A44ILE00.0420.03346.1670.0010.0010.0000.0000.0000.000
37A45PHE0-0.039-0.01548.7040.0010.0010.0000.0000.0000.000
38A46GLN0-0.017-0.02550.0030.0020.0020.0000.0000.0000.000
39A47GLU-1-0.918-0.94652.108-0.028-0.0280.0000.0000.0000.000
40A48VAL00.0900.03353.3250.0010.0010.0000.0000.0000.000
41A49LYS10.7890.88554.7040.0150.0150.0000.0000.0000.000
42A50GLN0-0.007-0.01855.3790.0010.0010.0000.0000.0000.000
43A51GLU-1-0.804-0.89058.188-0.017-0.0170.0000.0000.0000.000
44A52VAL0-0.030-0.01858.6120.0000.0000.0000.0000.0000.000
45A53GLU-1-0.861-0.92360.207-0.012-0.0120.0000.0000.0000.000
46A54LYS10.8890.94459.6960.0160.0160.0000.0000.0000.000
47A55ALA00.0390.01964.0660.0000.0000.0000.0000.0000.000
48A56ILE0-0.020-0.01463.6880.0000.0000.0000.0000.0000.000
49A57GLU-1-0.895-0.94766.744-0.008-0.0080.0000.0000.0000.000
50A58GLU-1-0.916-0.94968.657-0.015-0.0150.0000.0000.0000.000
51A59MET0-0.014-0.00667.4010.0000.0000.0000.0000.0000.000
52A60LYS10.8390.91271.3200.0090.0090.0000.0000.0000.000
53A61LYS10.8730.92370.4800.0100.0100.0000.0000.0000.000
54A62LEU00.0070.00873.1970.0000.0000.0000.0000.0000.000
55A63TYR0-0.0040.00875.8360.0010.0010.0000.0000.0000.000
56A64ASP-1-0.784-0.90477.013-0.008-0.0080.0000.0000.0000.000
57A65GLU-1-0.906-0.95678.983-0.012-0.0120.0000.0000.0000.000
58A66ALA00.0410.01880.3320.0000.0000.0000.0000.0000.000
59A67LYS10.8800.94481.8270.0080.0080.0000.0000.0000.000
60A68LYS10.9350.97480.5900.0080.0080.0000.0000.0000.000
61A69LYS10.8960.94185.3410.0110.0110.0000.0000.0000.000
62A70ILE00.0300.00184.4830.0000.0000.0000.0000.0000.000
63A71GLU-1-0.882-0.93387.266-0.007-0.0070.0000.0000.0000.000
64A72GLN00.0340.00389.3760.0000.0000.0000.0000.0000.000
65A73MET0-0.037-0.00688.6090.0000.0000.0000.0000.0000.000
66A74ILE00.0220.01589.6850.0000.0000.0000.0000.0000.000
67A75GLN0-0.0030.01493.6160.0000.0000.0000.0000.0000.000
68A76GLN0-0.019-0.01993.6040.0000.0000.0000.0000.0000.000
69A77ILE0-0.012-0.00794.4910.0000.0000.0000.0000.0000.000
70A78LYS10.8680.93294.2750.0070.0070.0000.0000.0000.000
71A79GLN0-0.0150.00299.5850.0000.0000.0000.0000.0000.000
72A80GLY0-0.069-0.035101.1590.0000.0000.0000.0000.0000.000
73A81GLY00.0400.004102.1990.0000.0000.0000.0000.0000.000
74A82ASP-1-0.755-0.874104.723-0.009-0.0090.0000.0000.0000.000
75A83LYS10.8870.941100.0580.0100.0100.0000.0000.0000.000
76A84GLN0-0.052-0.031101.520-0.001-0.0010.0000.0000.0000.000
77A85LYS10.9740.99199.9810.0070.0070.0000.0000.0000.000
78A86MET0-0.0120.00298.7830.0000.0000.0000.0000.0000.000
79A87GLU-1-0.835-0.91796.905-0.011-0.0110.0000.0000.0000.000
80A88GLU-1-0.806-0.88295.776-0.012-0.0120.0000.0000.0000.000
81A89LEU0-0.043-0.02794.5660.0000.0000.0000.0000.0000.000
82A90LEU0-0.015-0.00992.4900.0000.0000.0000.0000.0000.000
83A91LYS10.8280.92191.0810.0130.0130.0000.0000.0000.000
84A92ARG10.8600.90290.1660.0100.0100.0000.0000.0000.000
85A93ALA0-0.007-0.00588.1960.0000.0000.0000.0000.0000.000
86A94LYS10.9770.97786.4610.0140.0140.0000.0000.0000.000
87A95GLU-1-0.824-0.89285.335-0.014-0.0140.0000.0000.0000.000
88A96GLU-1-0.818-0.88283.702-0.013-0.0130.0000.0000.0000.000
89A97MET00.001-0.00181.5790.0000.0000.0000.0000.0000.000
90A98LYS10.8460.92279.6710.0190.0190.0000.0000.0000.000
91A99LYS10.9010.94079.7180.0120.0120.0000.0000.0000.000
92A100VAL00.001-0.00676.872-0.001-0.0010.0000.0000.0000.000
93A101LYS10.8670.93673.8370.0200.0200.0000.0000.0000.000
94A102ASP-1-0.797-0.88474.878-0.020-0.0200.0000.0000.0000.000
95A103LYS10.7590.88873.9660.0130.0130.0000.0000.0000.000
96A104MET0-0.032-0.01571.485-0.001-0.0010.0000.0000.0000.000
97A105GLU-1-0.846-0.91870.063-0.023-0.0230.0000.0000.0000.000
98A106LYS10.9450.96969.3430.0190.0190.0000.0000.0000.000
99A107LEU0-0.059-0.02667.029-0.001-0.0010.0000.0000.0000.000
100A108LEU0-0.001-0.00465.488-0.001-0.0010.0000.0000.0000.000
101A109GLU-1-0.890-0.93364.305-0.033-0.0330.0000.0000.0000.000
102A110LYS10.9070.94863.4620.0190.0190.0000.0000.0000.000
103A111LEU00.001-0.00261.128-0.001-0.0010.0000.0000.0000.000
104A112LYS10.9090.96359.6330.0320.0320.0000.0000.0000.000
105A113GLN00.0430.01658.601-0.002-0.0020.0000.0000.0000.000
106A114ILE00.0610.03856.760-0.002-0.0020.0000.0000.0000.000
107A115MET0-0.061-0.02752.660-0.001-0.0010.0000.0000.0000.000
108A116GLN00.0000.00153.786-0.001-0.0010.0000.0000.0000.000
109A117GLU-1-0.845-0.90653.074-0.039-0.0390.0000.0000.0000.000
110A118ALA0-0.017-0.01950.986-0.002-0.0020.0000.0000.0000.000
111A119LYN00.0280.03849.277-0.001-0.0010.0000.0000.0000.000
112A120GLN00.008-0.00248.173-0.004-0.0040.0000.0000.0000.000
113A121LYS10.8400.92247.3690.0330.0330.0000.0000.0000.000
114A122MET0-0.018-0.00644.797-0.003-0.0030.0000.0000.0000.000
115A123GLU-1-0.868-0.93143.407-0.066-0.0660.0000.0000.0000.000
116A124LYS10.9210.96942.7650.0550.0550.0000.0000.0000.000
117A125LEU0-0.005-0.00340.817-0.005-0.0050.0000.0000.0000.000
118A126LEU00.0110.01138.837-0.007-0.0070.0000.0000.0000.000
119A127LYS10.9200.96237.8270.0870.0870.0000.0000.0000.000
120A128GLN00.0300.00637.198-0.004-0.0040.0000.0000.0000.000
121A129LEU00.0200.01534.425-0.006-0.0060.0000.0000.0000.000
122A130LYS10.9450.96833.1690.0910.0910.0000.0000.0000.000
123A131GLU-1-0.830-0.88832.542-0.164-0.1640.0000.0000.0000.000
124A132GLU-1-0.828-0.89631.525-0.136-0.1360.0000.0000.0000.000
125A133MET00.011-0.00227.513-0.012-0.0120.0000.0000.0000.000
126A134LYS10.8660.91027.6870.1510.1510.0000.0000.0000.000
127A135LYS10.8110.89927.4180.1150.1150.0000.0000.0000.000
128A136MET0-0.039-0.02724.072-0.027-0.0270.0000.0000.0000.000
129A137LYS10.9350.95922.5710.3330.3330.0000.0000.0000.000
130A138GLU-1-0.887-0.94922.424-0.351-0.3510.0000.0000.0000.000
131A139LYS10.8870.95422.1890.1480.1480.0000.0000.0000.000
132A140MET0-0.017-0.00318.773-0.045-0.0450.0000.0000.0000.000
133A141GLU-1-0.807-0.89017.692-0.500-0.5000.0000.0000.0000.000
134A142LYS10.8750.94118.3540.3220.3220.0000.0000.0000.000
135A143LEU0-0.006-0.01014.738-0.061-0.0610.0000.0000.0000.000
136A144LEU00.0280.00612.686-0.137-0.1370.0000.0000.0000.000
137A145LYS10.9130.96113.8780.3830.3830.0000.0000.0000.000
138A146GLU-1-0.824-0.90214.475-0.576-0.5760.0000.0000.0000.000
139A147MET0-0.017-0.0059.042-0.050-0.0500.0000.0000.0000.000
140A148LYS10.9690.98010.0820.7200.7200.0000.0000.0000.000
141A149GLN0-0.0110.00112.203-0.047-0.0470.0000.0000.0000.000
142A150ARG10.9300.9649.2410.7570.7570.0000.0000.0000.000
143A151MET0-0.030-0.0067.524-0.191-0.1910.0000.0000.0000.000
144A152GLU-1-0.846-0.9228.787-1.024-1.0240.0000.0000.0000.000
145A153GLU-1-0.933-0.96510.129-0.863-0.8630.0000.0000.0000.000
146A154VAL0-0.049-0.0434.373-0.146-0.026-0.001-0.010-0.1090.000
147A155LYS10.8690.9327.6931.2631.2630.0000.0000.0000.000
148A156LYS10.8660.94610.2940.9560.9560.0000.0000.0000.000
149A157LYS10.9170.9629.7460.8260.8260.0000.0000.0000.000
150A158MET0-0.043-0.0136.3920.2290.2290.0000.0000.0000.000
151A159ASP-1-0.867-0.9369.025-1.005-1.0050.0000.0000.0000.000
152A160GLY0-0.0230.0039.5850.1630.1630.0000.0000.0000.000
153A161ASP-1-0.918-0.9665.440-2.150-2.1500.0000.0000.0000.000
154A162ASP-1-0.870-0.9488.253-0.886-0.8860.0000.0000.0000.000
155A163GLU-1-0.866-0.9256.6200.7260.7260.0000.0000.0000.000
156A164LEU00.003-0.0142.475-1.914-0.0480.968-0.610-2.223-0.002
157A165LEU00.0570.0394.780-1.356-1.1200.000-0.013-0.2230.000
158A166GLU-1-0.764-0.8796.672-2.239-2.2390.0000.0000.0000.000
159A167LYS10.7840.8872.450-4.472-2.9555.156-1.752-4.9200.009
160A168ILE0-0.029-0.0141.973-20.005-18.4039.874-4.540-6.935-0.049
161A169LYS10.8170.8823.3683.1843.1840.0330.136-0.1690.000
162A170LYS10.9791.0085.4311.6711.6710.0000.0000.0000.000
163A171ASN0-0.030-0.0212.440-2.443-2.1292.695-1.039-1.9690.003
164A172ILE00.0100.0035.2941.0241.071-0.0010.000-0.0440.000
165A173ASP-1-0.846-0.9138.141-0.763-0.7630.0000.0000.0000.000
166A174ASP-1-0.887-0.9408.222-0.256-0.2560.0000.0000.0000.000
167A175LEU0-0.010-0.0118.1870.2950.2950.0000.0000.0000.000
168A176LYS10.8900.93911.1910.9240.9240.0000.0000.0000.000
169A177LYS10.8970.93312.1270.6710.6710.0000.0000.0000.000
170A178ILE0-0.0270.00712.7020.0810.0810.0000.0000.0000.000
171A179ALA00.0360.01315.3000.0650.0650.0000.0000.0000.000
172A180GLU-1-0.897-0.95517.528-0.366-0.3660.0000.0000.0000.000
173A181ASP-1-0.823-0.89518.529-0.115-0.1150.0000.0000.0000.000
174A182LEU0-0.022-0.01618.3040.0360.0360.0000.0000.0000.000
175A183ILE00.0050.00120.8730.0290.0290.0000.0000.0000.000
176A184LYS10.8370.90823.1760.2260.2260.0000.0000.0000.000
177A185LYS10.8980.95420.7850.1400.1400.0000.0000.0000.000
178A186ALA00.0020.00825.6400.0180.0180.0000.0000.0000.000
179A187GLU-1-0.830-0.91927.482-0.176-0.1760.0000.0000.0000.000
180A188GLU-1-0.920-0.95827.699-0.105-0.1050.0000.0000.0000.000
181A189ASN0-0.036-0.03129.2730.0190.0190.0000.0000.0000.000
182A190ILE00.0050.00531.7700.0080.0080.0000.0000.0000.000
183A191LYS10.7700.87931.5610.1490.1490.0000.0000.0000.000
184A192GLU-1-0.750-0.83534.865-0.048-0.0480.0000.0000.0000.000
185A193ALA00.014-0.00436.1360.0070.0070.0000.0000.0000.000
186A194LYS10.7950.87037.8080.0790.0790.0000.0000.0000.000
187A195LYS10.8620.91438.8230.0510.0510.0000.0000.0000.000
188A196ILE0-0.028-0.01439.0880.0050.0050.0000.0000.0000.000
189A197ALA00.0490.01742.2450.0040.0040.0000.0000.0000.000
190A198GLU-1-0.772-0.87543.079-0.065-0.0650.0000.0000.0000.000
191A199GLN0-0.043-0.02545.2380.0050.0050.0000.0000.0000.000
192A200LEU0-0.009-0.01445.3350.0040.0040.0000.0000.0000.000
193A201VAL00.0530.03648.4320.0020.0020.0000.0000.0000.000
194A202LYS10.9510.97949.9460.0350.0350.0000.0000.0000.000
195A203ARG10.8590.91350.5880.0250.0250.0000.0000.0000.000
196A204ALA00.0540.03952.9380.0020.0020.0000.0000.0000.000
197A205LYS10.9220.93452.4270.0450.0450.0000.0000.0000.000
198A206GLN0-0.011-0.00455.1070.0020.0020.0000.0000.0000.000
199A207LEU00.0020.01256.0810.0020.0020.0000.0000.0000.000
200A208ILE00.0390.01957.7170.0010.0010.0000.0000.0000.000
201A209GLU-1-0.851-0.91960.473-0.027-0.0270.0000.0000.0000.000
202A210LYS10.8420.93561.9840.0170.0170.0000.0000.0000.000
203A211ALA00.0750.02163.3730.0010.0010.0000.0000.0000.000
204A212LYS10.8930.92864.6240.0270.0270.0000.0000.0000.000
205A213GLN00.0500.04266.6520.0010.0010.0000.0000.0000.000
206A214VAL0-0.053-0.02567.3220.0010.0010.0000.0000.0000.000
207A215ALA00.0380.01069.4550.0010.0010.0000.0000.0000.000
208A216GLU-1-0.838-0.93470.958-0.020-0.0200.0000.0000.0000.000
209A217GLU-1-0.809-0.88472.510-0.013-0.0130.0000.0000.0000.000
210A218LEU0-0.069-0.03272.8440.0010.0010.0000.0000.0000.000
211A219ILE00.0420.01675.5260.0010.0010.0000.0000.0000.000
212A220LYS10.8770.93177.0200.0140.0140.0000.0000.0000.000
213A221LYS10.8470.92675.4240.0120.0120.0000.0000.0000.000
214A222ILE0-0.006-0.01279.8570.0010.0010.0000.0000.0000.000
215A223LEU00.0340.02080.2430.0000.0000.0000.0000.0000.000
216A224GLN00.0370.03180.9210.0000.0000.0000.0000.0000.000
217A225LEU0-0.018-0.00483.7070.0010.0010.0000.0000.0000.000
218A226ILE00.006-0.00485.6130.0000.0000.0000.0000.0000.000
219A227GLU-1-0.889-0.95285.390-0.012-0.0120.0000.0000.0000.000
220A228LYS10.8530.92386.9750.0110.0110.0000.0000.0000.000
221A229ALA00.0280.00590.5980.0000.0000.0000.0000.0000.000
222A230LYS10.9050.95192.0230.0120.0120.0000.0000.0000.000
223A231GLU-1-0.847-0.91292.428-0.009-0.0090.0000.0000.0000.000
224A232ILE0-0.069-0.03893.4670.0000.0000.0000.0000.0000.000
225A233ALA00.0230.00496.3850.0000.0000.0000.0000.0000.000
226A234GLU-1-0.861-0.92896.837-0.011-0.0110.0000.0000.0000.000
227A235LYS10.8100.90096.1070.0090.0090.0000.0000.0000.000
228A236VAL0-0.014-0.006100.7950.0000.0000.0000.0000.0000.000
229A237LEU0-0.037-0.019102.0770.0000.0000.0000.0000.0000.000
230A238LYS10.9060.973103.7070.0070.0070.0000.0000.0000.000
231A239GLY00.0040.011105.4840.0000.0000.0000.0000.0000.000