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: R9948

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 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 231
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2572389.349159
FMO2-HF: Nuclear repulsion 2473151.13228
FMO2-HF: Total energy -99238.216879
FMO2-MP2: Total energy -99519.481898


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.
-39.961-68.247104.645-43.491-32.867-0.133
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 : -0.053 / q_NPA : -0.099
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].
3A11GLN00.0400.0233.320-4.108-1.683-0.005-1.133-1.2870.003
4A12MET0-0.0110.0252.628-1.1520.3350.297-0.434-1.3500.000
5A13VAL0-0.019-0.0072.727-1.665-0.2792.165-0.735-2.8170.004
6A14GLN0-0.010-0.0214.923-0.1020.061-0.001-0.014-0.1470.000
7A15GLU-1-0.898-0.9687.809-0.522-0.5220.0000.0000.0000.000
8A16LEU0-0.0010.0074.2760.0140.128-0.001-0.006-0.1060.000
9A17GLU-1-0.909-0.9548.0870.7820.7820.0000.0000.0000.000
10A18LYS10.9350.98210.1540.1600.1600.0000.0000.0000.000
11A19ALA0-0.022-0.01511.1050.0450.0450.0000.0000.0000.000
12A20ARG10.9580.97711.379-0.093-0.0930.0000.0000.0000.000
13A21ASP-1-0.879-0.93413.3040.1520.1520.0000.0000.0000.000
14A22ARG10.8580.93014.4860.3700.3700.0000.0000.0000.000
15A23MET0-0.017-0.01414.071-0.001-0.0010.0000.0000.0000.000
16A24GLU-1-0.927-0.95917.6600.0950.0950.0000.0000.0000.000
17A25LYS10.9530.97619.3180.0100.0100.0000.0000.0000.000
18A26LEU0-0.0030.00220.0530.0000.0000.0000.0000.0000.000
19A27TYR00.001-0.00721.8950.0120.0120.0000.0000.0000.000
20A28LYS10.9700.96523.638-0.027-0.0270.0000.0000.0000.000
21A29GLU-1-0.877-0.91825.455-0.063-0.0630.0000.0000.0000.000
22A30MET0-0.025-0.00626.596-0.001-0.0010.0000.0000.0000.000
23A31VAL0-0.038-0.02727.3140.0040.0040.0000.0000.0000.000
24A32GLU-1-0.938-0.96329.6110.0000.0000.0000.0000.0000.000
25A33LEU0-0.051-0.03131.2050.0030.0030.0000.0000.0000.000
26A34ILE0-0.015-0.01130.8600.0020.0020.0000.0000.0000.000
27A35GLN00.0280.00733.8170.0020.0020.0000.0000.0000.000
28A36LYS11.0171.00734.8550.0160.0160.0000.0000.0000.000
29A37ALA00.0140.01637.0540.0010.0010.0000.0000.0000.000
30A38ILE0-0.003-0.01536.7230.0010.0010.0000.0000.0000.000
31A39GLU-1-0.950-0.97639.5280.0020.0020.0000.0000.0000.000
32A40LEU0-0.040-0.02841.1350.0010.0010.0000.0000.0000.000
33A41MET0-0.0190.00839.6350.0010.0010.0000.0000.0000.000
34A42ARG10.9610.98544.369-0.002-0.0020.0000.0000.0000.000
35A43LYS10.9590.96845.3410.0060.0060.0000.0000.0000.000
36A44ILE00.0230.02746.2220.0000.0000.0000.0000.0000.000
37A45PHE0-0.043-0.01448.7590.0010.0010.0000.0000.0000.000
38A46GLN0-0.047-0.04350.2210.0020.0020.0000.0000.0000.000
39A47GLU-1-0.907-0.94352.120-0.014-0.0140.0000.0000.0000.000
40A48VAL00.0850.03653.2070.0000.0000.0000.0000.0000.000
41A49LYS10.8850.94754.7790.0030.0030.0000.0000.0000.000
42A50GLN0-0.050-0.03755.3470.0000.0000.0000.0000.0000.000
43A51GLU-1-0.881-0.93058.233-0.010-0.0100.0000.0000.0000.000
44A52VAL0-0.043-0.01858.7590.0000.0000.0000.0000.0000.000
45A53GLU-1-0.974-1.00460.773-0.001-0.0010.0000.0000.0000.000
46A54LYS11.0181.01360.6940.0050.0050.0000.0000.0000.000
47A55ALA00.0600.03364.1290.0000.0000.0000.0000.0000.000
48A56ILE0-0.023-0.01663.8220.0000.0000.0000.0000.0000.000
49A57GLU-1-0.993-1.00565.780-0.001-0.0010.0000.0000.0000.000
50A58GLU-1-0.925-0.96868.723-0.008-0.0080.0000.0000.0000.000
51A59MET0-0.056-0.01467.2080.0000.0000.0000.0000.0000.000
52A60LYS10.9420.96971.3890.0020.0020.0000.0000.0000.000
53A61LYS10.9940.99771.0850.0020.0020.0000.0000.0000.000
54A62LEU00.0060.00973.4040.0000.0000.0000.0000.0000.000
55A63TYR0-0.0050.00375.9070.0000.0000.0000.0000.0000.000
56A64ASP-1-0.912-0.97477.277-0.002-0.0020.0000.0000.0000.000
57A65GLU-1-1.023-1.00679.067-0.006-0.0060.0000.0000.0000.000
58A66ALA00.0770.03680.3850.0000.0000.0000.0000.0000.000
59A67LYS10.8920.94881.9010.0020.0020.0000.0000.0000.000
60A68LYS10.9450.97880.7720.0020.0020.0000.0000.0000.000
61A69LYS10.9310.98085.4160.0060.0060.0000.0000.0000.000
62A70ILE00.0240.00584.7350.0000.0000.0000.0000.0000.000
63A71GLU-1-0.935-0.96887.625-0.001-0.0010.0000.0000.0000.000
64A72GLN00.0510.01089.4640.0000.0000.0000.0000.0000.000
65A73MET0-0.068-0.02188.9020.0000.0000.0000.0000.0000.000
66A74ILE00.0100.00089.6520.0000.0000.0000.0000.0000.000
67A75GLN0-0.033-0.01093.6870.0000.0000.0000.0000.0000.000
68A76GLN0-0.016-0.01293.5820.0000.0000.0000.0000.0000.000
69A77ILE0-0.023-0.00994.3350.0000.0000.0000.0000.0000.000
70A78LYS10.9170.96395.0570.0020.0020.0000.0000.0000.000
71A79GLN0-0.0060.01099.6800.0000.0000.0000.0000.0000.000
72A80GLY0-0.090-0.041101.2380.0000.0000.0000.0000.0000.000
73A81GLY00.0530.007102.2540.0000.0000.0000.0000.0000.000
74A82ASP-1-0.786-0.906104.369-0.005-0.0050.0000.0000.0000.000
75A83LYS10.9180.975100.2700.0050.0050.0000.0000.0000.000
76A84GLN0-0.019-0.006101.5120.0000.0000.0000.0000.0000.000
77A85LYS10.9810.992100.2610.0030.0030.0000.0000.0000.000
78A86MET0-0.0130.00498.7550.0000.0000.0000.0000.0000.000
79A87GLU-1-0.856-0.94396.906-0.006-0.0060.0000.0000.0000.000
80A88GLU-1-0.941-0.96895.755-0.007-0.0070.0000.0000.0000.000
81A89LEU0-0.036-0.02894.0760.0000.0000.0000.0000.0000.000
82A90LEU0-0.015-0.00892.4960.0000.0000.0000.0000.0000.000
83A91LYS10.9230.98491.0730.0080.0080.0000.0000.0000.000
84A92ARG10.9630.97590.1450.0050.0050.0000.0000.0000.000
85A93ALA00.0310.00688.2200.0000.0000.0000.0000.0000.000
86A94LYS10.9410.96686.4620.0070.0070.0000.0000.0000.000
87A95GLU-1-0.906-0.95785.309-0.009-0.0090.0000.0000.0000.000
88A96GLU-1-0.886-0.96283.253-0.007-0.0070.0000.0000.0000.000
89A97MET0-0.0050.00681.5670.0000.0000.0000.0000.0000.000
90A98LYS10.9410.98080.6010.0110.0110.0000.0000.0000.000
91A99LYS10.9810.99979.6810.0070.0070.0000.0000.0000.000
92A100VAL00.0300.01077.0690.0000.0000.0000.0000.0000.000
93A101LYS10.9470.96675.3190.0110.0110.0000.0000.0000.000
94A102ASP-1-0.843-0.91374.844-0.012-0.0120.0000.0000.0000.000
95A103LYS10.8160.91573.9200.0070.0070.0000.0000.0000.000
96A104MET0-0.026-0.01871.4810.0000.0000.0000.0000.0000.000
97A105GLU-1-0.868-0.92470.042-0.013-0.0130.0000.0000.0000.000
98A106LYS10.9400.96069.2860.0120.0120.0000.0000.0000.000
99A107LEU0-0.049-0.01567.074-0.001-0.0010.0000.0000.0000.000
100A108LEU00.0260.00865.2060.0000.0000.0000.0000.0000.000
101A109GLU-1-0.918-0.94664.260-0.020-0.0200.0000.0000.0000.000
102A110LYS10.9190.94763.3900.0130.0130.0000.0000.0000.000
103A111LEU00.0310.01561.113-0.001-0.0010.0000.0000.0000.000
104A112LYS10.9150.96459.5980.0190.0190.0000.0000.0000.000
105A113GLN00.018-0.00458.524-0.001-0.0010.0000.0000.0000.000
106A114ILE00.0800.05156.604-0.001-0.0010.0000.0000.0000.000
107A115MET0-0.064-0.02652.8870.0000.0000.0000.0000.0000.000
108A116GLN00.0060.00553.7250.0000.0000.0000.0000.0000.000
109A117GLU-1-0.916-0.95152.951-0.026-0.0260.0000.0000.0000.000
110A118ALA0-0.035-0.02650.871-0.002-0.0020.0000.0000.0000.000
111A119LYN0-0.031-0.01449.0350.0000.0000.0000.0000.0000.000
112A120GLN00.0010.00448.075-0.004-0.0040.0000.0000.0000.000
113A121LYS10.9060.95647.1960.0230.0230.0000.0000.0000.000
114A122MET0-0.0040.00344.718-0.002-0.0020.0000.0000.0000.000
115A123GLU-1-0.835-0.92043.320-0.041-0.0410.0000.0000.0000.000
116A124LYS10.9320.97142.6060.0380.0380.0000.0000.0000.000
117A125LEU0-0.002-0.00140.416-0.004-0.0040.0000.0000.0000.000
118A126LEU00.0160.00838.609-0.005-0.0050.0000.0000.0000.000
119A127LYS10.9040.95337.6900.0610.0610.0000.0000.0000.000
120A128GLN00.0440.01437.019-0.003-0.0030.0000.0000.0000.000
121A129LEU00.0120.01334.194-0.005-0.0050.0000.0000.0000.000
122A130LYS10.9130.95132.9980.0570.0570.0000.0000.0000.000
123A131GLU-1-0.910-0.94532.379-0.123-0.1230.0000.0000.0000.000
124A132GLU-1-0.938-0.96931.312-0.104-0.1040.0000.0000.0000.000
125A133MET0-0.016-0.01327.577-0.009-0.0090.0000.0000.0000.000
126A134LYS10.9881.00127.5170.1280.1280.0000.0000.0000.000
127A135LYS10.9320.97127.2200.1000.1000.0000.0000.0000.000
128A136MET0-0.061-0.04124.173-0.022-0.0220.0000.0000.0000.000
129A137LYS10.9810.99922.9380.2090.2090.0000.0000.0000.000
130A138GLU-1-0.869-0.93822.236-0.285-0.2850.0000.0000.0000.000
131A139LYS10.8550.93222.0500.1290.1290.0000.0000.0000.000
132A140MET00.0020.00418.579-0.039-0.0390.0000.0000.0000.000
133A141GLU-1-0.831-0.91717.476-0.358-0.3580.0000.0000.0000.000
134A142LYS10.9360.97318.1350.2540.2540.0000.0000.0000.000
135A143LEU00.0160.00114.058-0.061-0.0610.0000.0000.0000.000
136A144LEU00.0360.01012.648-0.128-0.1280.0000.0000.0000.000
137A145LYS10.8910.94813.6650.3560.3560.0000.0000.0000.000
138A146GLU-1-0.946-0.97214.236-0.599-0.5990.0000.0000.0000.000
139A147MET0-0.004-0.0048.891-0.078-0.0780.0000.0000.0000.000
140A148LYS10.9470.9689.8110.4740.4740.0000.0000.0000.000
141A149GLN00.0010.00611.996-0.079-0.0790.0000.0000.0000.000
142A150ARG11.0121.0089.3110.8800.8800.0000.0000.0000.000
143A151MET0-0.0220.0007.140-0.210-0.2100.0000.0000.0000.000
144A152GLU-1-0.982-1.0038.821-0.940-0.9400.0000.0000.0000.000
145A153GLU-1-0.939-0.9679.771-1.073-1.0730.0000.0000.0000.000
146A154VAL0-0.064-0.0454.346-0.188-0.058-0.001-0.013-0.1160.000
147A155LYS10.9390.9787.5751.2041.2040.0000.0000.0000.000
148A156LYS10.9460.99210.2830.7830.7830.0000.0000.0000.000
149A157LYS10.9140.9549.5660.8880.8880.0000.0000.0000.000
150A158MET0-0.032-0.0066.5850.2150.2150.0000.0000.0000.000
151A159ASP-1-0.881-0.9379.118-1.023-1.0230.0000.0000.0000.000
152A160GLY0-0.0060.0019.6350.1740.1740.0000.0000.0000.000
153A161ASP-1-0.947-0.9755.244-2.728-2.7280.0000.0000.0000.000
154A162ASP-1-0.866-0.9528.287-0.716-0.7160.0000.0000.0000.000
155A163GLU-1-0.956-0.9796.3840.5210.5210.0000.0000.0000.000
156A164LEU0-0.004-0.0202.107-1.314-0.1882.360-0.843-2.643-0.005
157A165LEU00.0640.0344.767-0.932-0.6820.000-0.016-0.2350.000
158A166GLU-1-0.907-0.9656.497-1.354-1.3540.0000.0000.0000.000
159A167LYS10.8950.9761.825-10.351-6.84613.536-6.751-10.289-0.015
160A168ILE00.0270.0521.353-19.835-57.29877.187-30.179-9.545-0.112
161A169LYS10.9560.9703.3862.6202.7620.0340.172-0.348-0.002
162A170LYS10.9861.0174.8560.2990.2990.0000.0000.0000.000
163A171ASN0-0.002-0.0031.897-1.541-3.1649.075-3.537-3.915-0.006
164A172ILE0-0.034-0.0165.0480.5160.588-0.001-0.002-0.0690.000
165A173ASP-1-0.919-0.9627.862-0.695-0.6950.0000.0000.0000.000
166A174ASP-1-0.913-0.9657.9890.2310.2310.0000.0000.0000.000
167A175LEU0-0.005-0.0017.8220.1560.1560.0000.0000.0000.000
168A176LYS10.9941.00211.0780.4380.4380.0000.0000.0000.000
169A177LYS10.9280.95812.9120.1990.1990.0000.0000.0000.000
170A178ILE0-0.0090.00712.4880.0450.0450.0000.0000.0000.000
171A179ALA00.0240.00615.2930.0340.0340.0000.0000.0000.000
172A180GLU-1-0.906-0.96617.372-0.257-0.2570.0000.0000.0000.000
173A181ASP-1-0.910-0.94718.554-0.001-0.0010.0000.0000.0000.000
174A182LEU0-0.021-0.03118.4820.0220.0220.0000.0000.0000.000
175A183ILE00.0060.00720.9300.0130.0130.0000.0000.0000.000
176A184LYS10.8980.95823.0960.1140.1140.0000.0000.0000.000
177A185LYS10.9761.01522.1110.0130.0130.0000.0000.0000.000
178A186ALA00.0140.01425.6320.0080.0080.0000.0000.0000.000
179A187GLU-1-0.902-0.98127.415-0.112-0.1120.0000.0000.0000.000
180A188GLU-1-0.949-0.96928.008-0.025-0.0250.0000.0000.0000.000
181A189ASN0-0.032-0.02629.2790.0100.0100.0000.0000.0000.000
182A190ILE00.0070.00631.6600.0030.0030.0000.0000.0000.000
183A191LYS10.8010.89432.6470.0740.0740.0000.0000.0000.000
184A192GLU-1-0.809-0.89034.971-0.009-0.0090.0000.0000.0000.000
185A193ALA00.019-0.00736.1530.0040.0040.0000.0000.0000.000
186A194LYS10.9430.97537.7850.0450.0450.0000.0000.0000.000
187A195LYS10.9260.97139.3660.0100.0100.0000.0000.0000.000
188A196ILE0-0.035-0.01839.2530.0020.0020.0000.0000.0000.000
189A197ALA00.0610.02142.2500.0020.0020.0000.0000.0000.000
190A198GLU-1-0.893-0.95643.641-0.034-0.0340.0000.0000.0000.000
191A199GLN0-0.073-0.03945.2640.0040.0040.0000.0000.0000.000
192A200LEU0-0.012-0.01645.7480.0020.0020.0000.0000.0000.000
193A201VAL00.0580.04748.4030.0010.0010.0000.0000.0000.000
194A202LYS10.9460.97549.9530.0100.0100.0000.0000.0000.000
195A203ARG10.8530.91350.6560.0040.0040.0000.0000.0000.000
196A204ALA00.0610.04153.0010.0010.0010.0000.0000.0000.000
197A205LYS10.9710.98052.5080.0240.0240.0000.0000.0000.000
198A206GLN0-0.006-0.00454.7630.0010.0010.0000.0000.0000.000
199A207LEU00.0000.01156.3610.0010.0010.0000.0000.0000.000
200A208ILE00.0240.01457.9000.0000.0000.0000.0000.0000.000
201A209GLU-1-0.960-0.99060.298-0.013-0.0130.0000.0000.0000.000
202A210LYS10.8730.96062.0220.0050.0050.0000.0000.0000.000
203A211ALA00.0580.01363.4190.0010.0010.0000.0000.0000.000
204A212LYS11.0121.00265.0400.0130.0130.0000.0000.0000.000
205A213GLN00.0490.02966.6790.0000.0000.0000.0000.0000.000
206A214VAL0-0.055-0.02467.3730.0010.0010.0000.0000.0000.000
207A215ALA00.0350.00469.4950.0000.0000.0000.0000.0000.000
208A216GLU-1-0.934-0.97070.656-0.010-0.0100.0000.0000.0000.000
209A217GLU-1-0.907-0.96072.262-0.005-0.0050.0000.0000.0000.000
210A218LEU0-0.100-0.05072.8570.0010.0010.0000.0000.0000.000
211A219ILE00.0350.01575.3980.0000.0000.0000.0000.0000.000
212A220LYS10.9750.99077.0540.0040.0040.0000.0000.0000.000
213A221LYS10.8600.94076.4360.0030.0030.0000.0000.0000.000
214A222ILE00.002-0.00780.0390.0000.0000.0000.0000.0000.000
215A223LEU00.0350.02180.3790.0000.0000.0000.0000.0000.000
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