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: K99Q3

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 OptAll
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 -2581690.285794
FMO2-HF: Nuclear repulsion 2482446.198247
FMO2-HF: Total energy -99244.087547
FMO2-MP2: Total energy -99525.334549


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.
-37.766-26.67519.316-10.535-19.869-0.042
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 : 0.054 / q_NPA : 0.002
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].
3A11GLN00.0750.0403.609-3.342-1.420-0.011-0.825-1.0860.002
4A12MET0-0.0210.0073.128-0.4020.6550.053-0.310-0.7990.001
5A13VAL0-0.0070.0023.181-2.846-0.5871.747-0.873-3.1330.011
6A14GLN00.004-0.0085.498-0.604-0.6040.0000.0000.0000.000
7A15GLU-1-0.784-0.8768.618-0.391-0.3910.0000.0000.0000.000
8A16LEU00.0180.0074.824-0.046-0.0460.0000.0000.0000.000
9A17GLU-1-0.826-0.9088.2300.6830.6830.0000.0000.0000.000
10A18LYS10.9280.95410.591-0.205-0.2050.0000.0000.0000.000
11A19ALA0-0.0410.00511.688-0.035-0.0350.0000.0000.0000.000
12A20ARG10.8950.9279.694-0.239-0.2390.0000.0000.0000.000
13A21ASP-1-0.825-0.89613.7080.1690.1690.0000.0000.0000.000
14A22ARG10.8200.87513.3090.2290.2290.0000.0000.0000.000
15A23MET0-0.031-0.01513.632-0.022-0.0220.0000.0000.0000.000
16A24GLU-1-0.754-0.87717.8290.0590.0590.0000.0000.0000.000
17A25LYS10.8130.90519.582-0.127-0.1270.0000.0000.0000.000
18A26LEU0-0.014-0.01020.156-0.008-0.0080.0000.0000.0000.000
19A27TYR0-0.0020.00222.051-0.001-0.0010.0000.0000.0000.000
20A28LYS10.8390.89322.479-0.059-0.0590.0000.0000.0000.000
21A29GLU-1-0.859-0.93325.019-0.077-0.0770.0000.0000.0000.000
22A30MET0-0.0240.01227.048-0.002-0.0020.0000.0000.0000.000
23A31VAL0-0.009-0.00527.1750.0010.0010.0000.0000.0000.000
24A32GLU-1-0.848-0.91729.7030.0230.0230.0000.0000.0000.000
25A33LEU0-0.034-0.01831.6200.0020.0020.0000.0000.0000.000
26A34ILE0-0.019-0.01230.5900.0010.0010.0000.0000.0000.000
27A35GLN00.0120.00733.8150.0020.0020.0000.0000.0000.000
28A36LYS10.9210.94434.102-0.001-0.0010.0000.0000.0000.000
29A37ALA00.0080.01037.3200.0000.0000.0000.0000.0000.000
30A38ILE00.022-0.00236.4770.0000.0000.0000.0000.0000.000
31A39GLU-1-0.890-0.93339.8960.0080.0080.0000.0000.0000.000
32A40LEU0-0.021-0.01141.7770.0020.0020.0000.0000.0000.000
33A41MET0-0.0190.01339.5410.0000.0000.0000.0000.0000.000
34A42ARG10.9210.95244.2300.0000.0000.0000.0000.0000.000
35A43LYS10.8650.91443.4340.0020.0020.0000.0000.0000.000
36A44ILE00.0440.02646.0510.0010.0010.0000.0000.0000.000
37A45PHE0-0.019-0.01048.7490.0010.0010.0000.0000.0000.000
38A46GLN0-0.012-0.01649.8080.0020.0020.0000.0000.0000.000
39A47GLU-1-0.831-0.89752.077-0.020-0.0200.0000.0000.0000.000
40A48VAL00.0470.01653.3480.0010.0010.0000.0000.0000.000
41A49LYS10.7770.87254.5130.0060.0060.0000.0000.0000.000
42A50GLN00.0230.00755.4380.0010.0010.0000.0000.0000.000
43A51GLU-1-0.789-0.88558.238-0.009-0.0090.0000.0000.0000.000
44A52VAL0-0.023-0.01258.7750.0000.0000.0000.0000.0000.000
45A53GLU-1-0.842-0.89660.256-0.005-0.0050.0000.0000.0000.000
46A54LYS10.8670.92159.7200.0070.0070.0000.0000.0000.000
47A55ALA00.0430.02364.0470.0000.0000.0000.0000.0000.000
48A56ILE0-0.030-0.01963.6940.0000.0000.0000.0000.0000.000
49A57GLU-1-0.852-0.92166.748-0.001-0.0010.0000.0000.0000.000
50A58GLU-1-0.863-0.91868.444-0.011-0.0110.0000.0000.0000.000
51A59MET0-0.007-0.01567.3770.0000.0000.0000.0000.0000.000
52A60LYS10.8370.90571.2360.0030.0030.0000.0000.0000.000
53A61LYS10.8600.90870.5120.0040.0040.0000.0000.0000.000
54A62LEU00.0060.00473.2480.0000.0000.0000.0000.0000.000
55A63TYR0-0.0030.00575.8810.0000.0000.0000.0000.0000.000
56A64ASP-1-0.787-0.88877.145-0.003-0.0030.0000.0000.0000.000
57A65GLU-1-0.894-0.93778.946-0.008-0.0080.0000.0000.0000.000
58A66ALA00.0400.02180.5830.0000.0000.0000.0000.0000.000
59A67LYS10.8250.90381.8380.0030.0030.0000.0000.0000.000
60A68LYS10.9450.97280.3190.0030.0030.0000.0000.0000.000
61A69LYS10.8980.93985.3430.0080.0080.0000.0000.0000.000
62A70ILE00.013-0.00784.5570.0000.0000.0000.0000.0000.000
63A71GLU-1-0.822-0.89487.065-0.003-0.0030.0000.0000.0000.000
64A72GLN00.0300.00889.3570.0000.0000.0000.0000.0000.000
65A73MET0-0.0330.00488.7410.0000.0000.0000.0000.0000.000
66A74ILE00.0160.01189.6610.0000.0000.0000.0000.0000.000
67A75GLN0-0.0100.00993.5010.0000.0000.0000.0000.0000.000
68A76GLN0-0.017-0.01893.5760.0000.0000.0000.0000.0000.000
69A77ILE00.0000.00794.3350.0000.0000.0000.0000.0000.000
70A78LYS10.8920.93193.9740.0030.0030.0000.0000.0000.000
71A79GLN0-0.0190.00499.0180.0000.0000.0000.0000.0000.000
72A80GLY00.0100.003101.4920.0000.0000.0000.0000.0000.000
73A81GLY00.0240.000102.1350.0000.0000.0000.0000.0000.000
74A82ASP-1-0.787-0.885104.568-0.007-0.0070.0000.0000.0000.000
75A83LYS10.8810.93099.3760.0080.0080.0000.0000.0000.000
76A84GLN0-0.042-0.028101.288-0.001-0.0010.0000.0000.0000.000
77A85LYS10.8700.946100.0840.0050.0050.0000.0000.0000.000
78A86MET0-0.016-0.00198.4260.0000.0000.0000.0000.0000.000
79A87GLU-1-0.801-0.90196.735-0.009-0.0090.0000.0000.0000.000
80A88GLU-1-0.750-0.85495.399-0.009-0.0090.0000.0000.0000.000
81A89LEU0-0.049-0.02394.3210.0000.0000.0000.0000.0000.000
82A90LEU0-0.015-0.00492.2270.0000.0000.0000.0000.0000.000
83A91LYS10.8090.91190.7900.0100.0100.0000.0000.0000.000
84A92ARG10.8680.90289.8870.0070.0070.0000.0000.0000.000
85A93ALA0-0.012-0.01088.1260.0000.0000.0000.0000.0000.000
86A94LYS10.9620.97186.2320.0120.0120.0000.0000.0000.000
87A95GLU-1-0.827-0.89885.120-0.011-0.0110.0000.0000.0000.000
88A96GLU-1-0.810-0.89083.673-0.009-0.0090.0000.0000.0000.000
89A97MET00.0090.01081.3800.0000.0000.0000.0000.0000.000
90A98LYS10.8500.91279.5470.0160.0160.0000.0000.0000.000
91A99LYS10.8760.93879.4970.0090.0090.0000.0000.0000.000
92A100VAL00.003-0.00376.7050.0000.0000.0000.0000.0000.000
93A101LYS10.8700.93373.6770.0160.0160.0000.0000.0000.000
94A102ASP-1-0.782-0.87074.759-0.017-0.0170.0000.0000.0000.000
95A103LYS10.7590.87073.9280.0090.0090.0000.0000.0000.000
96A104MET0-0.019-0.00771.6050.0000.0000.0000.0000.0000.000
97A105GLU-1-0.896-0.94770.137-0.019-0.0190.0000.0000.0000.000
98A106LYS10.9460.97569.1080.0150.0150.0000.0000.0000.000
99A107LEU0-0.051-0.02267.128-0.001-0.0010.0000.0000.0000.000
100A108LEU0-0.013-0.00565.6020.0000.0000.0000.0000.0000.000
101A109GLU-1-0.887-0.94364.295-0.028-0.0280.0000.0000.0000.000
102A110LYS10.8140.90563.4000.0130.0130.0000.0000.0000.000
103A111LEU00.001-0.00160.935-0.001-0.0010.0000.0000.0000.000
104A112LYS10.8900.95859.6770.0260.0260.0000.0000.0000.000
105A113GLN00.0480.01458.804-0.002-0.0020.0000.0000.0000.000
106A114ILE00.0450.03156.744-0.001-0.0010.0000.0000.0000.000
107A115MET0-0.058-0.01852.5580.0000.0000.0000.0000.0000.000
108A116GLN0-0.0080.00153.957-0.002-0.0020.0000.0000.0000.000
109A117GLU-1-0.864-0.92853.142-0.031-0.0310.0000.0000.0000.000
110A118ALA00.011-0.01151.286-0.002-0.0020.0000.0000.0000.000
111A119LYN00.0250.03749.5110.0000.0000.0000.0000.0000.000
112A120GLN0-0.004-0.01148.136-0.003-0.0030.0000.0000.0000.000
113A121LYS10.7720.88647.3940.0230.0230.0000.0000.0000.000
114A122MET0-0.033-0.00744.632-0.002-0.0020.0000.0000.0000.000
115A123GLU-1-0.839-0.91843.291-0.057-0.0570.0000.0000.0000.000
116A124LYS10.9020.95842.7230.0460.0460.0000.0000.0000.000
117A125LEU00.0020.00140.765-0.005-0.0050.0000.0000.0000.000
118A126LEU00.0280.01538.874-0.006-0.0060.0000.0000.0000.000
119A127LYS10.9220.97538.0600.0810.0810.0000.0000.0000.000
120A128GLN00.0490.01637.296-0.003-0.0030.0000.0000.0000.000
121A129LEU00.0250.01134.515-0.007-0.0070.0000.0000.0000.000
122A130LYS10.8950.94432.9640.0850.0850.0000.0000.0000.000
123A131GLU-1-0.820-0.88332.370-0.153-0.1530.0000.0000.0000.000
124A132GLU-1-0.808-0.88531.633-0.115-0.1150.0000.0000.0000.000
125A133MET00.0070.00527.548-0.013-0.0130.0000.0000.0000.000
126A134LYS10.8470.89927.5550.1420.1420.0000.0000.0000.000
127A135LYS10.8410.90127.3790.0970.0970.0000.0000.0000.000
128A136MET0-0.024-0.00923.969-0.023-0.0230.0000.0000.0000.000
129A137LYS10.8530.89721.5040.3580.3580.0000.0000.0000.000
130A138GLU-1-0.885-0.95422.462-0.348-0.3480.0000.0000.0000.000
131A139LYS10.8320.93022.2740.1020.1020.0000.0000.0000.000
132A140MET0-0.024-0.00218.823-0.040-0.0400.0000.0000.0000.000
133A141GLU-1-0.793-0.87317.850-0.563-0.5630.0000.0000.0000.000
134A142LYS10.8700.93018.4790.2890.2890.0000.0000.0000.000
135A143LEU0-0.0040.00715.291-0.058-0.0580.0000.0000.0000.000
136A144LEU00.0220.00012.646-0.145-0.1450.0000.0000.0000.000
137A145LYS10.8490.92413.8450.3790.3790.0000.0000.0000.000
138A146GLU-1-0.805-0.88714.384-0.556-0.5560.0000.0000.0000.000
139A147MET0-0.026-0.0118.986-0.064-0.0640.0000.0000.0000.000
140A148LYS10.8620.91310.0540.9140.9140.0000.0000.0000.000
141A149GLN0-0.0070.01012.124-0.037-0.0370.0000.0000.0000.000
142A150ARG10.8880.9339.4410.6910.6910.0000.0000.0000.000
143A151MET0-0.032-0.0057.810-0.236-0.2360.0000.0000.0000.000
144A152GLU-1-0.811-0.8858.983-1.210-1.2100.0000.0000.0000.000
145A153GLU-1-0.924-0.96410.468-0.962-0.9620.0000.0000.0000.000
146A154VAL0-0.019-0.0254.575-0.142-0.046-0.001-0.007-0.0880.000
147A155LYS10.8900.9337.8161.5751.5750.0000.0000.0000.000
148A156LYS10.8720.93910.1211.1421.1420.0000.0000.0000.000
149A157LYS10.8330.8959.7441.0711.0710.0000.0000.0000.000
150A158MET0-0.0430.0026.3470.2320.2320.0000.0000.0000.000
151A159ASP-1-0.914-0.9489.078-1.272-1.2720.0000.0000.0000.000
152A160GLY00.0030.0019.6640.2060.2060.0000.0000.0000.000
153A161ASP-1-0.859-0.9355.598-2.335-2.3350.0000.0000.0000.000
154A162ASP-1-0.892-0.9427.308-1.433-1.4330.0000.0000.0000.000
155A163GLU-1-0.803-0.8927.3580.1260.1260.0000.0000.0000.000
156A164LEU0-0.013-0.0122.543-2.112-0.2410.744-0.606-2.008-0.002
157A165LEU00.0170.0084.088-2.356-1.9320.010-0.080-0.3530.000
158A166GLU-1-0.752-0.8616.132-2.784-2.7840.0000.0000.0000.000
159A167LYS10.7940.8772.490-4.393-1.9813.086-1.420-4.0790.008
160A168ILE0-0.0100.0201.797-23.331-23.22212.498-5.861-6.745-0.065
161A169LYS10.8170.8783.2524.1163.9850.0340.255-0.1570.000
162A170LYS10.9190.9665.4941.9141.9140.0000.0000.0000.000
163A171ASN0-0.009-0.0112.570-1.607-0.5351.156-0.808-1.4210.003
164A172ILE00.0250.0115.5181.1311.1310.0000.0000.0000.000
165A173ASP-1-0.772-0.8748.314-0.718-0.7180.0000.0000.0000.000
166A174ASP-1-0.869-0.9198.361-0.125-0.1250.0000.0000.0000.000
167A175LEU00.030-0.0018.2710.2520.2520.0000.0000.0000.000
168A176LYS10.8770.93511.2680.9740.9740.0000.0000.0000.000
169A177LYS10.8600.92112.0980.5820.5820.0000.0000.0000.000
170A178ILE0-0.0080.00912.7520.0780.0780.0000.0000.0000.000
171A179ALA00.0440.02215.4230.0610.0610.0000.0000.0000.000
172A180GLU-1-0.809-0.90817.487-0.335-0.3350.0000.0000.0000.000
173A181ASP-1-0.839-0.90818.373-0.071-0.0710.0000.0000.0000.000
174A182LEU0-0.030-0.01118.2050.0390.0390.0000.0000.0000.000
175A183ILE00.000-0.00420.6600.0230.0230.0000.0000.0000.000
176A184LYS10.8140.90623.1890.2090.2090.0000.0000.0000.000
177A185LYS10.9360.96721.0020.0920.0920.0000.0000.0000.000
178A186ALA00.0040.01125.7390.0180.0180.0000.0000.0000.000
179A187GLU-1-0.830-0.90827.598-0.163-0.1630.0000.0000.0000.000
180A188GLU-1-0.919-0.96227.391-0.086-0.0860.0000.0000.0000.000
181A189ASN0-0.016-0.01629.2010.0180.0180.0000.0000.0000.000
182A190ILE0-0.015-0.00531.3640.0070.0070.0000.0000.0000.000
183A191LYS10.8290.89631.3190.1330.1330.0000.0000.0000.000
184A192GLU-1-0.762-0.84834.695-0.030-0.0300.0000.0000.0000.000
185A193ALA00.010-0.01136.0330.0050.0050.0000.0000.0000.000
186A194LYS10.7840.86937.9420.0690.0690.0000.0000.0000.000
187A195LYS10.8520.91638.6380.0360.0360.0000.0000.0000.000
188A196ILE0-0.013-0.00638.8470.0040.0040.0000.0000.0000.000
189A197ALA00.0450.00842.1560.0030.0030.0000.0000.0000.000
190A198GLU-1-0.790-0.87943.266-0.055-0.0550.0000.0000.0000.000
191A199GLN0-0.028-0.01745.3210.0040.0040.0000.0000.0000.000
192A200LEU0-0.0010.00245.1110.0030.0030.0000.0000.0000.000
193A201VAL00.0480.01448.2350.0020.0020.0000.0000.0000.000
194A202LYS10.9230.97249.8200.0270.0270.0000.0000.0000.000
195A203ARG10.8960.93450.7220.0150.0150.0000.0000.0000.000
196A204ALA00.0390.02752.5950.0020.0020.0000.0000.0000.000
197A205LYS10.9160.92652.2000.0390.0390.0000.0000.0000.000
198A206GLN0-0.0180.00055.0410.0020.0020.0000.0000.0000.000
199A207LEU00.0060.01455.7110.0010.0010.0000.0000.0000.000
200A208ILE00.0470.02057.4630.0010.0010.0000.0000.0000.000
201A209GLU-1-0.836-0.90360.423-0.023-0.0230.0000.0000.0000.000
202A210LYS10.8370.91061.6690.0110.0110.0000.0000.0000.000
203A211ALA00.0620.02663.1670.0010.0010.0000.0000.0000.000
204A212LYS10.8790.91564.4930.0230.0230.0000.0000.0000.000
205A213GLN00.0150.01766.4010.0010.0010.0000.0000.0000.000
206A214VAL0-0.052-0.02167.2850.0010.0010.0000.0000.0000.000
207A215ALA00.0540.02369.5080.0010.0010.0000.0000.0000.000
208A216GLU-1-0.802-0.90771.164-0.015-0.0150.0000.0000.0000.000
209A217GLU-1-0.806-0.87372.642-0.009-0.0090.0000.0000.0000.000
210A218LEU0-0.065-0.02172.7360.0010.0010.0000.0000.0000.000
211A219ILE00.0510.01575.5700.0000.0000.0000.0000.0000.000
212A220LYS10.8520.90677.1300.0100.0100.0000.0000.0000.000
213A221LYS10.8830.93675.1060.0080.0080.0000.0000.0000.000
214A222ILE0-0.031-0.00779.8350.0010.0010.0000.0000.0000.000
215A223LEU00.0290.00680.3480.0000.0000.0000.0000.0000.000
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