FMODB

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

Last updated: 2024-07-23

All entries: 37450

Number of unique PDB entries: 7783

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FMODB ID: G5G21

Calculation Name: 4AE7-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4AE7

Chain ID: A

ChEMBL ID:

UniProt ID: Q8N1Q8

Base Structure: X-ray

Registration Date: 2023-09-23

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 186
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2042922.109808
FMO2-HF: Nuclear repulsion 1968142.564651
FMO2-HF: Total energy -74779.545158
FMO2-MP2: Total energy -74993.946617


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:52:LEU)


Summations of interaction energy for fragment #1(A:52:LEU)
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.
-7.668-4.5010.857-1.209-2.816-0.005
Interaction energy analysis for fragmet #1(A:52:LEU)
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 : -0.013
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].
3A54ASP-1-0.726-0.8513.4220.2581.5490.031-0.331-0.9910.003
4A55TYR0-0.041-0.0545.711-0.118-0.1180.0000.0000.0000.000
5A56ALA0-0.0160.0148.893-0.003-0.0030.0000.0000.0000.000
6A57LEU0-0.030-0.0128.977-0.154-0.1540.0000.0000.0000.000
7A58PRO00.0200.01012.2670.0700.0700.0000.0000.0000.000
8A59ASN0-0.0100.00913.134-0.043-0.0430.0000.0000.0000.000
9A60ALA00.0110.00115.244-0.002-0.0020.0000.0000.0000.000
10A61SER0-0.013-0.00317.1800.0100.0100.0000.0000.0000.000
11A62TRP0-0.057-0.02014.577-0.031-0.0310.0000.0000.0000.000
12A63CYS00.0200.02520.234-0.019-0.0190.0000.0000.0000.000
13A64SER00.040-0.00823.550-0.010-0.0100.0000.0000.0000.000
14A65ASP-1-0.824-0.91325.585-0.014-0.0140.0000.0000.0000.000
15A66MET0-0.044-0.01517.731-0.005-0.0050.0000.0000.0000.000
16A67LEU00.0090.00519.799-0.017-0.0170.0000.0000.0000.000
17A68SER0-0.035-0.01021.978-0.017-0.0170.0000.0000.0000.000
18A69LEU00.0340.01023.185-0.010-0.0100.0000.0000.0000.000
19A70TYR00.021-0.00214.626-0.020-0.0200.0000.0000.0000.000
20A71GLN00.012-0.00219.926-0.033-0.0330.0000.0000.0000.000
21A72GLU-1-0.909-0.94221.738-0.063-0.0630.0000.0000.0000.000
22A73PHE00.010-0.02019.742-0.004-0.0040.0000.0000.0000.000
23A74LEU0-0.014-0.00215.721-0.022-0.0220.0000.0000.0000.000
24A75GLU-1-0.905-0.91319.406-0.188-0.1880.0000.0000.0000.000
25A76LYS10.9140.96722.1730.0680.0680.0000.0000.0000.000
26A77THR0-0.126-0.10916.974-0.010-0.0100.0000.0000.0000.000
27A78LYS10.8900.96019.0030.2450.2450.0000.0000.0000.000
28A79SER00.0040.00622.0930.0070.0070.0000.0000.0000.000
29A80SER0-0.052-0.02523.8820.0160.0160.0000.0000.0000.000
30A81GLY00.0090.01122.3720.0140.0140.0000.0000.0000.000
31A82TRP0-0.012-0.00319.8360.0030.0030.0000.0000.0000.000
32A83ILE00.0020.00514.770-0.031-0.0310.0000.0000.0000.000
33A84LYS10.7790.8729.5150.4390.4390.0000.0000.0000.000
34A85LEU0-0.020-0.00311.445-0.078-0.0780.0000.0000.0000.000
35A86PRO0-0.0070.0165.977-0.012-0.0120.0000.0000.0000.000
36A87SER00.0020.0077.4340.2770.2770.0000.0000.0000.000
37A88PHE00.0280.0092.791-1.3440.1360.828-0.847-1.461-0.008
38A89LYS11.0261.0014.165-4.579-4.318-0.001-0.017-0.2440.000
39A90SER00.0230.0067.038-0.669-0.6690.0000.0000.0000.000
40A91ASN00.1130.0457.9090.3810.3810.0000.0000.0000.000
41A92ARG10.9660.9959.257-1.098-1.0980.0000.0000.0000.000
42A93ASP-1-0.901-0.9497.3261.2341.2340.0000.0000.0000.000
43A94HIS10.7920.8883.961-2.625-2.490-0.001-0.014-0.1200.000
44A95ILE00.0360.0238.997-0.080-0.0800.0000.0000.0000.000
45A96ARG10.9480.96612.7430.0650.0650.0000.0000.0000.000
46A97GLY00.0380.02013.988-0.023-0.0230.0000.0000.0000.000
47A98LEU0-0.0040.02215.906-0.006-0.0060.0000.0000.0000.000
48A99LYS11.0041.00617.683-0.112-0.1120.0000.0000.0000.000
49A100LEU0-0.040-0.02217.6870.0010.0010.0000.0000.0000.000
50A101PRO00.0090.01121.683-0.008-0.0080.0000.0000.0000.000
51A112ASP-1-0.851-0.93810.7841.0361.0360.0000.0000.0000.000
52A113CYS0-0.110-0.04311.797-0.135-0.1350.0000.0000.0000.000
53A114ARG10.8760.93010.277-0.676-0.6760.0000.0000.0000.000
54A115ILE0-0.022-0.00510.662-0.150-0.1500.0000.0000.0000.000
55A116PHE00.0670.03312.8840.0090.0090.0000.0000.0000.000
56A117THR00.0730.03214.4960.0320.0320.0000.0000.0000.000
57A118ARG10.8340.91310.010-0.625-0.6250.0000.0000.0000.000
58A119CYS0-0.031-0.01211.9720.0970.0970.0000.0000.0000.000
59A120ILE00.0170.02514.5210.0080.0080.0000.0000.0000.000
60A121GLN0-0.048-0.0448.4880.2860.2860.0000.0000.0000.000
61A122VAL0-0.0190.00112.334-0.027-0.0270.0000.0000.0000.000
62A123GLU-1-0.878-0.94514.0670.0760.0760.0000.0000.0000.000
63A124GLY00.019-0.01315.420-0.026-0.0260.0000.0000.0000.000
64A125GLN00.0060.01218.176-0.014-0.0140.0000.0000.0000.000
65A126GLY00.0320.00517.5120.0000.0000.0000.0000.0000.000
66A127PHE0-0.037-0.01816.114-0.041-0.0410.0000.0000.0000.000
67A128GLU-1-0.788-0.86015.3220.2950.2950.0000.0000.0000.000
68A129TYR0-0.005-0.03712.722-0.012-0.0120.0000.0000.0000.000
69A130VAL0-0.006-0.00313.3450.0170.0170.0000.0000.0000.000
70A131ILE00.0170.02013.9000.0050.0050.0000.0000.0000.000
71A132PHE00.0030.00414.706-0.051-0.0510.0000.0000.0000.000
72A133PHE00.0620.01016.9030.0330.0330.0000.0000.0000.000
73A134GLN00.0370.01818.536-0.026-0.0260.0000.0000.0000.000
74A135PRO00.0350.00219.1920.0180.0180.0000.0000.0000.000
75A136THR0-0.040-0.01521.7780.0070.0070.0000.0000.0000.000
76A137GLN0-0.027-0.02625.1390.0120.0120.0000.0000.0000.000
77A138LYS10.8890.95623.3470.0110.0110.0000.0000.0000.000
78A139LYS10.9260.97823.4490.0060.0060.0000.0000.0000.000
79A140SER0-0.053-0.04419.282-0.014-0.0140.0000.0000.0000.000
80A141VAL00.0210.02120.0930.0060.0060.0000.0000.0000.000
81A142CYS0-0.056-0.01218.549-0.005-0.0050.0000.0000.0000.000
82A143LEU0-0.034-0.00718.530-0.005-0.0050.0000.0000.0000.000
83A144PHE00.0670.00018.4380.0220.0220.0000.0000.0000.000
84A145GLN00.0810.04019.849-0.038-0.0380.0000.0000.0000.000
85A146PRO0-0.065-0.02220.7140.0260.0260.0000.0000.0000.000
86A147GLY00.1240.06721.206-0.023-0.0230.0000.0000.0000.000
87A148SER00.0350.00822.4170.0090.0090.0000.0000.0000.000
88A149TYR0-0.083-0.04020.0150.0100.0100.0000.0000.0000.000
89A150LEU0-0.087-0.04119.9740.0200.0200.0000.0000.0000.000
90A151GLU-1-0.807-0.90024.0170.1150.1150.0000.0000.0000.000
91A152GLY0-0.028-0.02827.7480.0110.0110.0000.0000.0000.000
92A153PRO0-0.082-0.01530.701-0.002-0.0020.0000.0000.0000.000
93A154PRO00.043-0.00732.4150.0030.0030.0000.0000.0000.000
94A155GLY00.0230.02631.421-0.008-0.0080.0000.0000.0000.000
95A156PHE0-0.031-0.02330.543-0.006-0.0060.0000.0000.0000.000
96A157ALA00.0270.01726.2150.0100.0100.0000.0000.0000.000
97A158HIS00.0350.02326.787-0.009-0.0090.0000.0000.0000.000
98A159GLY00.0360.01927.3990.0060.0060.0000.0000.0000.000
99A160GLY00.001-0.01927.0870.0020.0020.0000.0000.0000.000
100A161SER0-0.041-0.02322.9830.0190.0190.0000.0000.0000.000
101A162LEU00.0510.02022.7610.0130.0130.0000.0000.0000.000
102A163ALA0-0.003-0.00824.0870.0010.0010.0000.0000.0000.000
103A164ALA00.0070.00720.5910.0050.0050.0000.0000.0000.000
104A165MET0-0.0080.00816.1290.0230.0230.0000.0000.0000.000
105A166MET0-0.033-0.00619.925-0.008-0.0080.0000.0000.0000.000
106A167ASP-1-0.832-0.89521.3390.2460.2460.0000.0000.0000.000
107A168GLU-1-0.812-0.89213.7780.5160.5160.0000.0000.0000.000
108A169THR0-0.018-0.02917.144-0.007-0.0070.0000.0000.0000.000
109A170PHE0-0.017-0.00218.606-0.026-0.0260.0000.0000.0000.000
110A171SER00.0070.01517.529-0.021-0.0210.0000.0000.0000.000
111A172LYS10.8200.89211.222-0.543-0.5430.0000.0000.0000.000
112A173THR0-0.001-0.00316.135-0.046-0.0460.0000.0000.0000.000
113A174ALA00.0220.00219.121-0.025-0.0250.0000.0000.0000.000
114A175PHE0-0.0130.01014.472-0.012-0.0120.0000.0000.0000.000
115A176LEU0-0.012-0.01314.089-0.028-0.0280.0000.0000.0000.000
116A177ALA0-0.046-0.01717.998-0.024-0.0240.0000.0000.0000.000
117A178GLY0-0.002-0.00921.534-0.015-0.0150.0000.0000.0000.000
118A179GLU-1-0.886-0.92019.4790.0590.0590.0000.0000.0000.000
119A180GLY00.0100.00020.9670.0090.0090.0000.0000.0000.000
120A181LEU0-0.054-0.03916.6710.0220.0220.0000.0000.0000.000
121A182PHE0-0.0030.00220.5220.0200.0200.0000.0000.0000.000
122A183THR00.013-0.00522.934-0.019-0.0190.0000.0000.0000.000
123A184LEU0-0.040-0.01824.7330.0000.0000.0000.0000.0000.000
124A185SER0-0.044-0.03328.250-0.006-0.0060.0000.0000.0000.000
125A186LEU00.0550.02725.3500.0000.0000.0000.0000.0000.000
126A187ASN0-0.038-0.01228.8530.0000.0000.0000.0000.0000.000
127A188ILE00.0370.00827.503-0.005-0.0050.0000.0000.0000.000
128A189ARG10.8870.95631.567-0.078-0.0780.0000.0000.0000.000
129A190PHE00.0530.00829.322-0.004-0.0040.0000.0000.0000.000
130A191LYS10.8240.90933.864-0.066-0.0660.0000.0000.0000.000
131A192ASN00.0040.00034.080-0.006-0.0060.0000.0000.0000.000
132A193LEU00.0160.01932.7200.0060.0060.0000.0000.0000.000
133A194ILE00.0180.00426.591-0.007-0.0070.0000.0000.0000.000
134A195PRO0-0.0040.00929.9610.0090.0090.0000.0000.0000.000
135A196VAL00.0110.01625.5790.0030.0030.0000.0000.0000.000
136A197ASP-1-0.903-0.95224.2380.1050.1050.0000.0000.0000.000
137A198SER0-0.096-0.04325.485-0.018-0.0180.0000.0000.0000.000
138A199LEU0-0.011-0.02322.6290.0110.0110.0000.0000.0000.000
139A200VAL0-0.040-0.01923.950-0.006-0.0060.0000.0000.0000.000
140A201VAL0-0.003-0.01123.3290.0030.0030.0000.0000.0000.000
141A202MET0-0.055-0.02922.0800.0080.0080.0000.0000.0000.000
142A203ASP-1-0.800-0.87123.1100.0200.0200.0000.0000.0000.000
143A204VAL00.003-0.01522.4130.0100.0100.0000.0000.0000.000
144A205GLU-1-0.933-0.96924.6300.0110.0110.0000.0000.0000.000
145A206VAL0-0.003-0.01524.3510.0120.0120.0000.0000.0000.000
146A207ASP-1-0.874-0.92227.0100.0390.0390.0000.0000.0000.000
147A208LYS10.8790.93330.132-0.052-0.0520.0000.0000.0000.000
148A209ILE0-0.010-0.01126.4960.0080.0080.0000.0000.0000.000
149A210GLU-1-0.883-0.94430.2960.0390.0390.0000.0000.0000.000
150A211ASP-1-0.917-0.95232.4630.0560.0560.0000.0000.0000.000
151A212GLN00.005-0.00129.2800.0110.0110.0000.0000.0000.000
152A213LYS10.8780.94928.410-0.063-0.0630.0000.0000.0000.000
153A214LEU0-0.0130.00823.644-0.010-0.0100.0000.0000.0000.000
154A215TYR0-0.046-0.02327.5100.0140.0140.0000.0000.0000.000
155A216MET0-0.0030.01323.057-0.009-0.0090.0000.0000.0000.000
156A217SER0-0.0030.00127.6290.0070.0070.0000.0000.0000.000
157A218CYS0-0.006-0.00325.3200.0020.0020.0000.0000.0000.000
158A219ILE0-0.056-0.02127.5940.0010.0010.0000.0000.0000.000
159A220ALA00.0330.02126.655-0.001-0.0010.0000.0000.0000.000
160A221HIS10.7960.85827.833-0.030-0.0300.0000.0000.0000.000
161A222SER00.0890.04328.1460.0030.0030.0000.0000.0000.000
162A223ARG10.9160.96027.5560.0240.0240.0000.0000.0000.000
163A224ASP-1-0.836-0.91229.3320.0140.0140.0000.0000.0000.000
164A225GLN0-0.088-0.05431.6940.0020.0020.0000.0000.0000.000
165A226GLN0-0.0020.00933.5640.0040.0040.0000.0000.0000.000
166A227THR0-0.0050.01233.3440.0030.0030.0000.0000.0000.000
167A228VAL0-0.016-0.00532.5890.0010.0010.0000.0000.0000.000
168A229TYR00.0430.01228.9340.0010.0010.0000.0000.0000.000
169A230ALA00.005-0.00229.5040.0050.0050.0000.0000.0000.000
170A231LYS10.9260.97130.628-0.053-0.0530.0000.0000.0000.000
171A232SER0-0.011-0.03227.0870.0010.0010.0000.0000.0000.000
172A233SER00.0170.00529.495-0.010-0.0100.0000.0000.0000.000
173A234GLY00.0180.01726.7370.0100.0100.0000.0000.0000.000
174A235VAL0-0.043-0.00527.804-0.011-0.0110.0000.0000.0000.000
175A236PHE00.0290.01121.1230.0060.0060.0000.0000.0000.000
176A237LEU0-0.003-0.00325.525-0.017-0.0170.0000.0000.0000.000
177A238GLN0-0.036-0.03124.3200.0110.0110.0000.0000.0000.000
178A239LEU0-0.051-0.02619.1210.0090.0090.0000.0000.0000.000
179A240GLN00.0170.01223.723-0.020-0.0200.0000.0000.0000.000
180A241LEU0-0.0140.00023.0930.0080.0080.0000.0000.0000.000
181A242GLU-1-0.966-0.99025.0320.1010.1010.0000.0000.0000.000
182A243GLU-1-0.977-0.97925.8040.0230.0230.0000.0000.0000.000
183A244GLU-1-0.954-0.97325.0130.1080.1080.0000.0000.0000.000
184A245SER0-0.038-0.02528.099-0.010-0.0100.0000.0000.0000.000
185A246PRO0-0.020-0.00726.9660.0060.0060.0000.0000.0000.000
186A247GLN00.0090.00422.4770.0050.0050.0000.0000.0000.000