FMODB

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

Last updated: 2024-07-23

All entries: 37478

Number of unique PDB entries: 7783

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FMODB ID: LJYQ9

Calculation Name: 3FBQ-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3FBQ

Chain ID: A

ChEMBL ID:

UniProt ID: A0A0F7

Base Structure: X-ray

Registration Date: 2023-06-19

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 288
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -3773608.445043
FMO2-HF: Nuclear repulsion 3660761.687268
FMO2-HF: Total energy -112846.757775
FMO2-MP2: Total energy -113177.867568


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:4:PRO)


Summations of interaction energy for fragment #1(A:4:PRO)
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.
-0.7751.2090.092-0.693-1.3820.002
Interaction energy analysis for fragmet #1(A:4:PRO)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.016 / q_NPA : -0.022
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].
3A6VAL0-0.010-0.0023.398-1.3010.4410.091-0.632-1.2000.002
4A7GLY0-0.015-0.0063.5560.2740.4350.002-0.056-0.1070.000
5A8ASP-1-0.799-0.9094.5240.3710.452-0.001-0.005-0.0750.000
6A9ILE0-0.006-0.0167.804-0.088-0.0880.0000.0000.0000.000
7A10PHE00.0400.0079.817-0.053-0.0530.0000.0000.0000.000
8A11ARG10.9300.95811.890-0.010-0.0100.0000.0000.0000.000
9A12PHE0-0.076-0.03110.185-0.030-0.0300.0000.0000.0000.000
10A13LEU0-0.0050.00112.278-0.010-0.0100.0000.0000.0000.000
11A14ASP-1-0.858-0.91515.1210.0110.0110.0000.0000.0000.000
12A15ASN0-0.047-0.01516.125-0.005-0.0050.0000.0000.0000.000
13A16GLY00.0300.00819.9700.0030.0030.0000.0000.0000.000
14A17ARG10.9120.95322.419-0.003-0.0030.0000.0000.0000.000
15A18THR0-0.021-0.01019.5650.0010.0010.0000.0000.0000.000
16A19GLY00.0350.00420.288-0.001-0.0010.0000.0000.0000.000
17A20LEU0-0.022-0.00220.5480.0020.0020.0000.0000.0000.000
18A21TYR0-0.005-0.01316.1740.0080.0080.0000.0000.0000.000
19A22GLU-1-0.956-0.95416.1390.0030.0030.0000.0000.0000.000
20A23ASN0-0.034-0.03315.768-0.003-0.0030.0000.0000.0000.000
21A24TYR00.0430.00415.6640.0030.0030.0000.0000.0000.000
22A25LYS10.9120.9536.911-0.647-0.6470.0000.0000.0000.000
23A26GLU-1-0.989-0.98412.6710.0250.0250.0000.0000.0000.000
24A27PHE0-0.032-0.03314.316-0.006-0.0060.0000.0000.0000.000
25A28SER0-0.027-0.02813.462-0.005-0.0050.0000.0000.0000.000
26A29THR0-0.091-0.04014.548-0.010-0.0100.0000.0000.0000.000
27A30GLU-1-0.892-0.9537.1530.5780.5780.0000.0000.0000.000
28A31LEU00.004-0.03110.920-0.048-0.0480.0000.0000.0000.000
29A32ASN0-0.0590.0046.2610.1290.1290.0000.0000.0000.000
30A33MET0-0.0060.0229.018-0.062-0.0620.0000.0000.0000.000
31A34THR0-0.045-0.03010.7800.0020.0020.0000.0000.0000.000
32A35ARG10.8520.90712.886-0.079-0.0790.0000.0000.0000.000
33A36GLU-1-0.936-0.96713.9020.0330.0330.0000.0000.0000.000
34A37SER00.0430.04416.413-0.002-0.0020.0000.0000.0000.000
35A38ASN0-0.030-0.02718.7790.0000.0000.0000.0000.0000.000
36A39GLY00.0380.01617.676-0.002-0.0020.0000.0000.0000.000
37A40VAL0-0.0090.00015.370-0.003-0.0030.0000.0000.0000.000
38A41LYS11.0001.0128.025-0.038-0.0380.0000.0000.0000.000
39A42VAL00.0460.01012.082-0.006-0.0060.0000.0000.0000.000
40A43THR0-0.016-0.0168.0930.0000.0000.0000.0000.0000.000
41A44ILE00.0290.01311.0120.0010.0010.0000.0000.0000.000
42A45ASN0-0.058-0.0496.823-0.192-0.1920.0000.0000.0000.000
43A46ASP-1-0.797-0.8799.8230.4400.4400.0000.0000.0000.000
44A47VAL00.004-0.00611.901-0.041-0.0410.0000.0000.0000.000
45A48ILE00.0140.03715.545-0.004-0.0040.0000.0000.0000.000
46A49SER00.0320.00318.617-0.005-0.0050.0000.0000.0000.000
47A50ASP-1-0.805-0.90922.3500.0330.0330.0000.0000.0000.000
48A51GLY0-0.040-0.00124.808-0.004-0.0040.0000.0000.0000.000
49A52ARG10.7300.83327.028-0.025-0.0250.0000.0000.0000.000
50A53THR00.010-0.00524.0440.0010.0010.0000.0000.0000.000
51A54LEU00.0010.01220.0840.0020.0020.0000.0000.0000.000
52A55SER0-0.010-0.00818.092-0.005-0.0050.0000.0000.0000.000
53A56ILE0-0.010-0.00515.9260.0130.0130.0000.0000.0000.000
54A57THR00.0670.04510.375-0.021-0.0210.0000.0000.0000.000
55A58TYR0-0.0230.00111.3720.0300.0300.0000.0000.0000.000
56A59SER0-0.005-0.0127.887-0.017-0.0170.0000.0000.0000.000
57A60LEU0-0.008-0.0029.9060.0140.0140.0000.0000.0000.000
58A61GLU-1-0.930-0.9817.141-0.062-0.0620.0000.0000.0000.000
59A62SER00.0160.01211.3300.0130.0130.0000.0000.0000.000
60A63GLU-1-0.869-0.92314.0320.0130.0130.0000.0000.0000.000
61A64GLN0-0.116-0.08416.5250.0000.0000.0000.0000.0000.000
62A65ASP-1-0.894-0.94917.715-0.014-0.0140.0000.0000.0000.000
63A66LEU0-0.0060.00115.3900.0030.0030.0000.0000.0000.000
64A67GLY0-0.036-0.01518.7530.0020.0020.0000.0000.0000.000
65A68ASP-1-0.917-0.93318.873-0.024-0.0240.0000.0000.0000.000
66A69ASP-1-0.903-0.94320.152-0.008-0.0080.0000.0000.0000.000
67A70PRO0-0.100-0.04817.3320.0040.0040.0000.0000.0000.000
68A71ILE00.0430.01920.6530.0020.0020.0000.0000.0000.000
69A72ILE0-0.034-0.01617.4140.0010.0010.0000.0000.0000.000
70A73LEU00.0120.01221.5220.0000.0000.0000.0000.0000.000
71A74GLY00.0670.03023.8980.0020.0020.0000.0000.0000.000
72A75GLY0-0.0070.01024.418-0.002-0.0020.0000.0000.0000.000
73A76LEU0-0.042-0.01520.4840.0040.0040.0000.0000.0000.000
74A77ASP-1-0.892-0.93723.7810.0280.0280.0000.0000.0000.000
75A78ILE0-0.021-0.02625.8890.0030.0030.0000.0000.0000.000
76A79MET0-0.048-0.03127.238-0.004-0.0040.0000.0000.0000.000
77A80ASP-1-0.938-0.97530.2850.0230.0230.0000.0000.0000.000
78A81ALA00.0010.00330.6020.0000.0000.0000.0000.0000.000
79A82HIS00.0100.00932.409-0.001-0.0010.0000.0000.0000.000
80A83GLY0-0.0090.01135.0980.0000.0000.0000.0000.0000.000
81A84SER0-0.037-0.04429.7330.0020.0020.0000.0000.0000.000
82A85SER00.009-0.00929.939-0.002-0.0020.0000.0000.0000.000
83A86GLY00.0460.01126.0510.0030.0030.0000.0000.0000.000
84A87SER0-0.0010.00323.150-0.005-0.0050.0000.0000.0000.000
85A88GLY00.0130.00920.4860.0070.0070.0000.0000.0000.000
86A89LYS10.9170.98517.655-0.014-0.0140.0000.0000.0000.000
87A90MET0-0.009-0.01815.1050.0100.0100.0000.0000.0000.000
88A91THR00.0150.02112.694-0.005-0.0050.0000.0000.0000.000
89A92LYS10.9480.99613.1140.0280.0280.0000.0000.0000.000
90A93VAL0-0.012-0.0067.271-0.011-0.0110.0000.0000.0000.000
91A94THR0-0.069-0.02810.1150.0010.0010.0000.0000.0000.000
92A95GLU-1-0.883-0.96512.109-0.027-0.0270.0000.0000.0000.000
93A96LYS10.8630.94012.0990.0120.0120.0000.0000.0000.000
94A97LYS10.9190.9636.8560.0430.0430.0000.0000.0000.000
95A98TYR00.029-0.02410.622-0.008-0.0080.0000.0000.0000.000
96A99VAL00.0030.0087.719-0.014-0.0140.0000.0000.0000.000
97A100GLY00.0480.00810.941-0.015-0.0150.0000.0000.0000.000
98A101MET0-0.0240.00013.4970.0360.0360.0000.0000.0000.000
99A102VAL0-0.035-0.02216.082-0.016-0.0160.0000.0000.0000.000
100A103THR00.0210.01819.2180.0130.0130.0000.0000.0000.000
101A104THR0-0.016-0.02621.738-0.004-0.0040.0000.0000.0000.000
102A105THR00.0090.00724.9410.0020.0020.0000.0000.0000.000
103A106HIS00.0070.02627.905-0.004-0.0040.0000.0000.0000.000
104A107HIS0-0.028-0.01930.654-0.001-0.0010.0000.0000.0000.000
105A108ASP-1-0.863-0.91933.7660.0190.0190.0000.0000.0000.000
106A109SER0-0.005-0.01535.0350.0000.0000.0000.0000.0000.000
107A110ASN0-0.030-0.01035.924-0.001-0.0010.0000.0000.0000.000
108A111LYS10.8480.94030.344-0.022-0.0220.0000.0000.0000.000
109A112LYS10.9050.97628.995-0.028-0.0280.0000.0000.0000.000
110A113ASP-1-0.865-0.92528.5750.0280.0280.0000.0000.0000.000
111A114LYS10.8980.94626.277-0.029-0.0290.0000.0000.0000.000
112A115VAL00.0580.04124.282-0.004-0.0040.0000.0000.0000.000
113A116ASN0-0.002-0.01724.4090.0070.0070.0000.0000.0000.000
114A117PHE00.0270.00918.664-0.003-0.0030.0000.0000.0000.000
115A118ARG10.9190.93823.266-0.032-0.0320.0000.0000.0000.000
116A119TRP00.0170.01815.2030.0030.0030.0000.0000.0000.000
117A120ASN00.010-0.00421.4290.0040.0040.0000.0000.0000.000
118A121ILE0-0.027-0.01218.208-0.002-0.0020.0000.0000.0000.000
119A122GLU-1-0.901-0.99322.2060.0210.0210.0000.0000.0000.000
120A123GLY0-0.019-0.00523.047-0.002-0.0020.0000.0000.0000.000
121A124ILE0-0.0300.00718.4350.0020.0020.0000.0000.0000.000
122A125GLU-1-0.887-0.94921.7770.0060.0060.0000.0000.0000.000
123A126ILE0-0.048-0.02021.165-0.001-0.0010.0000.0000.0000.000
124A127PRO00.0770.03023.6290.0000.0000.0000.0000.0000.000
125A128ASP-1-0.876-0.92823.890-0.008-0.0080.0000.0000.0000.000
126A129ARG10.8750.90122.6740.0050.0050.0000.0000.0000.000
127A130LYS10.9010.95926.8050.0000.0000.0000.0000.0000.000
128A131LYS10.8910.97623.342-0.003-0.0030.0000.0000.0000.000
129A132SER00.0560.03024.861-0.001-0.0010.0000.0000.0000.000
130A133ILE0-0.079-0.02819.852-0.001-0.0010.0000.0000.0000.000
131A134GLN00.004-0.01223.4620.0010.0010.0000.0000.0000.000
132A135GLY00.0150.00023.4930.0000.0000.0000.0000.0000.000
133A136HIS00.0240.01723.2920.0010.0010.0000.0000.0000.000
134A137TRP0-0.089-0.02917.0740.0010.0010.0000.0000.0000.000
135A138ASN00.0540.02620.1620.0010.0010.0000.0000.0000.000
136A139PHE0-0.032-0.02414.7750.0050.0050.0000.0000.0000.000
137A140ALA0-0.019-0.00120.074-0.004-0.0040.0000.0000.0000.000
138A141LEU0-0.0130.00317.5470.0010.0010.0000.0000.0000.000
139A142THR0-0.017-0.00821.753-0.002-0.0020.0000.0000.0000.000
140A143VAL00.0290.02119.5450.0040.0040.0000.0000.0000.000
141A144LYS10.9020.94921.926-0.042-0.0420.0000.0000.0000.000
142A145SER00.001-0.01922.3780.0080.0080.0000.0000.0000.000
143A146MET0-0.0340.01921.458-0.002-0.0020.0000.0000.0000.000
144A147ASP-1-0.897-0.94824.2950.0230.0230.0000.0000.0000.000
145A148SER00.019-0.00127.243-0.001-0.0010.0000.0000.0000.000
146A149LYS10.9430.97229.544-0.013-0.0130.0000.0000.0000.000
147A150GLU-1-0.855-0.94532.9510.0170.0170.0000.0000.0000.000
148A151ARG10.7870.91134.982-0.008-0.0080.0000.0000.0000.000
149A152THR0-0.006-0.01438.1780.0000.0000.0000.0000.0000.000
150A153ILE0-0.054-0.02138.200-0.001-0.0010.0000.0000.0000.000
151A154GLY00.0750.03742.0000.0000.0000.0000.0000.0000.000
152A155GLY0-0.006-0.00343.8770.0000.0000.0000.0000.0000.000
153A156SER0-0.052-0.04344.6040.0000.0000.0000.0000.0000.000
154A157SER00.0270.00745.9540.0000.0000.0000.0000.0000.000
155A158GLU-1-0.929-0.96547.1040.0040.0040.0000.0000.0000.000
156A159LYS11.0250.99148.774-0.002-0.0020.0000.0000.0000.000
157A160GLU-1-0.900-0.93150.2480.0020.0020.0000.0000.0000.000
158A161GLY0-0.083-0.04151.4910.0000.0000.0000.0000.0000.000
159A162ILE0-0.011-0.02146.5310.0000.0000.0000.0000.0000.000
160A163LYS10.9431.00047.139-0.005-0.0050.0000.0000.0000.000
161A164ALA00.0350.03041.9000.0000.0000.0000.0000.0000.000
162A165ASN0-0.083-0.06843.260-0.001-0.0010.0000.0000.0000.000
163A166MET00.0120.01439.1840.0010.0010.0000.0000.0000.000
164A167GLU-1-0.806-0.88839.2110.0110.0110.0000.0000.0000.000
165A168LYS10.8510.92635.381-0.014-0.0140.0000.0000.0000.000
166A169VAL00.0230.03533.7250.0000.0000.0000.0000.0000.000
167A170ALA0-0.004-0.01831.1560.0000.0000.0000.0000.0000.000
168A171MET00.0110.01229.2290.0000.0000.0000.0000.0000.000
169A172SER00.0540.03424.5190.0000.0000.0000.0000.0000.000
170A173PRO0-0.005-0.01522.804-0.002-0.0020.0000.0000.0000.000
171A174VAL0-0.0050.00619.065-0.004-0.0040.0000.0000.0000.000
172A175SER0-0.030-0.01122.035-0.002-0.0020.0000.0000.0000.000
173A176PHE0-0.013-0.01024.4670.0000.0000.0000.0000.0000.000
174A177ILE00.0110.01027.692-0.001-0.0010.0000.0000.0000.000
175A178LEU0-0.025-0.00730.173-0.001-0.0010.0000.0000.0000.000
176A179TYR00.0330.00231.7920.0010.0010.0000.0000.0000.000
177A180TYR00.004-0.01634.502-0.001-0.0010.0000.0000.0000.000
178A181ASN00.0000.00338.4760.0000.0000.0000.0000.0000.000
179A182GLN0-0.0310.00340.858-0.001-0.0010.0000.0000.0000.000
180A183GLU-1-0.902-0.95943.2380.0060.0060.0000.0000.0000.000
181A184VAL00.0440.02546.4930.0000.0000.0000.0000.0000.000
182A185SER0-0.0020.01049.0840.0000.0000.0000.0000.0000.000
183A186LYS11.0100.98752.946-0.003-0.0030.0000.0000.0000.000
184A187GLY0-0.070-0.04255.4460.0000.0000.0000.0000.0000.000
185A188ALA00.1090.04350.9100.0000.0000.0000.0000.0000.000
186A189ARG10.8070.90448.900-0.006-0.0060.0000.0000.0000.000
187A190LYS10.8740.95251.647-0.003-0.0030.0000.0000.0000.000
188A191GLU-1-0.989-0.98253.1340.0020.0020.0000.0000.0000.000
189A192TRP0-0.073-0.03348.0360.0000.0000.0000.0000.0000.000
190A193ASP-1-0.848-0.92047.4080.0040.0040.0000.0000.0000.000
191A194SER0-0.073-0.08642.2190.0000.0000.0000.0000.0000.000
192A195VAL0-0.0330.02843.3520.0000.0000.0000.0000.0000.000
193A196ASP-1-0.861-0.91037.2590.0070.0070.0000.0000.0000.000
194A197VAL0-0.008-0.00139.537-0.001-0.0010.0000.0000.0000.000
195A198GLU-1-0.829-0.90633.5410.0070.0070.0000.0000.0000.000
196A199LEU0-0.043-0.01634.893-0.001-0.0010.0000.0000.0000.000
197A200THR0-0.066-0.01633.7810.0000.0000.0000.0000.0000.000
198A201VAL00.013-0.00432.1410.0000.0000.0000.0000.0000.000
199A202LYS10.9951.00333.1490.0010.0010.0000.0000.0000.000
200A203ASP-1-0.667-0.81633.2640.0010.0010.0000.0000.0000.000
201A204ASP-1-0.852-0.92335.9530.0010.0010.0000.0000.0000.000
202A205LEU0-0.110-0.04334.622-0.001-0.0010.0000.0000.0000.000
203A206GLY0-0.017-0.00935.745-0.001-0.0010.0000.0000.0000.000
204A207ASN0-0.109-0.04930.816-0.002-0.0020.0000.0000.0000.000
205A208ASP-1-0.901-0.95930.5050.0000.0000.0000.0000.0000.000
206A209TYR0-0.083-0.05127.9470.0000.0000.0000.0000.0000.000
207A210SER0-0.006-0.01524.8480.0000.0000.0000.0000.0000.000
208A211GLY00.011-0.02626.0240.0020.0020.0000.0000.0000.000
209A212GLU-1-0.935-0.97022.6250.0180.0180.0000.0000.0000.000
210A213GLY00.0000.01426.7790.0020.0020.0000.0000.0000.000
211A214ASN00.016-0.00427.0450.0030.0030.0000.0000.0000.000
212A215GLY00.0060.00728.7410.0010.0010.0000.0000.0000.000
213A216GLY00.016-0.00431.7550.0000.0000.0000.0000.0000.000
214A217SER0-0.048-0.02135.5460.0010.0010.0000.0000.0000.000
215A218GLY00.0330.02038.3820.0000.0000.0000.0000.0000.000
216A219ASN0-0.054-0.02042.1840.0000.0000.0000.0000.0000.000
217A220ASP-1-0.816-0.91845.2910.0060.0060.0000.0000.0000.000
218A221PRO00.001-0.01044.0840.0000.0000.0000.0000.0000.000
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