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: R8178

Calculation Name: 4IC6-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4IC6

Chain ID: A

ChEMBL ID:

UniProt ID: Q9LU10

Base Structure: X-ray

Registration Date: 2023-09-20

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 340
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -4691338.369476
FMO2-HF: Nuclear repulsion 4568098.43504
FMO2-HF: Total energy -123239.934436
FMO2-MP2: Total energy -123608.527516


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:104:PRO)


Summations of interaction energy for fragment #1(A:104: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.
-1.0741.194-0.016-1.113-1.1390.003
Interaction energy analysis for fragmet #1(A:104:PRO)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.028 / q_NPA : -0.004
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].
3A106VAL0-0.0050.0003.828-1.4870.781-0.016-1.113-1.1390.003
4A107PHE0-0.011-0.0056.0290.4020.4020.0000.0000.0000.000
5A108PRO00.0050.0089.050-0.006-0.0060.0000.0000.0000.000
6A109ALA00.005-0.00812.3460.0520.0520.0000.0000.0000.000
7A110GLY00.0300.02915.2110.0310.0310.0000.0000.0000.000
8A111PRO0-0.041-0.01916.7810.0100.0100.0000.0000.0000.000
9A112LEU00.0190.01019.8150.0000.0000.0000.0000.0000.000
10A113PHE00.005-0.00919.4870.0260.0260.0000.0000.0000.000
11A114PRO00.0370.00924.000-0.001-0.0010.0000.0000.0000.000
12A115THR0-0.031-0.02227.5700.0030.0030.0000.0000.0000.000
13A116GLU-1-0.795-0.89521.181-0.230-0.2300.0000.0000.0000.000
14A117GLY00.0490.02425.363-0.006-0.0060.0000.0000.0000.000
15A118ARG10.8440.91026.1760.1140.1140.0000.0000.0000.000
16A119ILE0-0.029-0.00727.2080.0050.0050.0000.0000.0000.000
17A120VAL00.0470.02423.3590.0030.0030.0000.0000.0000.000
18A121GLN0-0.0020.00826.7450.0090.0090.0000.0000.0000.000
19A122LEU0-0.037-0.03229.5910.0070.0070.0000.0000.0000.000
20A123PHE00.002-0.00626.9660.0080.0080.0000.0000.0000.000
21A124GLU-1-0.821-0.88728.246-0.164-0.1640.0000.0000.0000.000
22A125LYS10.9110.96530.1850.1110.1110.0000.0000.0000.000
23A126ASN0-0.039-0.04733.4720.0120.0120.0000.0000.0000.000
24A127THR00.0690.05530.3160.0090.0090.0000.0000.0000.000
25A128TYR0-0.097-0.06131.7100.0100.0100.0000.0000.0000.000
26A129SER0-0.064-0.03436.6190.0030.0030.0000.0000.0000.000
27A130VAL0-0.055-0.01135.6780.0070.0070.0000.0000.0000.000
28A131VAL00.0190.02936.736-0.006-0.0060.0000.0000.0000.000
29A132ASN00.0260.01936.2720.0010.0010.0000.0000.0000.000
30A133ILE0-0.029-0.00438.3540.0040.0040.0000.0000.0000.000
31A134PHE00.0070.00836.0370.0000.0000.0000.0000.0000.000
32A135ASP-1-0.699-0.82241.991-0.054-0.0540.0000.0000.0000.000
33A136VAL0-0.047-0.02145.134-0.001-0.0010.0000.0000.0000.000
34A137THR0-0.080-0.04947.0200.0020.0020.0000.0000.0000.000
35A138LEU0-0.052-0.01843.7700.0020.0020.0000.0000.0000.000
36A139ARG10.9130.95143.5720.0530.0530.0000.0000.0000.000
37A140PRO00.0370.02838.4640.0010.0010.0000.0000.0000.000
38A153GLY00.0240.01442.7700.0020.0020.0000.0000.0000.000
39A154ASN0-0.090-0.07039.599-0.002-0.0020.0000.0000.0000.000
40A155GLY00.0420.02637.9610.0000.0000.0000.0000.0000.000
41A156SER0-0.0080.00736.818-0.005-0.0050.0000.0000.0000.000
42A157GLY00.0510.03738.9940.0060.0060.0000.0000.0000.000
43A158VAL0-0.031-0.01640.261-0.005-0.0050.0000.0000.0000.000
44A159VAL00.0130.00941.6150.0040.0040.0000.0000.0000.000
45A160TRP0-0.023-0.01743.993-0.002-0.0020.0000.0000.0000.000
46A161ASP-1-0.791-0.92447.096-0.058-0.0580.0000.0000.0000.000
47A162GLY00.0410.01547.987-0.002-0.0020.0000.0000.0000.000
48A163GLN0-0.002-0.00249.0710.0010.0010.0000.0000.0000.000
49A164GLY00.0640.05047.9150.0010.0010.0000.0000.0000.000
50A165TYR0-0.013-0.00148.7770.0000.0000.0000.0000.0000.000
51A166ILE0-0.014-0.00444.181-0.003-0.0030.0000.0000.0000.000
52A167VAL0-0.0010.00545.8160.0030.0030.0000.0000.0000.000
53A168THR00.012-0.01942.989-0.004-0.0040.0000.0000.0000.000
54A169ASN0-0.045-0.03043.5910.0000.0000.0000.0000.0000.000
55A170TYR00.0210.00846.2620.0000.0000.0000.0000.0000.000
56A171HIS00.006-0.02343.6890.0020.0020.0000.0000.0000.000
57A172VAL0-0.0040.01542.0280.0000.0000.0000.0000.0000.000
58A173ILE00.0050.01244.418-0.001-0.0010.0000.0000.0000.000
59A174GLY00.0630.03147.2550.0030.0030.0000.0000.0000.000
60A175ASN0-0.086-0.05948.0980.0040.0040.0000.0000.0000.000
61A176ALA00.0330.01449.3900.0030.0030.0000.0000.0000.000
62A177LEU0-0.023-0.01451.0330.0020.0020.0000.0000.0000.000
63A178SER0-0.092-0.04952.9740.0020.0020.0000.0000.0000.000
64A179ARG10.8940.94352.3320.0460.0460.0000.0000.0000.000
65A180ASN0-0.060-0.02156.4830.0010.0010.0000.0000.0000.000
66A181PRO00.0140.03254.3750.0010.0010.0000.0000.0000.000
67A182SER0-0.003-0.01457.5090.0010.0010.0000.0000.0000.000
68A183PRO0-0.015-0.02057.302-0.002-0.0020.0000.0000.0000.000
69A184GLY0-0.0190.00156.4160.0010.0010.0000.0000.0000.000
70A185ASP-1-0.841-0.91155.310-0.043-0.0430.0000.0000.0000.000
71A186VAL0-0.040-0.02349.671-0.002-0.0020.0000.0000.0000.000
72A187VAL00.0180.00349.5670.0010.0010.0000.0000.0000.000
73A188GLY00.000-0.00646.319-0.001-0.0010.0000.0000.0000.000
74A189ARG10.8340.93242.7160.0700.0700.0000.0000.0000.000
75A190VAL00.021-0.00842.195-0.002-0.0020.0000.0000.0000.000
76A191ASN0-0.027-0.02037.3060.0010.0010.0000.0000.0000.000
77A192ILE00.0450.01138.644-0.002-0.0020.0000.0000.0000.000
78A193LEU00.0090.02032.1560.0000.0000.0000.0000.0000.000
79A194ALA00.0260.01936.0120.0040.0040.0000.0000.0000.000
80A195SER00.0360.00035.031-0.006-0.0060.0000.0000.0000.000
81A196ASP-1-0.822-0.89834.059-0.121-0.1210.0000.0000.0000.000
82A197GLY00.0200.01631.016-0.008-0.0080.0000.0000.0000.000
83A198VAL0-0.033-0.01131.060-0.005-0.0050.0000.0000.0000.000
84A199GLN0-0.002-0.00632.2500.0130.0130.0000.0000.0000.000
85A200LYS10.8200.90635.5830.1100.1100.0000.0000.0000.000
86A201ASN00.012-0.00339.1340.0000.0000.0000.0000.0000.000
87A202PHE0-0.011-0.00841.5250.0020.0020.0000.0000.0000.000
88A203GLU-1-0.866-0.92845.029-0.056-0.0560.0000.0000.0000.000
89A204GLY00.0150.00147.7030.0000.0000.0000.0000.0000.000
90A205LYS10.8640.93248.4190.0540.0540.0000.0000.0000.000
91A206LEU00.0060.00051.978-0.002-0.0020.0000.0000.0000.000
92A207VAL0-0.018-0.00352.9060.0020.0020.0000.0000.0000.000
93A208GLY00.0690.01754.0520.0020.0020.0000.0000.0000.000
94A209ALA0-0.054-0.01453.161-0.003-0.0030.0000.0000.0000.000
95A210ASP-1-0.738-0.86253.446-0.041-0.0410.0000.0000.0000.000
96A211ARG10.8930.94052.8970.0420.0420.0000.0000.0000.000
97A212ALA00.0020.00653.174-0.001-0.0010.0000.0000.0000.000
98A213LYS10.9010.95352.0300.0450.0450.0000.0000.0000.000
99A214ASP-1-0.721-0.83947.232-0.060-0.0600.0000.0000.0000.000
100A215LEU0-0.0030.00447.697-0.003-0.0030.0000.0000.0000.000
101A216ALA00.008-0.00148.9200.0030.0030.0000.0000.0000.000
102A217VAL0-0.009-0.00249.109-0.003-0.0030.0000.0000.0000.000
103A218LEU00.0020.00546.4410.0020.0020.0000.0000.0000.000
104A219LYS10.8450.91349.9980.0540.0540.0000.0000.0000.000
105A220VAL0-0.035-0.01645.5000.0000.0000.0000.0000.0000.000
106A221ASP-1-0.937-0.96448.786-0.056-0.0560.0000.0000.0000.000
107A222ALA00.012-0.00545.630-0.002-0.0020.0000.0000.0000.000
108A223PRO00.0180.00845.5250.0020.0020.0000.0000.0000.000
109A224GLU-1-0.874-0.92646.219-0.064-0.0640.0000.0000.0000.000
110A225THR0-0.018-0.02144.495-0.001-0.0010.0000.0000.0000.000
111A226LEU0-0.101-0.05440.167-0.004-0.0040.0000.0000.0000.000
112A227LEU0-0.0230.01041.714-0.005-0.0050.0000.0000.0000.000
113A228LYS10.9160.94837.2550.1060.1060.0000.0000.0000.000
114A229PRO0-0.0090.01641.823-0.003-0.0030.0000.0000.0000.000
115A230ILE0-0.0140.00239.126-0.003-0.0030.0000.0000.0000.000
116A231LYS10.9420.97841.8780.0760.0760.0000.0000.0000.000
117A232VAL00.0250.02243.065-0.002-0.0020.0000.0000.0000.000
118A233GLY0-0.0090.00245.1790.0010.0010.0000.0000.0000.000
119A234GLN00.0450.02246.1130.0010.0010.0000.0000.0000.000
120A235SER00.0960.04146.595-0.001-0.0010.0000.0000.0000.000
121A236ASN0-0.004-0.01647.6090.0000.0000.0000.0000.0000.000
122A237SER0-0.060-0.01547.7340.0010.0010.0000.0000.0000.000
123A238LEU00.0140.02742.786-0.001-0.0010.0000.0000.0000.000
124A239LYS10.8390.90743.7860.0530.0530.0000.0000.0000.000
125A240VAL00.0210.00142.094-0.003-0.0030.0000.0000.0000.000
126A241GLY00.0270.01839.0140.0020.0020.0000.0000.0000.000
127A242GLN0-0.027-0.00737.9010.0000.0000.0000.0000.0000.000
128A243GLN00.0840.05830.7680.0030.0030.0000.0000.0000.000
129A244CYS0-0.077-0.03934.9030.0040.0040.0000.0000.0000.000
130A245LEU0-0.005-0.00631.144-0.006-0.0060.0000.0000.0000.000
131A246ALA00.0210.03233.0790.0060.0060.0000.0000.0000.000
132A247ILE0-0.003-0.00732.231-0.008-0.0080.0000.0000.0000.000
133A248GLY00.0200.00232.6390.0090.0090.0000.0000.0000.000
134A249ASN0-0.016-0.02932.753-0.012-0.0120.0000.0000.0000.000
135A250PRO0-0.0210.00431.9110.0070.0070.0000.0000.0000.000
136A251PHE0-0.009-0.02430.3360.0070.0070.0000.0000.0000.000
137A252GLY00.0270.02334.0410.0020.0020.0000.0000.0000.000
138A253PHE0-0.056-0.03027.2870.0030.0030.0000.0000.0000.000
139A254ASP-1-0.944-0.96227.050-0.180-0.1800.0000.0000.0000.000
140A255HIS00.001-0.01128.4620.0060.0060.0000.0000.0000.000
141A256THR0-0.046-0.02127.996-0.011-0.0110.0000.0000.0000.000
142A257LEU00.006-0.00926.6980.0080.0080.0000.0000.0000.000
143A258THR0-0.066-0.04228.069-0.005-0.0050.0000.0000.0000.000
144A259VAL00.000-0.02028.8390.0040.0040.0000.0000.0000.000
145A260GLY00.0480.03730.493-0.002-0.0020.0000.0000.0000.000
146A261VAL0-0.041-0.02732.937-0.001-0.0010.0000.0000.0000.000
147A262ILE0-0.025-0.01036.2330.0010.0010.0000.0000.0000.000
148A263SER00.0180.00838.9170.0030.0030.0000.0000.0000.000
149A264GLY00.007-0.00840.7310.0040.0040.0000.0000.0000.000
150A265LEU00.000-0.00644.428-0.002-0.0020.0000.0000.0000.000
151A266ASN0-0.054-0.02547.2140.0010.0010.0000.0000.0000.000
152A267ARG10.9370.97746.1190.0470.0470.0000.0000.0000.000
153A268ASP-1-0.907-0.95648.900-0.041-0.0410.0000.0000.0000.000
154A269ILE0-0.032-0.00345.343-0.002-0.0020.0000.0000.0000.000
155A270PHE00.0410.01346.8280.0020.0020.0000.0000.0000.000
156A271SER00.015-0.01246.343-0.001-0.0010.0000.0000.0000.000
157A272GLN0-0.030-0.01441.0840.0020.0020.0000.0000.0000.000
158A273THR00.0010.00146.5550.0010.0010.0000.0000.0000.000
159A274GLY0-0.041-0.01849.7110.0020.0020.0000.0000.0000.000
160A275VAL0-0.006-0.00851.4950.0020.0020.0000.0000.0000.000
161A276THR0-0.035-0.01551.136-0.003-0.0030.0000.0000.0000.000
162A277ILE0-0.0160.00848.4030.0010.0010.0000.0000.0000.000
163A278GLY00.0630.04350.902-0.001-0.0010.0000.0000.0000.000
164A279GLY0-0.017-0.03251.609-0.001-0.0010.0000.0000.0000.000
165A280GLY0-0.0050.00347.620-0.002-0.0020.0000.0000.0000.000
166A281ILE0-0.031-0.01042.2160.0020.0020.0000.0000.0000.000
167A282GLN00.0060.00041.2980.0010.0010.0000.0000.0000.000
168A283THR0-0.009-0.02137.016-0.002-0.0020.0000.0000.0000.000
169A284ASP-1-0.794-0.89934.678-0.079-0.0790.0000.0000.0000.000
170A285ALA0-0.0150.01632.658-0.005-0.0050.0000.0000.0000.000
171A286ALA00.0080.00231.2050.0050.0050.0000.0000.0000.000
172A287ILE0-0.0130.01933.216-0.005-0.0050.0000.0000.0000.000
173A288ASN00.000-0.01331.4230.0020.0020.0000.0000.0000.000
174A289PRO00.0610.00934.6030.0000.0000.0000.0000.0000.000
175A290GLY00.0270.02632.4220.0000.0000.0000.0000.0000.000
176A291ASN00.022-0.00733.2660.0000.0000.0000.0000.0000.000
177A292ALA00.0160.02335.4340.0030.0030.0000.0000.0000.000
178A293GLY00.0380.01539.068-0.002-0.0020.0000.0000.0000.000
179A294GLY00.0020.01137.9070.0010.0010.0000.0000.0000.000
180A295PRO0-0.022-0.00837.2160.0050.0050.0000.0000.0000.000
181A296LEU00.0330.01236.836-0.005-0.0050.0000.0000.0000.000
182A297LEU0-0.031-0.02335.2940.0040.0040.0000.0000.0000.000
183A298ASP-1-0.721-0.86137.220-0.080-0.0800.0000.0000.0000.000
184A299SER0-0.014-0.00635.496-0.003-0.0030.0000.0000.0000.000
185A300LYS10.8470.90536.0950.0690.0690.0000.0000.0000.000
186A301GLY0-0.011-0.00237.134-0.001-0.0010.0000.0000.0000.000
187A302ASN0-0.090-0.03937.8390.0030.0030.0000.0000.0000.000
188A303LEU00.0290.00240.767-0.001-0.0010.0000.0000.0000.000
189A304ILE0-0.029-0.03339.8720.0050.0050.0000.0000.0000.000
190A305GLY00.0620.00942.4120.0040.0040.0000.0000.0000.000
191A306ILE0-0.0050.01942.079-0.004-0.0040.0000.0000.0000.000
192A307ASN0-0.032-0.00436.8770.0050.0050.0000.0000.0000.000
193A308THR0-0.002-0.01140.3860.0010.0010.0000.0000.0000.000
194A309ALA00.0120.02440.8070.0000.0000.0000.0000.0000.000
195A310ILE0-0.009-0.01541.6330.0030.0030.0000.0000.0000.000
196A311PHE0-0.0090.00042.573-0.002-0.0020.0000.0000.0000.000
197A312THR0-0.002-0.01241.8610.0000.0000.0000.0000.0000.000
198A313GLN00.007-0.00244.6910.0000.0000.0000.0000.0000.000
199A314THR00.0160.00943.6970.0010.0010.0000.0000.0000.000
200A315GLY00.0400.03741.427-0.002-0.0020.0000.0000.0000.000
201A316THR0-0.030-0.04738.8250.0020.0020.0000.0000.0000.000
202A317SER0-0.0030.02135.2350.0000.0000.0000.0000.0000.000
203A318ALA00.0160.00537.5040.0010.0010.0000.0000.0000.000
204A319GLY0-0.006-0.00735.1750.0000.0000.0000.0000.0000.000
205A320VAL0-0.040-0.00835.707-0.003-0.0030.0000.0000.0000.000
206A321GLY00.0080.00438.0920.0010.0010.0000.0000.0000.000
207A322PHE00.001-0.02039.1240.0020.0020.0000.0000.0000.000
208A323ALA00.0350.02141.142-0.003-0.0030.0000.0000.0000.000
209A324ILE0-0.0020.01343.1190.0030.0030.0000.0000.0000.000
210A325PRO00.0120.02145.775-0.003-0.0030.0000.0000.0000.000
211A326SER00.029-0.01145.8780.0020.0020.0000.0000.0000.000
212A327SER0-0.011-0.00247.6610.0010.0010.0000.0000.0000.000
213A328THR00.0180.01050.5450.0030.0030.0000.0000.0000.000
214A329VAL00.0040.00446.8370.0010.0010.0000.0000.0000.000
215A330LEU0-0.031-0.02849.9560.0010.0010.0000.0000.0000.000
216A331LYS10.8440.94152.1650.0390.0390.0000.0000.0000.000
217A332ILE0-0.012-0.01653.0190.0010.0010.0000.0000.0000.000
218A333VAL00.0190.01549.9760.0010.0010.0000.0000.0000.000
219A334PRO00.0240.01053.4150.0010.0010.0000.0000.0000.000
220A335GLN00.0480.02556.3190.0010.0010.0000.0000.0000.000
221A336LEU0-0.040-0.00253.3290.0010.0010.0000.0000.0000.000
222A337ILE0-0.021-0.01352.6940.0000.0000.0000.0000.0000.000
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