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: QV82Y

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 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 340
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -4697751.446617
FMO2-HF: Nuclear repulsion 4574510.678987
FMO2-HF: Total energy -123240.767631
FMO2-MP2: Total energy -123609.291488


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.
-0.0411.395-0.008-0.588-0.840.002
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 : 0.022 / q_NPA : -0.012
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].
3A106VAL00.0120.0173.874-0.6250.811-0.008-0.588-0.8400.002
4A107PHE0-0.006-0.0035.7370.5530.5530.0000.0000.0000.000
5A108PRO0-0.0040.0038.767-0.024-0.0240.0000.0000.0000.000
6A109ALA00.0150.00512.0930.0350.0350.0000.0000.0000.000
7A110GLY00.0260.01314.7950.0260.0260.0000.0000.0000.000
8A111PRO0-0.059-0.02817.1740.0080.0080.0000.0000.0000.000
9A112LEU00.0320.01919.9310.0000.0000.0000.0000.0000.000
10A113PHE00.0150.00219.7890.0270.0270.0000.0000.0000.000
11A114PRO00.017-0.00524.2360.0000.0000.0000.0000.0000.000
12A115THR0-0.023-0.01427.7660.0050.0050.0000.0000.0000.000
13A116GLU-1-0.786-0.88721.381-0.235-0.2350.0000.0000.0000.000
14A117GLY00.0430.02425.453-0.006-0.0060.0000.0000.0000.000
15A118ARG10.8230.89826.3660.1200.1200.0000.0000.0000.000
16A119ILE0-0.0110.00126.9160.0050.0050.0000.0000.0000.000
17A120VAL00.0400.02123.2770.0040.0040.0000.0000.0000.000
18A121GLN0-0.0090.00226.6670.0100.0100.0000.0000.0000.000
19A122LEU0-0.039-0.03429.5930.0070.0070.0000.0000.0000.000
20A123PHE00.0040.00226.9200.0090.0090.0000.0000.0000.000
21A124GLU-1-0.769-0.85928.159-0.156-0.1560.0000.0000.0000.000
22A125LYS10.8640.94330.2190.1100.1100.0000.0000.0000.000
23A126ASN0-0.061-0.05433.2700.0140.0140.0000.0000.0000.000
24A127THR00.0410.04029.9450.0100.0100.0000.0000.0000.000
25A128TYR0-0.069-0.05431.1500.0100.0100.0000.0000.0000.000
26A129SER0-0.062-0.03636.2280.0040.0040.0000.0000.0000.000
27A130VAL0-0.065-0.02135.3950.0060.0060.0000.0000.0000.000
28A131VAL00.0120.02736.465-0.006-0.0060.0000.0000.0000.000
29A132ASN00.0350.02236.2920.0020.0020.0000.0000.0000.000
30A133ILE0-0.024-0.01438.2140.0050.0050.0000.0000.0000.000
31A134PHE00.0110.01136.2220.0000.0000.0000.0000.0000.000
32A135ASP-1-0.694-0.81842.262-0.058-0.0580.0000.0000.0000.000
33A136VAL0-0.0220.00145.530-0.001-0.0010.0000.0000.0000.000
34A137THR0-0.080-0.03947.5620.0020.0020.0000.0000.0000.000
35A138LEU0-0.0450.00343.9080.0020.0020.0000.0000.0000.000
36A139ARG10.8970.93243.2820.0580.0580.0000.0000.0000.000
37A140PRO00.0420.03238.5610.0010.0010.0000.0000.0000.000
38A153GLY00.0270.01743.2770.0020.0020.0000.0000.0000.000
39A154ASN0-0.087-0.07139.932-0.002-0.0020.0000.0000.0000.000
40A155GLY00.0270.01338.1860.0010.0010.0000.0000.0000.000
41A156SER00.0060.01936.291-0.005-0.0050.0000.0000.0000.000
42A157GLY00.0380.02538.5370.0060.0060.0000.0000.0000.000
43A158VAL0-0.025-0.01639.703-0.005-0.0050.0000.0000.0000.000
44A159VAL00.0320.02741.0280.0040.0040.0000.0000.0000.000
45A160TRP0-0.039-0.02743.474-0.002-0.0020.0000.0000.0000.000
46A161ASP-1-0.819-0.94146.634-0.058-0.0580.0000.0000.0000.000
47A162GLY00.0620.03647.384-0.002-0.0020.0000.0000.0000.000
48A163GLN00.0180.00548.4000.0010.0010.0000.0000.0000.000
49A164GLY00.0550.04647.5820.0010.0010.0000.0000.0000.000
50A165TYR0-0.014-0.00848.6570.0010.0010.0000.0000.0000.000
51A166ILE0-0.031-0.01443.879-0.003-0.0030.0000.0000.0000.000
52A167VAL0-0.011-0.00345.4440.0030.0030.0000.0000.0000.000
53A168THR00.006-0.01442.589-0.004-0.0040.0000.0000.0000.000
54A169ASN0-0.059-0.03943.3350.0000.0000.0000.0000.0000.000
55A170TYR00.0280.00946.0530.0000.0000.0000.0000.0000.000
56A171HIS00.008-0.01543.2510.0020.0020.0000.0000.0000.000
57A172VAL0-0.0190.00641.7320.0000.0000.0000.0000.0000.000
58A173ILE00.0290.01544.289-0.002-0.0020.0000.0000.0000.000
59A174GLY00.0440.02547.4030.0030.0030.0000.0000.0000.000
60A175ASN0-0.083-0.05248.1730.0030.0030.0000.0000.0000.000
61A176ALA00.0190.00949.5850.0030.0030.0000.0000.0000.000
62A177LEU0-0.004-0.01351.0480.0030.0030.0000.0000.0000.000
63A178SER0-0.105-0.06052.9880.0030.0030.0000.0000.0000.000
64A179ARG10.9150.95352.6140.0490.0490.0000.0000.0000.000
65A180ASN0-0.061-0.01856.9190.0010.0010.0000.0000.0000.000
66A181PRO00.0010.02254.3450.0010.0010.0000.0000.0000.000
67A182SER00.010-0.00657.5380.0010.0010.0000.0000.0000.000
68A183PRO0-0.041-0.03757.132-0.002-0.0020.0000.0000.0000.000
69A184GLY0-0.0030.01156.3550.0020.0020.0000.0000.0000.000
70A185ASP-1-0.826-0.90555.291-0.045-0.0450.0000.0000.0000.000
71A186VAL0-0.031-0.01249.657-0.002-0.0020.0000.0000.0000.000
72A187VAL00.0190.00649.7860.0000.0000.0000.0000.0000.000
73A188GLY0-0.014-0.00946.602-0.001-0.0010.0000.0000.0000.000
74A189ARG10.8320.91742.9880.0730.0730.0000.0000.0000.000
75A190VAL00.0120.00342.150-0.002-0.0020.0000.0000.0000.000
76A191ASN0-0.030-0.01637.3770.0010.0010.0000.0000.0000.000
77A192ILE00.0470.01338.427-0.002-0.0020.0000.0000.0000.000
78A193LEU00.0070.01731.8990.0010.0010.0000.0000.0000.000
79A194ALA00.0240.02235.8240.0040.0040.0000.0000.0000.000
80A195SER00.016-0.01435.005-0.007-0.0070.0000.0000.0000.000
81A196ASP-1-0.806-0.88534.209-0.115-0.1150.0000.0000.0000.000
82A197GLY00.0140.01730.881-0.007-0.0070.0000.0000.0000.000
83A198VAL0-0.012-0.01230.859-0.007-0.0070.0000.0000.0000.000
84A199GLN00.0060.00032.3530.0150.0150.0000.0000.0000.000
85A200LYS10.7770.88535.7230.1070.1070.0000.0000.0000.000
86A201ASN00.0210.01339.422-0.001-0.0010.0000.0000.0000.000
87A202PHE0-0.011-0.01741.5990.0030.0030.0000.0000.0000.000
88A203GLU-1-0.869-0.93745.103-0.057-0.0570.0000.0000.0000.000
89A204GLY00.0250.00247.6320.0000.0000.0000.0000.0000.000
90A205LYS10.8750.93648.3530.0550.0550.0000.0000.0000.000
91A206LEU0-0.005-0.00552.013-0.002-0.0020.0000.0000.0000.000
92A207VAL0-0.0260.00053.0950.0020.0020.0000.0000.0000.000
93A208GLY00.0630.01253.9610.0020.0020.0000.0000.0000.000
94A209ALA0-0.057-0.01952.875-0.003-0.0030.0000.0000.0000.000
95A210ASP-1-0.751-0.87353.211-0.044-0.0440.0000.0000.0000.000
96A211ARG10.8710.92952.6220.0460.0460.0000.0000.0000.000
97A212ALA0-0.004-0.00153.324-0.001-0.0010.0000.0000.0000.000
98A213LYS10.8730.93951.8760.0490.0490.0000.0000.0000.000
99A214ASP-1-0.726-0.81547.555-0.064-0.0640.0000.0000.0000.000
100A215LEU00.0050.00747.423-0.003-0.0030.0000.0000.0000.000
101A216ALA00.013-0.00248.6890.0030.0030.0000.0000.0000.000
102A217VAL0-0.012-0.00648.801-0.003-0.0030.0000.0000.0000.000
103A218LEU0-0.003-0.00146.5470.0020.0020.0000.0000.0000.000
104A219LYS10.8290.90050.0530.0540.0540.0000.0000.0000.000
105A220VAL0-0.016-0.00345.2060.0000.0000.0000.0000.0000.000
106A221ASP-1-0.945-0.96648.530-0.054-0.0540.0000.0000.0000.000
107A222ALA00.010-0.00845.537-0.002-0.0020.0000.0000.0000.000
108A223PRO00.0080.00045.5980.0020.0020.0000.0000.0000.000
109A224GLU-1-0.843-0.92145.918-0.063-0.0630.0000.0000.0000.000
110A225THR0-0.074-0.04544.446-0.002-0.0020.0000.0000.0000.000
111A226LEU0-0.052-0.01240.032-0.004-0.0040.0000.0000.0000.000
112A227LEU0-0.0090.01841.357-0.005-0.0050.0000.0000.0000.000
113A228LYS10.8900.92537.1530.1070.1070.0000.0000.0000.000
114A229PRO00.0140.03041.505-0.003-0.0030.0000.0000.0000.000
115A230ILE0-0.0200.00138.630-0.003-0.0030.0000.0000.0000.000
116A231LYS10.8780.94441.5090.0750.0750.0000.0000.0000.000
117A232VAL00.0410.02342.740-0.003-0.0030.0000.0000.0000.000
118A233GLY00.004-0.00345.0410.0010.0010.0000.0000.0000.000
119A234GLN00.0520.04145.9260.0000.0000.0000.0000.0000.000
120A235SER00.0940.05346.2090.0000.0000.0000.0000.0000.000
121A236ASN00.0050.00847.220-0.001-0.0010.0000.0000.0000.000
122A237SER0-0.061-0.03347.2590.0010.0010.0000.0000.0000.000
123A238LEU0-0.0110.01642.6140.0000.0000.0000.0000.0000.000
124A239LYS10.8480.90944.0600.0570.0570.0000.0000.0000.000
125A240VAL00.0280.00641.978-0.003-0.0030.0000.0000.0000.000
126A241GLY00.0250.02138.7530.0020.0020.0000.0000.0000.000
127A242GLN0-0.021-0.01037.8910.0000.0000.0000.0000.0000.000
128A243GLN00.0730.04730.5010.0040.0040.0000.0000.0000.000
129A244CYS0-0.072-0.02934.9160.0050.0050.0000.0000.0000.000
130A245LEU0-0.017-0.01330.867-0.006-0.0060.0000.0000.0000.000
131A246ALA00.0410.02533.0920.0060.0060.0000.0000.0000.000
132A247ILE00.0000.00032.103-0.007-0.0070.0000.0000.0000.000
133A248GLY00.020-0.00832.4740.0090.0090.0000.0000.0000.000
134A249ASN0-0.025-0.03432.609-0.011-0.0110.0000.0000.0000.000
135A250PRO0-0.0060.01531.4680.0080.0080.0000.0000.0000.000
136A251PHE0-0.005-0.02030.1940.0090.0090.0000.0000.0000.000
137A252GLY00.0230.01534.2160.0030.0030.0000.0000.0000.000
138A253PHE0-0.046-0.02127.7870.0040.0040.0000.0000.0000.000
139A254ASP-1-0.935-0.96627.557-0.178-0.1780.0000.0000.0000.000
140A255HIS0-0.006-0.01328.4970.0050.0050.0000.0000.0000.000
141A256THR0-0.036-0.03527.912-0.012-0.0120.0000.0000.0000.000
142A257LEU00.003-0.01026.6760.0090.0090.0000.0000.0000.000
143A258THR0-0.045-0.01628.107-0.006-0.0060.0000.0000.0000.000
144A259VAL0-0.014-0.02128.5470.0050.0050.0000.0000.0000.000
145A260GLY00.0520.03330.525-0.002-0.0020.0000.0000.0000.000
146A261VAL0-0.037-0.02632.8280.0000.0000.0000.0000.0000.000
147A262ILE0-0.0120.00836.2560.0010.0010.0000.0000.0000.000
148A263SER00.0370.02938.7000.0040.0040.0000.0000.0000.000
149A264GLY0-0.023-0.02140.5170.0040.0040.0000.0000.0000.000
150A265LEU00.000-0.00244.231-0.002-0.0020.0000.0000.0000.000
151A266ASN0-0.031-0.02047.0690.0010.0010.0000.0000.0000.000
152A267ARG10.9040.96345.9510.0550.0550.0000.0000.0000.000
153A268ASP-1-0.843-0.90748.991-0.046-0.0460.0000.0000.0000.000
154A269ILE0-0.0290.00245.088-0.002-0.0020.0000.0000.0000.000
155A270PHE00.0510.02046.9690.0020.0020.0000.0000.0000.000
156A271SER00.005-0.02646.055-0.002-0.0020.0000.0000.0000.000
157A272GLN0-0.019-0.00441.0220.0020.0020.0000.0000.0000.000
158A273THR0-0.013-0.02646.5050.0020.0020.0000.0000.0000.000
159A274GLY0-0.023-0.00849.5240.0020.0020.0000.0000.0000.000
160A275VAL0-0.008-0.00551.4090.0020.0020.0000.0000.0000.000
161A276THR0-0.075-0.04451.195-0.003-0.0030.0000.0000.0000.000
162A277ILE0-0.0030.00547.9410.0010.0010.0000.0000.0000.000
163A278GLY00.0480.02850.540-0.001-0.0010.0000.0000.0000.000
164A279GLY0-0.001-0.02251.5410.0000.0000.0000.0000.0000.000
165A280GLY0-0.024-0.00547.441-0.001-0.0010.0000.0000.0000.000
166A281ILE0-0.017-0.01242.0250.0020.0020.0000.0000.0000.000
167A282GLN00.0200.00741.3010.0020.0020.0000.0000.0000.000
168A283THR0-0.028-0.04936.896-0.001-0.0010.0000.0000.0000.000
169A284ASP-1-0.762-0.88234.138-0.091-0.0910.0000.0000.0000.000
170A285ALA0-0.0310.00132.604-0.006-0.0060.0000.0000.0000.000
171A286ALA00.0300.00331.2750.0040.0040.0000.0000.0000.000
172A287ILE0-0.0170.01833.189-0.006-0.0060.0000.0000.0000.000
173A288ASN0-0.022-0.01431.6190.0020.0020.0000.0000.0000.000
174A289PRO00.0450.00034.938-0.001-0.0010.0000.0000.0000.000
175A290GLY00.0430.03932.0340.0000.0000.0000.0000.0000.000
176A291ASN0-0.011-0.00932.844-0.001-0.0010.0000.0000.0000.000
177A292ALA00.0110.01134.8190.0040.0040.0000.0000.0000.000
178A293GLY00.0310.01738.503-0.002-0.0020.0000.0000.0000.000
179A294GLY00.0200.02037.7790.0020.0020.0000.0000.0000.000
180A295PRO0-0.027-0.01137.2130.0050.0050.0000.0000.0000.000
181A296LEU00.0270.01736.847-0.006-0.0060.0000.0000.0000.000
182A297LEU0-0.030-0.01935.2140.0050.0050.0000.0000.0000.000
183A298ASP-1-0.723-0.86437.277-0.085-0.0850.0000.0000.0000.000
184A299SER0-0.019-0.00635.399-0.004-0.0040.0000.0000.0000.000
185A300LYS10.8640.91835.7350.0740.0740.0000.0000.0000.000
186A301GLY00.0080.01136.734-0.001-0.0010.0000.0000.0000.000
187A302ASN0-0.057-0.03337.3140.0040.0040.0000.0000.0000.000
188A303LEU00.0340.01740.618-0.001-0.0010.0000.0000.0000.000
189A304ILE0-0.032-0.03639.8800.0050.0050.0000.0000.0000.000
190A305GLY00.0620.00842.2380.0040.0040.0000.0000.0000.000
191A306ILE00.0000.02141.913-0.004-0.0040.0000.0000.0000.000
192A307ASN0-0.026-0.00736.6580.0050.0050.0000.0000.0000.000
193A308THR00.008-0.00240.0670.0010.0010.0000.0000.0000.000
194A309ALA00.0130.01540.3120.0000.0000.0000.0000.0000.000
195A310ILE0-0.011-0.01141.5120.0040.0040.0000.0000.0000.000
196A311PHE0-0.0080.00842.649-0.002-0.0020.0000.0000.0000.000
197A312THR00.008-0.01141.7920.0010.0010.0000.0000.0000.000
198A313GLN0-0.004-0.00744.7200.0000.0000.0000.0000.0000.000
199A314THR00.0160.00443.5600.0020.0020.0000.0000.0000.000
200A315GLY00.0220.02741.553-0.003-0.0030.0000.0000.0000.000
201A316THR0-0.031-0.02739.2890.0010.0010.0000.0000.0000.000
202A317SER00.0240.02335.4280.0020.0020.0000.0000.0000.000
203A318ALA00.0220.00138.0490.0010.0010.0000.0000.0000.000
204A319GLY0-0.0010.00535.2330.0010.0010.0000.0000.0000.000
205A320VAL0-0.053-0.02035.663-0.003-0.0030.0000.0000.0000.000
206A321GLY00.0040.00637.8220.0010.0010.0000.0000.0000.000
207A322PHE00.011-0.01438.9150.0020.0020.0000.0000.0000.000
208A323ALA00.0240.01540.962-0.003-0.0030.0000.0000.0000.000
209A324ILE00.0100.02442.9570.0030.0030.0000.0000.0000.000
210A325PRO00.0030.01245.545-0.003-0.0030.0000.0000.0000.000
211A326SER00.016-0.02945.7500.0020.0020.0000.0000.0000.000
212A327SER0-0.033-0.02847.5610.0010.0010.0000.0000.0000.000
213A328THR00.0140.01050.3380.0030.0030.0000.0000.0000.000
214A329VAL00.0080.00246.6310.0010.0010.0000.0000.0000.000
215A330LEU0-0.030-0.02549.8380.0010.0010.0000.0000.0000.000
216A331LYS10.8210.91852.2490.0420.0420.0000.0000.0000.000
217A332ILE0-0.023-0.01152.7530.0010.0010.0000.0000.0000.000
218A333VAL00.0240.01149.6230.0010.0010.0000.0000.0000.000
219A334PRO00.0100.00453.0670.0010.0010.0000.0000.0000.000
220A335GLN00.0550.02556.1100.0010.0010.0000.0000.0000.000
221A336LEU0-0.055-0.01552.8470.0010.0010.0000.0000.0000.000
222A337ILE0-0.012-0.01452.3280.0000.0000.0000.0000.0000.000
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