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: ZV24N

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 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 340
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -4690994.512783
FMO2-HF: Nuclear repulsion 4567755.710266
FMO2-HF: Total energy -123238.802517
FMO2-MP2: Total energy -123607.46303


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.
-1.4721.151-0.016-1.313-1.2940.004
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 : 0.034 / q_NPA : 0.005
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].
3A106VAL0-0.0080.0003.790-1.8750.748-0.016-1.313-1.2940.004
4A107PHE0-0.016-0.0095.8290.4060.4060.0000.0000.0000.000
5A108PRO00.0080.0098.949-0.005-0.0050.0000.0000.0000.000
6A109ALA00.004-0.00712.2710.0560.0560.0000.0000.0000.000
7A110GLY00.0270.02715.1460.0300.0300.0000.0000.0000.000
8A111PRO0-0.038-0.01516.6860.0100.0100.0000.0000.0000.000
9A112LEU00.0200.00819.6600.0010.0010.0000.0000.0000.000
10A113PHE00.000-0.00619.4000.0250.0250.0000.0000.0000.000
11A114PRO00.0380.00923.913-0.001-0.0010.0000.0000.0000.000
12A115THR0-0.032-0.02427.5280.0020.0020.0000.0000.0000.000
13A116GLU-1-0.795-0.89721.036-0.233-0.2330.0000.0000.0000.000
14A117GLY00.0520.02525.311-0.006-0.0060.0000.0000.0000.000
15A118ARG10.8660.92826.1150.1120.1120.0000.0000.0000.000
16A119ILE0-0.030-0.00627.1100.0050.0050.0000.0000.0000.000
17A120VAL00.0500.02723.2990.0030.0030.0000.0000.0000.000
18A121GLN0-0.0060.00526.7160.0080.0080.0000.0000.0000.000
19A122LEU0-0.026-0.02229.5550.0060.0060.0000.0000.0000.000
20A123PHE00.0220.01627.3360.0090.0090.0000.0000.0000.000
21A124GLU-1-0.835-0.90728.219-0.167-0.1670.0000.0000.0000.000
22A125LYS10.9610.99630.1780.1140.1140.0000.0000.0000.000
23A126ASN0-0.118-0.10933.4590.0130.0130.0000.0000.0000.000
24A127THR00.0430.03730.1770.0090.0090.0000.0000.0000.000
25A128TYR0-0.085-0.03531.9820.0100.0100.0000.0000.0000.000
26A129SER0-0.066-0.03236.4110.0030.0030.0000.0000.0000.000
27A130VAL0-0.049-0.00935.5380.0070.0070.0000.0000.0000.000
28A131VAL00.0200.02536.518-0.006-0.0060.0000.0000.0000.000
29A132ASN00.0010.00336.1080.0010.0010.0000.0000.0000.000
30A133ILE0-0.0280.00038.1840.0040.0040.0000.0000.0000.000
31A134PHE0-0.0060.00435.9350.0010.0010.0000.0000.0000.000
32A135ASP-1-0.684-0.81341.874-0.054-0.0540.0000.0000.0000.000
33A136VAL0-0.067-0.03045.048-0.001-0.0010.0000.0000.0000.000
34A137THR0-0.073-0.06046.9160.0020.0020.0000.0000.0000.000
35A138LEU0-0.058-0.02843.3810.0030.0030.0000.0000.0000.000
36A139ARG10.9130.95443.5210.0520.0520.0000.0000.0000.000
37A140PRO00.0270.02438.4670.0020.0020.0000.0000.0000.000
38A153GLY0-0.007-0.01542.1430.0020.0020.0000.0000.0000.000
39A154ASN0-0.050-0.03239.497-0.001-0.0010.0000.0000.0000.000
40A155GLY00.0330.02037.7530.0010.0010.0000.0000.0000.000
41A156SER0-0.0030.01536.536-0.006-0.0060.0000.0000.0000.000
42A157GLY00.0620.04238.8360.0060.0060.0000.0000.0000.000
43A158VAL0-0.021-0.01240.087-0.005-0.0050.0000.0000.0000.000
44A159VAL00.0070.00841.3990.0050.0050.0000.0000.0000.000
45A160TRP0-0.023-0.01643.832-0.002-0.0020.0000.0000.0000.000
46A161ASP-1-0.785-0.91747.058-0.060-0.0600.0000.0000.0000.000
47A162GLY00.0400.01247.785-0.002-0.0020.0000.0000.0000.000
48A163GLN0-0.041-0.01848.8720.0000.0000.0000.0000.0000.000
49A164GLY00.0500.03047.6590.0010.0010.0000.0000.0000.000
50A165TYR0-0.040-0.01948.5430.0010.0010.0000.0000.0000.000
51A166ILE0-0.0100.00144.154-0.003-0.0030.0000.0000.0000.000
52A167VAL00.0010.00145.6500.0030.0030.0000.0000.0000.000
53A168THR00.015-0.01642.793-0.004-0.0040.0000.0000.0000.000
54A169ASN0-0.053-0.02743.0770.0000.0000.0000.0000.0000.000
55A170TYR00.0110.00345.8950.0000.0000.0000.0000.0000.000
56A171HIS00.013-0.02043.1480.0020.0020.0000.0000.0000.000
57A172VAL0-0.0050.01241.5160.0000.0000.0000.0000.0000.000
58A173ILE00.0020.01544.143-0.001-0.0010.0000.0000.0000.000
59A174GLY00.0510.02446.9860.0030.0030.0000.0000.0000.000
60A175ASN0-0.069-0.04047.8920.0040.0040.0000.0000.0000.000
61A176ALA00.0330.01449.2570.0030.0030.0000.0000.0000.000
62A177LEU0-0.034-0.01950.6770.0020.0020.0000.0000.0000.000
63A178SER0-0.086-0.05052.7410.0020.0020.0000.0000.0000.000
64A179ARG10.8950.94251.8510.0460.0460.0000.0000.0000.000
65A180ASN0-0.063-0.02256.3520.0010.0010.0000.0000.0000.000
66A181PRO00.0210.03854.3180.0010.0010.0000.0000.0000.000
67A182SER0-0.004-0.01357.4010.0010.0010.0000.0000.0000.000
68A183PRO0-0.011-0.01657.155-0.002-0.0020.0000.0000.0000.000
69A184GLY0-0.029-0.00356.2460.0010.0010.0000.0000.0000.000
70A185ASP-1-0.848-0.92255.187-0.044-0.0440.0000.0000.0000.000
71A186VAL0-0.030-0.01649.533-0.002-0.0020.0000.0000.0000.000
72A187VAL00.0190.00449.1190.0010.0010.0000.0000.0000.000
73A188GLY0-0.003-0.00946.184-0.001-0.0010.0000.0000.0000.000
74A189ARG10.8350.93142.6670.0710.0710.0000.0000.0000.000
75A190VAL00.025-0.00342.005-0.002-0.0020.0000.0000.0000.000
76A191ASN00.0010.00137.0190.0000.0000.0000.0000.0000.000
77A192ILE00.0240.00238.417-0.001-0.0010.0000.0000.0000.000
78A193LEU0-0.0090.01231.7600.0000.0000.0000.0000.0000.000
79A194ALA00.0500.02335.7390.0050.0050.0000.0000.0000.000
80A195SER00.017-0.00734.712-0.007-0.0070.0000.0000.0000.000
81A196ASP-1-0.858-0.93233.701-0.129-0.1290.0000.0000.0000.000
82A197GLY00.0170.01430.688-0.008-0.0080.0000.0000.0000.000
83A198VAL0-0.023-0.00430.765-0.005-0.0050.0000.0000.0000.000
84A199GLN00.012-0.00132.1270.0140.0140.0000.0000.0000.000
85A200LYS10.8570.93835.3290.1150.1150.0000.0000.0000.000
86A201ASN00.0180.00638.8770.0000.0000.0000.0000.0000.000
87A202PHE0-0.007-0.00841.3000.0020.0020.0000.0000.0000.000
88A203GLU-1-0.922-0.95744.807-0.058-0.0580.0000.0000.0000.000
89A204GLY00.0130.00047.5220.0000.0000.0000.0000.0000.000
90A205LYS10.9340.96548.2330.0530.0530.0000.0000.0000.000
91A206LEU00.0040.00451.795-0.002-0.0020.0000.0000.0000.000
92A207VAL0-0.023-0.00552.8400.0020.0020.0000.0000.0000.000
93A208GLY00.0630.01453.8910.0020.0020.0000.0000.0000.000
94A209ALA0-0.049-0.01152.976-0.003-0.0030.0000.0000.0000.000
95A210ASP-1-0.741-0.85553.107-0.040-0.0400.0000.0000.0000.000
96A211ARG10.8930.93251.9500.0400.0400.0000.0000.0000.000
97A212ALA00.0010.00052.758-0.001-0.0010.0000.0000.0000.000
98A213LYS10.9350.96851.7840.0420.0420.0000.0000.0000.000
99A214ASP-1-0.720-0.84646.770-0.058-0.0580.0000.0000.0000.000
100A215LEU0-0.014-0.00747.489-0.003-0.0030.0000.0000.0000.000
101A216ALA00.0120.00148.6540.0030.0030.0000.0000.0000.000
102A217VAL0-0.0060.00048.919-0.003-0.0030.0000.0000.0000.000
103A218LEU00.0050.00246.2150.0020.0020.0000.0000.0000.000
104A219LYS10.9080.95749.8150.0540.0540.0000.0000.0000.000
105A220VAL0-0.027-0.00745.1860.0010.0010.0000.0000.0000.000
106A221ASP-1-0.957-0.97248.554-0.059-0.0590.0000.0000.0000.000
107A222ALA00.019-0.00245.357-0.002-0.0020.0000.0000.0000.000
108A223PRO00.0180.00545.2090.0020.0020.0000.0000.0000.000
109A224GLU-1-0.883-0.92645.907-0.067-0.0670.0000.0000.0000.000
110A225THR0-0.028-0.02843.539-0.001-0.0010.0000.0000.0000.000
111A226LEU0-0.088-0.04639.782-0.005-0.0050.0000.0000.0000.000
112A227LEU0-0.0210.00841.409-0.004-0.0040.0000.0000.0000.000
113A228LYS10.9230.95737.4000.1090.1090.0000.0000.0000.000
114A229PRO0-0.0130.00341.763-0.003-0.0030.0000.0000.0000.000
115A230ILE0-0.0100.00739.332-0.003-0.0030.0000.0000.0000.000
116A231LYS10.9270.97241.8710.0780.0780.0000.0000.0000.000
117A232VAL00.0270.02243.053-0.002-0.0020.0000.0000.0000.000
118A233GLY0-0.020-0.00445.1670.0010.0010.0000.0000.0000.000
119A234GLN00.0290.00946.0910.0020.0020.0000.0000.0000.000
120A235SER00.0930.03546.5760.0000.0000.0000.0000.0000.000
121A236ASN0-0.023-0.02247.5940.0010.0010.0000.0000.0000.000
122A237SER0-0.091-0.02747.5440.0010.0010.0000.0000.0000.000
123A238LEU0-0.0010.00742.851-0.001-0.0010.0000.0000.0000.000
124A239LYS10.9300.96243.6550.0490.0490.0000.0000.0000.000
125A240VAL00.015-0.00442.039-0.003-0.0030.0000.0000.0000.000
126A241GLY00.0170.01338.9820.0020.0020.0000.0000.0000.000
127A242GLN0-0.035-0.00837.8620.0000.0000.0000.0000.0000.000
128A243GLN00.0560.03230.9940.0030.0030.0000.0000.0000.000
129A244CYS0-0.057-0.02534.8740.0040.0040.0000.0000.0000.000
130A245LEU00.004-0.00931.231-0.005-0.0050.0000.0000.0000.000
131A246ALA00.0050.03133.0820.0060.0060.0000.0000.0000.000
132A247ILE0-0.002-0.00432.318-0.008-0.0080.0000.0000.0000.000
133A248GLY00.016-0.00232.4970.0100.0100.0000.0000.0000.000
134A249ASN0-0.003-0.01932.586-0.013-0.0130.0000.0000.0000.000
135A250PRO0-0.0070.00531.6770.0070.0070.0000.0000.0000.000
136A251PHE0-0.033-0.03930.5930.0070.0070.0000.0000.0000.000
137A252GLY00.0350.02433.9180.0020.0020.0000.0000.0000.000
138A253PHE0-0.062-0.03126.7750.0030.0030.0000.0000.0000.000
139A254ASP-1-0.947-0.95826.858-0.183-0.1830.0000.0000.0000.000
140A255HIS00.004-0.01428.2530.0060.0060.0000.0000.0000.000
141A256THR0-0.049-0.02027.823-0.011-0.0110.0000.0000.0000.000
142A257LEU00.010-0.00926.9000.0070.0070.0000.0000.0000.000
143A258THR0-0.074-0.04527.913-0.005-0.0050.0000.0000.0000.000
144A259VAL00.005-0.01828.7970.0030.0030.0000.0000.0000.000
145A260GLY00.0470.03530.491-0.001-0.0010.0000.0000.0000.000
146A261VAL0-0.033-0.01932.928-0.001-0.0010.0000.0000.0000.000
147A262ILE0-0.019-0.00936.2150.0020.0020.0000.0000.0000.000
148A263SER00.0060.01038.9020.0030.0030.0000.0000.0000.000
149A264GLY00.010-0.01540.6920.0040.0040.0000.0000.0000.000
150A265LEU0-0.005-0.00844.364-0.002-0.0020.0000.0000.0000.000
151A266ASN0-0.061-0.02347.1950.0020.0020.0000.0000.0000.000
152A267ARG10.9510.97546.1960.0430.0430.0000.0000.0000.000
153A268ASP-1-0.898-0.94948.617-0.039-0.0390.0000.0000.0000.000
154A269ILE0-0.030-0.00345.036-0.001-0.0010.0000.0000.0000.000
155A270PHE00.0250.00046.5590.0010.0010.0000.0000.0000.000
156A271SER00.0150.00245.984-0.001-0.0010.0000.0000.0000.000
157A272GLN0-0.035-0.02240.6980.0020.0020.0000.0000.0000.000
158A273THR00.0080.01846.1830.0010.0010.0000.0000.0000.000
159A274GLY0-0.016-0.01249.3410.0020.0020.0000.0000.0000.000
160A275VAL00.0120.00151.1230.0020.0020.0000.0000.0000.000
161A276THR0-0.071-0.02850.789-0.002-0.0020.0000.0000.0000.000
162A277ILE00.0160.02248.1540.0010.0010.0000.0000.0000.000
163A278GLY00.0530.03650.5410.0000.0000.0000.0000.0000.000
164A279GLY0-0.019-0.03251.464-0.001-0.0010.0000.0000.0000.000
165A280GLY00.0030.00847.396-0.002-0.0020.0000.0000.0000.000
166A281ILE0-0.016-0.00442.0770.0020.0020.0000.0000.0000.000
167A282GLN0-0.011-0.01240.9420.0010.0010.0000.0000.0000.000
168A283THR0-0.003-0.01636.892-0.002-0.0020.0000.0000.0000.000
169A284ASP-1-0.813-0.90934.587-0.074-0.0740.0000.0000.0000.000
170A285ALA0-0.0040.01732.503-0.004-0.0040.0000.0000.0000.000
171A286ALA00.0060.00030.8750.0050.0050.0000.0000.0000.000
172A287ILE0-0.0090.02632.862-0.005-0.0050.0000.0000.0000.000
173A288ASN00.000-0.01630.8090.0030.0030.0000.0000.0000.000
174A289PRO00.0500.00334.153-0.001-0.0010.0000.0000.0000.000
175A290GLY00.0190.02331.989-0.001-0.0010.0000.0000.0000.000
176A291ASN00.0340.00032.8600.0000.0000.0000.0000.0000.000
177A292ALA00.0200.02235.0580.0030.0030.0000.0000.0000.000
178A293GLY00.0360.01638.630-0.002-0.0020.0000.0000.0000.000
179A294GLY0-0.0030.00737.7360.0000.0000.0000.0000.0000.000
180A295PRO0-0.027-0.00537.0300.0060.0060.0000.0000.0000.000
181A296LEU00.0370.00936.810-0.005-0.0050.0000.0000.0000.000
182A297LEU0-0.036-0.02235.3640.0040.0040.0000.0000.0000.000
183A298ASP-1-0.763-0.88937.206-0.079-0.0790.0000.0000.0000.000
184A299SER0-0.019-0.01835.462-0.004-0.0040.0000.0000.0000.000
185A300LYS10.8950.93536.0500.0690.0690.0000.0000.0000.000
186A301GLY0-0.009-0.00337.111-0.001-0.0010.0000.0000.0000.000
187A302ASN0-0.044-0.00837.8130.0000.0000.0000.0000.0000.000
188A303LEU00.021-0.00640.751-0.001-0.0010.0000.0000.0000.000
189A304ILE0-0.032-0.02839.8730.0050.0050.0000.0000.0000.000
190A305GLY00.0540.00342.4130.0040.0040.0000.0000.0000.000
191A306ILE00.0030.02442.025-0.004-0.0040.0000.0000.0000.000
192A307ASN0-0.029-0.00136.8360.0060.0060.0000.0000.0000.000
193A308THR0-0.008-0.02240.1410.0010.0010.0000.0000.0000.000
194A309ALA00.0140.02440.4350.0010.0010.0000.0000.0000.000
195A310ILE0-0.008-0.01441.1970.0030.0030.0000.0000.0000.000
196A311PHE0-0.0020.00242.233-0.002-0.0020.0000.0000.0000.000
197A312THR0-0.004-0.01941.6510.0000.0000.0000.0000.0000.000
198A313GLN00.002-0.00344.4110.0000.0000.0000.0000.0000.000
199A314THR00.0280.01643.3210.0010.0010.0000.0000.0000.000
200A315GLY00.0430.03841.193-0.003-0.0030.0000.0000.0000.000
201A316THR0-0.030-0.04638.6060.0020.0020.0000.0000.0000.000
202A317SER0-0.0020.01735.1200.0000.0000.0000.0000.0000.000
203A318ALA00.0130.00437.2930.0020.0020.0000.0000.0000.000
204A319GLY0-0.006-0.00634.9130.0000.0000.0000.0000.0000.000
205A320VAL0-0.036-0.00435.431-0.003-0.0030.0000.0000.0000.000
206A321GLY00.0060.00237.7980.0010.0010.0000.0000.0000.000
207A322PHE0-0.004-0.02038.7840.0020.0020.0000.0000.0000.000
208A323ALA00.0360.02241.028-0.003-0.0030.0000.0000.0000.000
209A324ILE0-0.0120.00642.9260.0030.0030.0000.0000.0000.000
210A325PRO00.0040.02445.723-0.003-0.0030.0000.0000.0000.000
211A326SER00.0500.00245.8540.0020.0020.0000.0000.0000.000
212A327SER0-0.013-0.00347.6620.0010.0010.0000.0000.0000.000
213A328THR00.0210.00750.4570.0020.0020.0000.0000.0000.000
214A329VAL00.0010.00546.8710.0010.0010.0000.0000.0000.000
215A330LEU0-0.025-0.02850.0540.0000.0000.0000.0000.0000.000
216A331LYS10.8800.96652.1690.0390.0390.0000.0000.0000.000
217A332ILE0-0.004-0.01252.9240.0010.0010.0000.0000.0000.000
218A333VAL00.0170.01450.0080.0010.0010.0000.0000.0000.000
219A334PRO00.0140.00553.4010.0000.0000.0000.0000.0000.000
220A335GLN00.0600.02956.3350.0010.0010.0000.0000.0000.000
221A336LEU0-0.0340.00153.1310.0010.0010.0000.0000.0000.000
222A337ILE0-0.019-0.01152.7500.0000.0000.0000.0000.0000.000
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