Manual

About

FMODB

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

Last updated: 2024-04-05

All entries: 36946

Number of unique PDB entries: 7781

tag_button

FMODB ID: P4JGN

Calculation Name: 1I1J-A-Xray18

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1I1J

Chain ID: A

ChEMBL ID:

UniProt ID: Q16674

Base Structure: X-ray

Registration Date: 2018-06-04

Reference:

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
Protonation MOE:Protonate 3D
Complement Missing residues were capped by ACE, NME. Missing atoms were corrected by Structure prepareation by MOE.
Water Apo structure with with a 3 angstrom solvent shell.
Procedure Auto-FMO protocol ver. 1.20180227
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 176
LigandCharge
Software MIZUHO/ABINIT-MP 3.0
Total energy (hartree)
FMO2-HF: Electronic energy -995128.101988
FMO2-HF: Nuclear repulsion 946743.465584
FMO2-HF: Total energy -48384.636404
FMO2-MP2: Total energy -48520.58144


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:0:ACE)


Summations of interaction energy for fragment #1(A:0:ACE)
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.
0.2041.121-0.012-0.367-0.538-0.001
Interaction energy analysis for fragmet #1(A:0:ACE)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.001 / q_NPA : -0.015
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].
3A2PRO0-0.0030.0083.8120.9141.831-0.012-0.367-0.538-0.001
4A3MET00.0070.0165.2770.2170.2170.0000.0000.0000.000
5A4PRO00.0120.0155.0830.0350.0350.0000.0000.0000.000
6A5LYS10.8650.9507.409-0.226-0.2260.0000.0000.0000.000
7A6LEU00.0020.02310.9930.0800.0800.0000.0000.0000.000
8A7ALA0-0.020-0.01213.4190.0320.0320.0000.0000.0000.000
9A8ASP-1-0.877-0.90612.7740.3170.3170.0000.0000.0000.000
10A9ARG10.8090.88815.198-0.145-0.1450.0000.0000.0000.000
11A10LYS10.8450.92118.959-0.035-0.0350.0000.0000.0000.000
12A11LEU0-0.033-0.00921.665-0.002-0.0020.0000.0000.0000.000
13A17CYS0-0.129-0.06325.448-0.001-0.0010.0000.0000.0000.000
14A13ALA00.0050.00327.7600.0030.0030.0000.0000.0000.000
15A14ASP-1-0.799-0.93630.1610.0230.0230.0000.0000.0000.000
16A15GLN00.015-0.00127.8150.0030.0030.0000.0000.0000.000
17A16GLU-1-0.874-0.93027.0730.0190.0190.0000.0000.0000.000
18A18SER00.0290.02028.151-0.003-0.0030.0000.0000.0000.000
19A19HIS00.0370.03931.024-0.003-0.0030.0000.0000.0000.000
20A20PRO00.0070.02731.8050.0040.0040.0000.0000.0000.000
21A21ILE0-0.006-0.01228.3260.0010.0010.0000.0000.0000.000
22A22SER0-0.051-0.02932.328-0.001-0.0010.0000.0000.0000.000
23A23MET00.0250.04233.589-0.001-0.0010.0000.0000.0000.000
24A24ALA00.014-0.00332.6260.0030.0030.0000.0000.0000.000
25A25VAL00.0230.01334.751-0.003-0.0030.0000.0000.0000.000
26A26ALA0-0.0040.00432.1790.0040.0040.0000.0000.0000.000
27A27LEU0-0.0030.00232.806-0.003-0.0030.0000.0000.0000.000
28A28GLN0-0.044-0.02130.2150.0000.0000.0000.0000.0000.000
29A29ASP-1-0.820-0.91030.4790.0130.0130.0000.0000.0000.000
30A30TYR0-0.017-0.02220.5030.0100.0100.0000.0000.0000.000
31A31MET00.0660.04423.924-0.004-0.0040.0000.0000.0000.000
32A32ALA0-0.032-0.00521.6920.0050.0050.0000.0000.0000.000
33A33PRO00.0250.02417.646-0.012-0.0120.0000.0000.0000.000
34A34ASP-1-0.701-0.84014.901-0.055-0.0550.0000.0000.0000.000
35A106CYS0-0.0390.00316.980-0.007-0.0070.0000.0000.0000.000
36A36ARG10.8680.90212.032-0.018-0.0180.0000.0000.0000.000
37A37PHE0-0.057-0.02815.7740.0190.0190.0000.0000.0000.000
38A38LEU00.0180.02520.897-0.012-0.0120.0000.0000.0000.000
39A39THR0-0.050-0.02524.6400.0050.0050.0000.0000.0000.000
40A40ILE00.0020.01526.835-0.001-0.0010.0000.0000.0000.000
41A41HIS00.0590.04529.6580.0030.0030.0000.0000.0000.000
42A42ARG10.8880.91632.678-0.019-0.0190.0000.0000.0000.000
43A43GLY00.0210.02935.052-0.003-0.0030.0000.0000.0000.000
44A44GLN00.0690.04532.9270.0000.0000.0000.0000.0000.000
45A45VAL0-0.0040.01435.0650.0030.0030.0000.0000.0000.000
46A46VAL0-0.027-0.01029.250-0.003-0.0030.0000.0000.0000.000
47A47TYR00.006-0.00832.1410.0030.0030.0000.0000.0000.000
48A48VAL0-0.026-0.01527.739-0.001-0.0010.0000.0000.0000.000
49A49PHE00.0280.00327.4960.0000.0000.0000.0000.0000.000
50A50SER0-0.025-0.02022.7830.0020.0020.0000.0000.0000.000
51A51LYS10.8420.91624.247-0.058-0.0580.0000.0000.0000.000
52A52LEU0-0.0070.00417.3390.0070.0070.0000.0000.0000.000
53A53LYS10.9290.95319.708-0.120-0.1200.0000.0000.0000.000
54A54GLY00.0250.00418.0200.0200.0200.0000.0000.0000.000
55A55ARG10.9810.9609.563-0.747-0.7470.0000.0000.0000.000
56A56GLY00.1020.06715.6710.0070.0070.0000.0000.0000.000
57A57ARG10.8820.96116.804-0.212-0.2120.0000.0000.0000.000
58A58LEU00.0140.01618.999-0.016-0.0160.0000.0000.0000.000
59A59PHE0-0.0170.00717.920-0.012-0.0120.0000.0000.0000.000
60A60TRP00.0200.00021.3680.0040.0040.0000.0000.0000.000
61A61GLY00.0120.00723.183-0.002-0.0020.0000.0000.0000.000
62A62GLY00.0330.00724.0890.0020.0020.0000.0000.0000.000
63A63SER00.0110.00226.881-0.003-0.0030.0000.0000.0000.000
64A64VAL00.003-0.00529.5870.0040.0040.0000.0000.0000.000
65A65GLN0-0.0080.01632.103-0.002-0.0020.0000.0000.0000.000
66A66GLY00.0070.01635.8700.0000.0000.0000.0000.0000.000
67A67ASP-1-0.916-0.95937.775-0.004-0.0040.0000.0000.0000.000
68A68TYR0-0.066-0.02240.4930.0010.0010.0000.0000.0000.000
69A69TYR00.017-0.02142.1600.0000.0000.0000.0000.0000.000
70A70GLY00.0340.01241.817-0.001-0.0010.0000.0000.0000.000
71A71ASP-1-0.825-0.88338.262-0.008-0.0080.0000.0000.0000.000
72A72LEU0-0.001-0.00632.9320.0030.0030.0000.0000.0000.000
73A73ALA0-0.057-0.01031.480-0.002-0.0020.0000.0000.0000.000
74A74ALA00.035-0.00231.1930.0020.0020.0000.0000.0000.000
75A75ARG10.8520.91822.3450.0290.0290.0000.0000.0000.000
76A76LEU00.0070.01624.7620.0050.0050.0000.0000.0000.000
77A77GLY0-0.020-0.01822.241-0.009-0.0090.0000.0000.0000.000
78A78TYR0-0.0220.00318.9900.0150.0150.0000.0000.0000.000
79A79PHE00.0240.00721.724-0.006-0.0060.0000.0000.0000.000
80A80PRO00.0420.02722.0410.0090.0090.0000.0000.0000.000
81A81SER00.0250.03223.560-0.007-0.0070.0000.0000.0000.000
82A82SER00.0420.00525.995-0.005-0.0050.0000.0000.0000.000
83A83ILE0-0.049-0.01326.551-0.003-0.0030.0000.0000.0000.000
84A84VAL0-0.0030.01829.161-0.006-0.0060.0000.0000.0000.000
85A85ARG10.8950.93331.548-0.022-0.0220.0000.0000.0000.000
86A86GLU-1-0.750-0.85132.1840.0460.0460.0000.0000.0000.000
87A87ASP-1-0.728-0.79435.0020.0270.0270.0000.0000.0000.000
88A88GLN00.022-0.00237.643-0.001-0.0010.0000.0000.0000.000
89A89THR00.0040.01235.6880.0020.0020.0000.0000.0000.000
90A90LEU0-0.0440.00435.622-0.002-0.0020.0000.0000.0000.000
91A91LYS10.8500.90735.036-0.023-0.0230.0000.0000.0000.000
92A92PRO00.0230.03134.2620.0020.0020.0000.0000.0000.000
93A93GLY00.0820.04330.185-0.002-0.0020.0000.0000.0000.000
94A94LYS10.8410.91129.605-0.033-0.0330.0000.0000.0000.000
95A95VAL0-0.0160.00628.0950.0030.0030.0000.0000.0000.000
96A96ASP-1-0.777-0.85423.5930.1120.1120.0000.0000.0000.000
97A97VAL00.0460.02222.8400.0000.0000.0000.0000.0000.000
98A98LYS10.8690.93218.680-0.034-0.0340.0000.0000.0000.000
99A99THR0-0.007-0.02815.560-0.012-0.0120.0000.0000.0000.000
100A100ASP-1-0.855-0.94617.1260.0380.0380.0000.0000.0000.000
101A101LYS10.9190.93413.9620.0990.0990.0000.0000.0000.000
102A102TRP00.0680.02416.078-0.016-0.0160.0000.0000.0000.000
103A103ASP-1-0.806-0.86117.3940.0360.0360.0000.0000.0000.000
104A104PHE0-0.025-0.03913.9160.0130.0130.0000.0000.0000.000
105A105TYR0-0.008-0.00515.359-0.015-0.0150.0000.0000.0000.000
106A107NME00.0180.03419.6680.0030.0030.0000.0000.0000.000
107A108HOH0-0.001-0.00439.150-0.001-0.0010.0000.0000.0000.000
108A109HOH00.005-0.00324.529-0.002-0.0020.0000.0000.0000.000
109A110HOH00.0050.00823.532-0.005-0.0050.0000.0000.0000.000
110A111HOH00.0080.00428.7920.0010.0010.0000.0000.0000.000
111A112HOH00.0160.01028.9140.0020.0020.0000.0000.0000.000
112A113HOH0-0.033-0.03023.094-0.005-0.0050.0000.0000.0000.000
113A114HOH00.0160.01739.7070.0010.0010.0000.0000.0000.000
114A115HOH0-0.020-0.01836.196-0.001-0.0010.0000.0000.0000.000
115A116HOH0-0.028-0.01029.8010.0010.0010.0000.0000.0000.000
116A117HOH00.0210.01745.3730.0000.0000.0000.0000.0000.000
117A118HOH00.0230.01428.567-0.002-0.0020.0000.0000.0000.000
118A119HOH0-0.065-0.05030.531-0.002-0.0020.0000.0000.0000.000
119A120HOH0-0.024-0.01840.0010.0000.0000.0000.0000.0000.000
120A121HOH00.001-0.00611.2780.0010.0010.0000.0000.0000.000
121A122HOH00.005-0.00535.765-0.001-0.0010.0000.0000.0000.000
122A123HOH0-0.022-0.02532.171-0.002-0.0020.0000.0000.0000.000
123A124HOH00.0050.00235.9620.0000.0000.0000.0000.0000.000
124A125HOH0-0.044-0.03334.1500.0000.0000.0000.0000.0000.000
125A126HOH00.001-0.01937.3840.0000.0000.0000.0000.0000.000
126A127HOH0-0.002-0.00322.280-0.002-0.0020.0000.0000.0000.000
127A128HOH0-0.011-0.01839.849-0.001-0.0010.0000.0000.0000.000
128A129HOH0-0.032-0.02326.8250.0020.0020.0000.0000.0000.000
129A130HOH0-0.022-0.02227.6450.0010.0010.0000.0000.0000.000
130A132HOH00.016-0.00330.415-0.001-0.0010.0000.0000.0000.000
131A133HOH0-0.060-0.03341.4090.0000.0000.0000.0000.0000.000
132A134HOH0-0.006-0.00930.5270.0010.0010.0000.0000.0000.000
133A137HOH0-0.014-0.01936.5220.0010.0010.0000.0000.0000.000
134A138HOH0-0.009-0.00522.3690.0030.0030.0000.0000.0000.000
135A139HOH00.004-0.00141.4810.0000.0000.0000.0000.0000.000
136A140HOH0-0.027-0.03741.0820.0000.0000.0000.0000.0000.000
137A141HOH00.0120.00440.4680.0010.0010.0000.0000.0000.000
138A142HOH00.0360.02024.5330.0010.0010.0000.0000.0000.000
139A145HOH0-0.035-0.02045.6080.0000.0000.0000.0000.0000.000
140A147HOH0-0.012-0.01739.4140.0000.0000.0000.0000.0000.000
141A149HOH0-0.017-0.01334.650-0.001-0.0010.0000.0000.0000.000
142A150HOH00.0630.04733.2280.0000.0000.0000.0000.0000.000
143A153HOH00.004-0.00310.099-0.036-0.0360.0000.0000.0000.000
144A154HOH0-0.015-0.02218.817-0.007-0.0070.0000.0000.0000.000
145A155HOH0-0.012-0.02033.8300.0010.0010.0000.0000.0000.000
146A157HOH0-0.054-0.03640.7230.0000.0000.0000.0000.0000.000
147A158HOH00.0330.02126.1190.0010.0010.0000.0000.0000.000
148A160HOH0-0.031-0.02624.2730.0020.0020.0000.0000.0000.000
149A161HOH00.0140.01229.8160.0000.0000.0000.0000.0000.000
150A162HOH0-0.021-0.01737.1570.0000.0000.0000.0000.0000.000
151A163HOH0-0.040-0.02336.8870.0010.0010.0000.0000.0000.000
152A164HOH00.0120.01416.637-0.005-0.0050.0000.0000.0000.000
153A166HOH0-0.003-0.00723.885-0.002-0.0020.0000.0000.0000.000
154A168HOH0-0.007-0.02120.9100.0040.0040.0000.0000.0000.000
155A169HOH0-0.004-0.00833.1700.0010.0010.0000.0000.0000.000
156A170HOH0-0.013-0.00822.0130.0020.0020.0000.0000.0000.000
157A174HOH0-0.038-0.03336.029-0.001-0.0010.0000.0000.0000.000
158A175HOH0-0.032-0.02231.202-0.001-0.0010.0000.0000.0000.000
159A176HOH00.0250.01847.1480.0000.0000.0000.0000.0000.000
160A178HOH00.0350.02839.3970.0000.0000.0000.0000.0000.000
161A180HOH00.0600.03723.2560.0040.0040.0000.0000.0000.000
162A182HOH0-0.039-0.02913.491-0.014-0.0140.0000.0000.0000.000
163A184HOH0-0.022-0.02615.212-0.010-0.0100.0000.0000.0000.000
164A186HOH0-0.025-0.02332.590-0.001-0.0010.0000.0000.0000.000
165A187HOH0-0.010-0.00228.625-0.002-0.0020.0000.0000.0000.000
166A188HOH0-0.018-0.01130.417-0.001-0.0010.0000.0000.0000.000
167A189HOH0-0.017-0.01440.8270.0000.0000.0000.0000.0000.000
168A193HOH0-0.023-0.00220.640-0.004-0.0040.0000.0000.0000.000
169A198HOH00.0280.02339.4460.0010.0010.0000.0000.0000.000
170A200HOH0-0.042-0.02333.1060.0020.0020.0000.0000.0000.000
171A206HOH0-0.0050.00539.7610.0010.0010.0000.0000.0000.000
172A207HOH0-0.050-0.03213.3340.0140.0140.0000.0000.0000.000
173A211HOH0-0.031-0.01842.8610.0000.0000.0000.0000.0000.000
174A214HOH0-0.045-0.03938.6650.0000.0000.0000.0000.0000.000
175A217HOH0-0.011-0.00739.9070.0010.0010.0000.0000.0000.000
176A218HOH0-0.057-0.04520.495-0.003-0.0030.0000.0000.0000.000