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

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FMODB ID: PKGQ3

Calculation Name: 1SJY-A-Xray18

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1SJY

Chain ID: A

ChEMBL ID:

UniProt ID: Q9RVK2

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 232
LigandCharge
Software MIZUHO/ABINIT-MP 3.0
Total energy (hartree)
FMO2-HF: Electronic energy -1679592.153946
FMO2-HF: Nuclear repulsion 1613679.426804
FMO2-HF: Total energy -65912.727141
FMO2-MP2: Total energy -66106.502519


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:1:ACE)


Summations of interaction energy for fragment #1(A:1: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.
1.2742.609-0.006-0.611-0.717-0.001
Interaction energy analysis for fragmet #1(A:1:ACE)
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 : -0.029
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].
3A3HIS0-0.094-0.0503.5681.1732.508-0.006-0.611-0.717-0.001
4A4ASP-1-0.910-0.9185.582-0.601-0.6010.0000.0000.0000.000
5A5GLU-1-0.940-0.9797.477-0.424-0.4240.0000.0000.0000.000
6A6ARG10.7550.8517.0341.5151.5150.0000.0000.0000.000
7A7THR0-0.002-0.00312.9920.0220.0220.0000.0000.0000.000
8A8HIS00.003-0.01115.805-0.067-0.0670.0000.0000.0000.000
9A9VAL00.0050.00317.6830.0340.0340.0000.0000.0000.000
10A10PRO0-0.029-0.01520.031-0.006-0.0060.0000.0000.0000.000
11A11VAL00.0310.02221.4000.0050.0050.0000.0000.0000.000
12A12GLU-1-0.780-0.88924.000-0.145-0.1450.0000.0000.0000.000
13A13LEU00.0060.01027.5430.0080.0080.0000.0000.0000.000
14A14ARG10.8810.92420.6310.1820.1820.0000.0000.0000.000
15A15ALA00.0200.02627.4430.0100.0100.0000.0000.0000.000
16A16ALA00.0180.00927.704-0.012-0.0120.0000.0000.0000.000
17A17GLY00.0570.01429.1990.0080.0080.0000.0000.0000.000
18A18VAL0-0.049-0.01329.786-0.005-0.0050.0000.0000.0000.000
19A19VAL00.0270.01330.6920.0020.0020.0000.0000.0000.000
20A20LEU0-0.044-0.02232.6590.0010.0010.0000.0000.0000.000
21A21LEU00.009-0.00434.0670.0010.0010.0000.0000.0000.000
22A22ASN0-0.004-0.00237.0270.0010.0010.0000.0000.0000.000
23A23GLU-1-0.860-0.95939.352-0.029-0.0290.0000.0000.0000.000
24A24ARG10.8280.91941.3350.0300.0300.0000.0000.0000.000
25A25GLY00.0390.03938.1940.0000.0000.0000.0000.0000.000
26A26ASP-1-0.751-0.83938.784-0.036-0.0360.0000.0000.0000.000
27A27ILE00.003-0.00435.028-0.001-0.0010.0000.0000.0000.000
28A28LEU0-0.0210.01338.1560.0020.0020.0000.0000.0000.000
29A29LEU0-0.024-0.01537.364-0.005-0.0050.0000.0000.0000.000
30A30VAL00.0510.01439.4500.0030.0030.0000.0000.0000.000
31A31GLN0-0.031-0.01741.093-0.002-0.0020.0000.0000.0000.000
32A32GLU-1-0.738-0.84540.485-0.060-0.0600.0000.0000.0000.000
33A33LYS10.8640.94044.1810.0430.0430.0000.0000.0000.000
34A34GLY00.0150.01647.6950.0000.0000.0000.0000.0000.000
35A35ILE00.0050.00144.933-0.003-0.0030.0000.0000.0000.000
36A36PRO0-0.012-0.02244.1670.0020.0020.0000.0000.0000.000
37A37GLY0-0.0050.02147.5020.0000.0000.0000.0000.0000.000
38A38HIS00.0120.00750.786-0.001-0.0010.0000.0000.0000.000
39A39PRO0-0.041-0.04553.4380.0000.0000.0000.0000.0000.000
40A40GLU-1-0.898-0.95853.957-0.036-0.0360.0000.0000.0000.000
41A41LYS10.8910.97549.3380.0410.0410.0000.0000.0000.000
42A42ALA00.0150.01648.9310.0000.0000.0000.0000.0000.000
43A43GLY00.0310.02346.157-0.001-0.0010.0000.0000.0000.000
44A44LEU0-0.037-0.00140.7450.0010.0010.0000.0000.0000.000
45A45TRP00.0420.02640.865-0.001-0.0010.0000.0000.0000.000
46A46HIS10.8020.87736.0760.0620.0620.0000.0000.0000.000
47A47ILE0-0.0030.01331.1420.0030.0030.0000.0000.0000.000
48A48PRO00.0320.03135.523-0.002-0.0020.0000.0000.0000.000
49A49SER0-0.101-0.06031.991-0.007-0.0070.0000.0000.0000.000
50A50GLY00.0580.02833.1070.0040.0040.0000.0000.0000.000
51A51ALA0-0.046-0.02132.182-0.008-0.0080.0000.0000.0000.000
52A52VAL0-0.043-0.00727.2090.0030.0030.0000.0000.0000.000
53A53GLU-1-0.862-0.96230.435-0.083-0.0830.0000.0000.0000.000
54A54ASP-1-0.862-0.92928.193-0.124-0.1240.0000.0000.0000.000
55A55GLY0-0.011-0.00726.6370.0070.0070.0000.0000.0000.000
56A56GLU-1-0.841-0.88727.305-0.081-0.0810.0000.0000.0000.000
57A57ASN00.011-0.00824.308-0.010-0.0100.0000.0000.0000.000
58A58PRO00.0390.00323.5990.0060.0060.0000.0000.0000.000
59A59GLN0-0.022-0.01325.252-0.003-0.0030.0000.0000.0000.000
60A60ASP-1-0.879-0.94327.242-0.068-0.0680.0000.0000.0000.000
61A61ALA00.046-0.01829.6560.0070.0070.0000.0000.0000.000
62A62ALA0-0.0220.00329.2800.0040.0040.0000.0000.0000.000
63A63VAL0-0.040-0.01331.3430.0050.0050.0000.0000.0000.000
64A64ARG10.8880.99532.7650.0780.0780.0000.0000.0000.000
65A65GLU-1-0.784-0.88834.012-0.066-0.0660.0000.0000.0000.000
66A66ALA0-0.017-0.00235.2930.0040.0040.0000.0000.0000.000
67A67CYS0-0.065-0.02437.0480.0050.0050.0000.0000.0000.000
68A68GLU-1-0.867-0.91538.951-0.055-0.0550.0000.0000.0000.000
69A69GLU-1-0.791-0.90738.290-0.061-0.0610.0000.0000.0000.000
70A70THR0-0.047-0.05040.0380.0030.0030.0000.0000.0000.000
71A71GLY00.0540.03142.6640.0030.0030.0000.0000.0000.000
72A72LEU0-0.100-0.05240.6910.0030.0030.0000.0000.0000.000
73A73ARG10.9550.98039.4020.0350.0350.0000.0000.0000.000
74A74VAL0-0.007-0.01334.2940.0020.0020.0000.0000.0000.000
75A75ARG10.9330.96133.7250.0360.0360.0000.0000.0000.000
76A76PRO0-0.0030.01328.4480.0000.0000.0000.0000.0000.000
77A77VAL0-0.020-0.00628.8520.0030.0030.0000.0000.0000.000
78A78LYS10.8880.91922.6590.0750.0750.0000.0000.0000.000
79A79PHE0-0.0250.01619.453-0.001-0.0010.0000.0000.0000.000
80A80LEU0-0.024-0.01122.8450.0010.0010.0000.0000.0000.000
81A81GLY00.0380.00121.142-0.009-0.0090.0000.0000.0000.000
82A82ALA00.0010.00020.5500.0120.0120.0000.0000.0000.000
83A83TYR00.0020.00121.430-0.011-0.0110.0000.0000.0000.000
84A84LEU0-0.014-0.01021.1270.0070.0070.0000.0000.0000.000
85A85GLY00.0140.01724.2610.0060.0060.0000.0000.0000.000
86A86ARG10.8820.94024.6500.1540.1540.0000.0000.0000.000
87A87PHE00.0170.02429.2670.0080.0080.0000.0000.0000.000
88A88PRO00.003-0.02232.527-0.004-0.0040.0000.0000.0000.000
89A89ASP-1-0.877-0.93633.838-0.097-0.0970.0000.0000.0000.000
90A90GLY0-0.018-0.00730.664-0.001-0.0010.0000.0000.0000.000
91A91VAL00.0080.02528.993-0.014-0.0140.0000.0000.0000.000
92A92LEU0-0.059-0.02923.137-0.001-0.0010.0000.0000.0000.000
93A93ILE00.0210.00927.1260.0030.0030.0000.0000.0000.000
94A94LEU0-0.019-0.00920.752-0.007-0.0070.0000.0000.0000.000
95A95ARG10.8660.93224.9050.1140.1140.0000.0000.0000.000
96A96HIS00.0060.00222.572-0.027-0.0270.0000.0000.0000.000
97A97VAL00.0110.00525.0350.0140.0140.0000.0000.0000.000
98A98TRP00.0330.01723.801-0.010-0.0100.0000.0000.0000.000
99A99LEU00.0270.02327.5230.0050.0050.0000.0000.0000.000
100A100ALA00.000-0.01429.5680.0000.0000.0000.0000.0000.000
101A101GLU-1-0.873-0.95532.440-0.037-0.0370.0000.0000.0000.000
102A102PRO00.0110.01235.672-0.001-0.0010.0000.0000.0000.000
103A103GLU-1-0.928-0.96938.815-0.033-0.0330.0000.0000.0000.000
104A104PRO00.000-0.01040.4990.0000.0000.0000.0000.0000.000
105A105GLY0-0.013-0.00543.6980.0000.0000.0000.0000.0000.000
106A106GLN00.0110.02641.2520.0000.0000.0000.0000.0000.000
107A107THR0-0.029-0.01346.4490.0010.0010.0000.0000.0000.000
108A108LEU0-0.037-0.00643.924-0.001-0.0010.0000.0000.0000.000
109A109ALA0-0.017-0.01046.2690.0020.0020.0000.0000.0000.000
110A110PRO0-0.003-0.00545.351-0.001-0.0010.0000.0000.0000.000
111A111ALA00.0120.03344.6550.0020.0020.0000.0000.0000.000
112A112PHE0-0.053-0.03246.037-0.002-0.0020.0000.0000.0000.000
113A113THR00.0290.00544.6920.0010.0010.0000.0000.0000.000
114A114ASP-1-0.938-0.96547.500-0.041-0.0410.0000.0000.0000.000
115A115GLU-1-0.888-0.93842.612-0.057-0.0570.0000.0000.0000.000
116A116ILE0-0.064-0.01741.509-0.002-0.0020.0000.0000.0000.000
117A117ALA0-0.041-0.03745.1330.0020.0020.0000.0000.0000.000
118A118GLU-1-0.929-0.97446.253-0.034-0.0340.0000.0000.0000.000
119A119ALA00.0350.01842.691-0.003-0.0030.0000.0000.0000.000
120A120SER0-0.027-0.01743.4560.0020.0020.0000.0000.0000.000
121A121PHE0-0.002-0.00440.099-0.002-0.0020.0000.0000.0000.000
122A122VAL0-0.0010.00841.8810.0020.0020.0000.0000.0000.000
123A123SER0-0.008-0.00841.777-0.002-0.0020.0000.0000.0000.000
124A124ARG10.9210.94538.2640.0340.0340.0000.0000.0000.000
125A125GLU-1-0.848-0.90641.023-0.034-0.0340.0000.0000.0000.000
126A126ASP-1-0.789-0.89243.908-0.034-0.0340.0000.0000.0000.000
127A127PHE0-0.0080.00335.980-0.002-0.0020.0000.0000.0000.000
128A128ALA0-0.009-0.01140.313-0.003-0.0030.0000.0000.0000.000
129A129GLN00.0040.01041.303-0.002-0.0020.0000.0000.0000.000
130A130LEU00.0130.00742.079-0.001-0.0010.0000.0000.0000.000
131A131TYR0-0.038-0.02135.084-0.003-0.0030.0000.0000.0000.000
132A132ALA00.0210.01940.296-0.002-0.0020.0000.0000.0000.000
133A133ALA00.0120.01242.4210.0000.0000.0000.0000.0000.000
134A134GLY0-0.0140.00741.2330.0010.0010.0000.0000.0000.000
135A135GLN00.0100.00442.2740.0000.0000.0000.0000.0000.000
136A136ILE00.0030.01936.327-0.001-0.0010.0000.0000.0000.000
137A137ARG10.8570.91436.5070.0610.0610.0000.0000.0000.000
138A138MET0-0.017-0.00230.898-0.004-0.0040.0000.0000.0000.000
139A139TYR00.0800.02628.3090.0010.0010.0000.0000.0000.000
140A140GLN00.0550.02727.5990.0110.0110.0000.0000.0000.000
141A141THR00.0070.01730.0640.0000.0000.0000.0000.0000.000
142A142LYS10.9330.96632.5970.0610.0610.0000.0000.0000.000
143A143LEU0-0.048-0.01527.0700.0030.0030.0000.0000.0000.000
144A144PHE00.0790.03724.3130.0010.0010.0000.0000.0000.000
145A145TYR0-0.003-0.01329.0510.0040.0040.0000.0000.0000.000
146A146ALA00.0160.00530.3900.0040.0040.0000.0000.0000.000
147A147ASP-1-0.835-0.92126.154-0.096-0.0960.0000.0000.0000.000
148A148ALA00.0080.00028.3260.0040.0040.0000.0000.0000.000
149A149LEU0-0.056-0.02130.4390.0050.0050.0000.0000.0000.000
150A150ARG10.8540.94126.6630.0760.0760.0000.0000.0000.000
151A151GLU-1-0.854-0.91024.963-0.062-0.0620.0000.0000.0000.000
152A152LYS10.8630.93729.2320.0430.0430.0000.0000.0000.000
153A153GLY0-0.0060.01632.4190.0040.0040.0000.0000.0000.000
154A154PHE0-0.042-0.01134.1200.0030.0030.0000.0000.0000.000
155A155PRO0-0.001-0.01035.569-0.001-0.0010.0000.0000.0000.000
156A156ALA00.0230.01434.757-0.002-0.0020.0000.0000.0000.000
157A157LEU0-0.044-0.04635.0480.0020.0020.0000.0000.0000.000
158A158PRO0-0.030-0.02137.7930.0000.0000.0000.0000.0000.000
159A159VAL-1-0.944-0.93837.040-0.040-0.0400.0000.0000.0000.000
160A701HOH0-0.015-0.00535.438-0.002-0.0020.0000.0000.0000.000
161A702HOH0-0.020-0.01138.7130.0010.0010.0000.0000.0000.000
162A703HOH0-0.011-0.01436.4650.0010.0010.0000.0000.0000.000
163A704HOH00.0060.00230.393-0.002-0.0020.0000.0000.0000.000
164A707HOH0-0.042-0.04845.7750.0000.0000.0000.0000.0000.000
165A708HOH0-0.029-0.01933.4660.0020.0020.0000.0000.0000.000
166A709HOH0-0.002-0.01033.181-0.002-0.0020.0000.0000.0000.000
167A710HOH0-0.061-0.04447.0100.0000.0000.0000.0000.0000.000
168A711HOH0-0.027-0.02943.606-0.001-0.0010.0000.0000.0000.000
169A712HOH00.0410.03342.3050.0010.0010.0000.0000.0000.000
170A713HOH0-0.045-0.02344.260-0.001-0.0010.0000.0000.0000.000
171A714HOH0-0.024-0.01746.3400.0010.0010.0000.0000.0000.000
172A715HOH0-0.002-0.00546.0020.0000.0000.0000.0000.0000.000
173A716HOH0-0.005-0.00121.252-0.002-0.0020.0000.0000.0000.000
174A717HOH0-0.025-0.02417.521-0.004-0.0040.0000.0000.0000.000
175A718HOH0-0.036-0.02348.3680.0000.0000.0000.0000.0000.000
176A719HOH0-0.005-0.01235.272-0.002-0.0020.0000.0000.0000.000
177A720HOH00.000-0.01242.017-0.001-0.0010.0000.0000.0000.000
178A721HOH0-0.050-0.02724.482-0.004-0.0040.0000.0000.0000.000
179A722HOH0-0.035-0.02444.9530.0010.0010.0000.0000.0000.000
180A723HOH0-0.030-0.02347.5250.0000.0000.0000.0000.0000.000
181A724HOH0-0.022-0.02344.0120.0000.0000.0000.0000.0000.000
182A725HOH0-0.060-0.05027.764-0.003-0.0030.0000.0000.0000.000
183A726HOH0-0.037-0.02035.1050.0000.0000.0000.0000.0000.000
184A727HOH0-0.024-0.01927.852-0.004-0.0040.0000.0000.0000.000
185A729HOH0-0.054-0.03726.4530.0050.0050.0000.0000.0000.000
186A730HOH00.0280.02222.1730.0000.0000.0000.0000.0000.000
187A731HOH0-0.021-0.01329.034-0.003-0.0030.0000.0000.0000.000
188A732HOH0-0.029-0.00226.064-0.004-0.0040.0000.0000.0000.000
189A734HOH00.0330.01947.023-0.001-0.0010.0000.0000.0000.000
190A735HOH00.0310.02436.641-0.002-0.0020.0000.0000.0000.000
191A736HOH00.0260.01833.5330.0000.0000.0000.0000.0000.000
192A737HOH0-0.033-0.02246.6180.0010.0010.0000.0000.0000.000
193A738HOH00.003-0.00433.519-0.002-0.0020.0000.0000.0000.000
194A739HOH0-0.009-0.01243.4600.0010.0010.0000.0000.0000.000
195A740HOH0-0.015-0.01931.8230.0000.0000.0000.0000.0000.000
196A741HOH0-0.029-0.02044.6730.0000.0000.0000.0000.0000.000
197A742HOH0-0.003-0.00736.8760.0010.0010.0000.0000.0000.000
198A743HOH00.009-0.00229.702-0.001-0.0010.0000.0000.0000.000
199A744HOH00.0160.01427.311-0.002-0.0020.0000.0000.0000.000
200A745HOH00.0430.03034.6620.0010.0010.0000.0000.0000.000
201A746HOH00.0440.02310.244-0.048-0.0480.0000.0000.0000.000
202A747HOH0-0.034-0.01944.4590.0010.0010.0000.0000.0000.000
203A748HOH00.0310.02422.313-0.009-0.0090.0000.0000.0000.000
204A749HOH0-0.022-0.01736.9420.0000.0000.0000.0000.0000.000
205A751HOH0-0.040-0.02610.8480.0070.0070.0000.0000.0000.000
206A752HOH0-0.010-0.01027.0310.0030.0030.0000.0000.0000.000
207A753HOH0-0.016-0.01334.628-0.001-0.0010.0000.0000.0000.000
208A754HOH0-0.032-0.01635.3600.0010.0010.0000.0000.0000.000
209A757HOH0-0.0050.00519.958-0.008-0.0080.0000.0000.0000.000
210A758HOH0-0.033-0.02331.6120.0000.0000.0000.0000.0000.000
211A759HOH00.0210.02511.629-0.051-0.0510.0000.0000.0000.000
212A763HOH0-0.012-0.01228.5640.0000.0000.0000.0000.0000.000
213A769HOH00.0190.01640.918-0.001-0.0010.0000.0000.0000.000
214A773HOH0-0.067-0.04339.5140.0010.0010.0000.0000.0000.000
215A774HOH0-0.039-0.02344.1050.0010.0010.0000.0000.0000.000
216A775HOH0-0.033-0.02128.0210.0030.0030.0000.0000.0000.000
217A777HOH00.0280.01734.565-0.002-0.0020.0000.0000.0000.000
218A779HOH00.0320.02148.180-0.001-0.0010.0000.0000.0000.000
219A780HOH0-0.026-0.01437.161-0.001-0.0010.0000.0000.0000.000
220A782HOH0-0.039-0.02346.8780.0010.0010.0000.0000.0000.000
221A783HOH0-0.036-0.02222.4600.0020.0020.0000.0000.0000.000
222A785HOH0-0.060-0.03630.4180.0030.0030.0000.0000.0000.000
223A787HOH0-0.018-0.01238.017-0.001-0.0010.0000.0000.0000.000
224A788HOH0-0.023-0.01435.204-0.001-0.0010.0000.0000.0000.000
225A790HOH0-0.025-0.02431.2630.0000.0000.0000.0000.0000.000
226A793HOH0-0.002-0.01246.9460.0000.0000.0000.0000.0000.000
227A794HOH0-0.036-0.01833.9410.0010.0010.0000.0000.0000.000
228A795HOH00.0270.01946.916-0.001-0.0010.0000.0000.0000.000
229A796HOH0-0.026-0.01432.0790.0020.0020.0000.0000.0000.000
230A797HOH0-0.014-0.01350.5120.0000.0000.0000.0000.0000.000
231A798HOH0-0.049-0.02644.7680.0010.0010.0000.0000.0000.000
232A801HOH0-0.032-0.01329.1260.0010.0010.0000.0000.0000.000