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: P3JZL

Calculation Name: 1IJY-A-Xray17

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1IJY

Chain ID: A

ChEMBL ID:

UniProt ID: Q61091

Base Structure: X-ray

Registration Date: 2018-06-01

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 226
LigandCharge
Software MIZUHO/ABINIT-MP 3.0
Total energy (hartree)
FMO2-HF: Electronic energy -1391919.55209
FMO2-HF: Nuclear repulsion 1330656.972589
FMO2-HF: Total energy -61262.579501
FMO2-MP2: Total energy -61427.299854


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:4:ACE)


Summations of interaction energy for fragment #1(A:4: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.
1.7412.607-0.011-0.398-0.457-0.001
Interaction energy analysis for fragmet #1(A:4:ACE)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.031 / q_NPA : -0.028
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].
3A6LEU0-0.0130.0123.8461.0141.880-0.011-0.398-0.457-0.001
4A7ALA00.0150.0135.5710.4060.4060.0000.0000.0000.000
5A69CYS0-0.0350.0146.739-0.224-0.2240.0000.0000.0000.000
6A9GLN00.0430.05610.1210.1100.1100.0000.0000.0000.000
7A10GLU-1-0.871-0.93413.1560.0570.0570.0000.0000.0000.000
8A11ILE0-0.0390.00016.796-0.007-0.0070.0000.0000.0000.000
9A12THR0-0.027-0.03318.9930.0060.0060.0000.0000.0000.000
10A13VAL00.0570.03120.7160.0020.0020.0000.0000.0000.000
11A14PRO0-0.029-0.01523.202-0.001-0.0010.0000.0000.0000.000
12A15LEU00.0020.01026.6920.0020.0020.0000.0000.0000.000
13A62CYS0-0.028-0.01722.505-0.012-0.0120.0000.0000.0000.000
14A17LYS10.9220.97923.357-0.011-0.0110.0000.0000.0000.000
15A18GLY0-0.0070.00223.938-0.001-0.0010.0000.0000.0000.000
16A19ILE0-0.062-0.02921.465-0.001-0.0010.0000.0000.0000.000
17A20GLY0-0.002-0.00223.844-0.007-0.0070.0000.0000.0000.000
18A21TYR0-0.049-0.01717.7290.0000.0000.0000.0000.0000.000
19A22GLU-1-0.782-0.87418.7910.0040.0040.0000.0000.0000.000
20A23TYR0-0.0180.00613.4750.0170.0170.0000.0000.0000.000
21A24THR0-0.001-0.02514.349-0.033-0.0330.0000.0000.0000.000
22A25TYR0-0.050-0.0459.7430.0280.0280.0000.0000.0000.000
23A26MET0-0.097-0.00410.7570.0040.0040.0000.0000.0000.000
24A27PRO00.1100.04610.076-0.054-0.0540.0000.0000.0000.000
25A28ASN0-0.010-0.01412.827-0.079-0.0790.0000.0000.0000.000
26A29GLN00.0140.01515.454-0.019-0.0190.0000.0000.0000.000
27A30PHE0-0.092-0.05517.6230.0090.0090.0000.0000.0000.000
28A31ASN0-0.046-0.00116.551-0.009-0.0090.0000.0000.0000.000
29A32HIS0-0.0150.00817.6070.0100.0100.0000.0000.0000.000
30A33ASP-1-0.710-0.85014.660-0.228-0.2280.0000.0000.0000.000
31A34THR0-0.059-0.00614.7430.0200.0200.0000.0000.0000.000
32A35GLN00.0730.00516.234-0.021-0.0210.0000.0000.0000.000
33A36ASP-1-0.879-0.93318.833-0.012-0.0120.0000.0000.0000.000
34A37GLU-1-0.860-0.91419.619-0.115-0.1150.0000.0000.0000.000
35A38ALA00.0460.01919.501-0.002-0.0020.0000.0000.0000.000
36A39GLY0-0.024-0.02721.5740.0020.0020.0000.0000.0000.000
37A40LEU0-0.031-0.01224.2030.0040.0040.0000.0000.0000.000
38A41GLU-1-0.791-0.87724.774-0.101-0.1010.0000.0000.0000.000
39A42VAL00.0090.00824.1970.0040.0040.0000.0000.0000.000
40A43HIS00.0670.00526.7120.0050.0050.0000.0000.0000.000
41A44GLN0-0.0080.03029.1840.0050.0050.0000.0000.0000.000
42A45PHE0-0.023-0.02129.0880.0010.0010.0000.0000.0000.000
43A46TRP0-0.036-0.01729.4970.0000.0000.0000.0000.0000.000
44A47PRO0-0.001-0.00732.8370.0020.0020.0000.0000.0000.000
45A48LEU00.0430.01234.5850.0010.0010.0000.0000.0000.000
46A49VAL0-0.030-0.00330.7870.0000.0000.0000.0000.0000.000
47A50GLU-1-0.846-0.91734.156-0.018-0.0180.0000.0000.0000.000
48A51ILE0-0.041-0.01636.9780.0020.0020.0000.0000.0000.000
49A52GLN0-0.060-0.00637.0050.0000.0000.0000.0000.0000.000
50A91CYS00.0000.01735.6510.0040.0040.0000.0000.0000.000
51A54SER00.019-0.02134.519-0.002-0.0020.0000.0000.0000.000
52A55PRO00.0430.02834.538-0.001-0.0010.0000.0000.0000.000
53A56ASP-1-0.689-0.83430.200-0.053-0.0530.0000.0000.0000.000
54A57LEU0-0.038-0.01129.544-0.006-0.0060.0000.0000.0000.000
55A58LYS10.9270.94527.4530.0230.0230.0000.0000.0000.000
56A59PHE00.0440.01122.775-0.006-0.0060.0000.0000.0000.000
57A60PHE00.0310.00524.541-0.009-0.0090.0000.0000.0000.000
58A61LEU00.000-0.00224.563-0.012-0.0120.0000.0000.0000.000
59A63SER0-0.0210.00220.320-0.013-0.0130.0000.0000.0000.000
60A64MET0-0.0010.00819.571-0.025-0.0250.0000.0000.0000.000
61A65TYR0-0.036-0.04819.434-0.022-0.0220.0000.0000.0000.000
62A66THR0-0.0120.00017.7270.0000.0000.0000.0000.0000.000
63A67PRO0-0.0320.02214.7170.0210.0210.0000.0000.0000.000
64A68ILE00.0490.03515.2140.0050.0050.0000.0000.0000.000
65A70LEU0-0.055-0.02611.2980.0610.0610.0000.0000.0000.000
66A71GLU-1-0.825-0.9348.6250.3520.3520.0000.0000.0000.000
67A72ASP-1-0.927-0.9569.083-0.019-0.0190.0000.0000.0000.000
68A73TYR00.014-0.01210.995-0.056-0.0560.0000.0000.0000.000
69A74LYS10.8550.9545.0890.1860.1860.0000.0000.0000.000
70A75LYS10.8870.9368.2420.1130.1130.0000.0000.0000.000
71A76PRO00.0330.03610.9280.1050.1050.0000.0000.0000.000
72A77LEU00.0100.01113.4940.0230.0230.0000.0000.0000.000
73A78PRO00.0170.03016.5620.0250.0250.0000.0000.0000.000
74A79PRO00.0090.01819.4230.0120.0120.0000.0000.0000.000
75A121CYS00.0070.00319.497-0.030-0.0300.0000.0000.0000.000
76A81ARG10.8610.93425.2370.1040.1040.0000.0000.0000.000
77A82SER0-0.044-0.05828.0260.0030.0030.0000.0000.0000.000
78A83VAL00.0220.02526.3100.0070.0070.0000.0000.0000.000
79A108CYS00.0100.02227.875-0.002-0.0020.0000.0000.0000.000
80A85GLU-1-0.803-0.90429.659-0.073-0.0730.0000.0000.0000.000
81A86ARG10.8650.93229.9720.0690.0690.0000.0000.0000.000
82A87ALA00.0230.02031.1740.0050.0050.0000.0000.0000.000
83A88LYS10.9160.96033.1680.0760.0760.0000.0000.0000.000
84A89ALA0-0.012-0.00534.8070.0040.0040.0000.0000.0000.000
85A90GLY00.0040.01736.8440.0040.0040.0000.0000.0000.000
86A92ALA00.0010.01336.9570.0010.0010.0000.0000.0000.000
87A93PRO0-0.025-0.01638.3490.0010.0010.0000.0000.0000.000
88A94LEU00.0530.03940.4560.0010.0010.0000.0000.0000.000
89A95MET0-0.015-0.00834.7660.0000.0000.0000.0000.0000.000
90A96ARG10.9130.96240.0430.0480.0480.0000.0000.0000.000
91A97GLN0-0.063-0.01942.2710.0020.0020.0000.0000.0000.000
92A98TYR00.0010.02142.5460.0020.0020.0000.0000.0000.000
93A99GLY00.0050.01143.0540.0000.0000.0000.0000.0000.000
94A100PHE0-0.028-0.00537.000-0.002-0.0020.0000.0000.0000.000
95A101ALA00.0860.04537.2750.0000.0000.0000.0000.0000.000
96A102TRP0-0.019-0.00831.1140.0020.0020.0000.0000.0000.000
97A103PRO00.0940.04130.243-0.002-0.0020.0000.0000.0000.000
98A104ASP-1-0.748-0.86130.739-0.088-0.0880.0000.0000.0000.000
99A105ARG10.8360.92824.4060.1120.1120.0000.0000.0000.000
100A106MET00.0040.04526.183-0.009-0.0090.0000.0000.0000.000
101A107ARG10.8250.92728.4230.0910.0910.0000.0000.0000.000
102A109ASP-1-0.761-0.79528.661-0.111-0.1110.0000.0000.0000.000
103A110ARG10.9060.95225.1690.1300.1300.0000.0000.0000.000
104A111LEU0-0.0270.01623.034-0.019-0.0190.0000.0000.0000.000
105A112PRO00.0550.05121.4710.0120.0120.0000.0000.0000.000
106A113GLU-1-0.729-0.84524.703-0.087-0.0870.0000.0000.0000.000
107A114GLN00.0650.03025.908-0.011-0.0110.0000.0000.0000.000
108A115GLY0-0.010-0.00126.8150.0020.0020.0000.0000.0000.000
109A116ASN00.0000.01024.4890.0070.0070.0000.0000.0000.000
110A117PRO0-0.002-0.00623.307-0.013-0.0130.0000.0000.0000.000
111A118ASP-1-0.830-0.88320.742-0.163-0.1630.0000.0000.0000.000
112A119THR0-0.084-0.03019.680-0.032-0.0320.0000.0000.0000.000
113A120LEU0-0.0010.02117.9540.0210.0210.0000.0000.0000.000
114A122MET0-0.0050.01318.9730.0230.0230.0000.0000.0000.000
115A123ASP-1-0.784-0.90522.653-0.078-0.0780.0000.0000.0000.000
116A124TYR0-0.0050.01425.7010.0090.0090.0000.0000.0000.000
117A125GLU-1-0.868-0.93027.436-0.051-0.0510.0000.0000.0000.000
118A126ARG10.8300.92830.9080.0350.0350.0000.0000.0000.000
119A127NME0-0.0030.00832.4420.0040.0040.0000.0000.0000.000
120A129HOH0-0.023-0.01517.9160.0010.0010.0000.0000.0000.000
121A130HOH00.0510.05123.2880.0030.0030.0000.0000.0000.000
122A131HOH00.0250.01034.9970.0010.0010.0000.0000.0000.000
123A132HOH0-0.002-0.00414.567-0.020-0.0200.0000.0000.0000.000
124A133HOH00.0240.01123.5540.0050.0050.0000.0000.0000.000
125A134HOH00.0280.00829.184-0.003-0.0030.0000.0000.0000.000
126A135HOH00.019-0.00413.2450.0070.0070.0000.0000.0000.000
127A136HOH0-0.0220.00238.711-0.002-0.0020.0000.0000.0000.000
128A137HOH00.003-0.00534.7450.0000.0000.0000.0000.0000.000
129A138HOH00.0100.01129.729-0.001-0.0010.0000.0000.0000.000
130A140HOH0-0.024-0.02415.313-0.002-0.0020.0000.0000.0000.000
131A141HOH0-0.065-0.04735.6850.0020.0020.0000.0000.0000.000
132A142HOH0-0.019-0.01717.414-0.012-0.0120.0000.0000.0000.000
133A143HOH0-0.0020.00336.2690.0000.0000.0000.0000.0000.000
134A144HOH00.013-0.00517.028-0.003-0.0030.0000.0000.0000.000
135A145HOH0-0.024-0.02427.8910.0050.0050.0000.0000.0000.000
136A147HOH0-0.055-0.0407.6220.0810.0810.0000.0000.0000.000
137A148HOH00.002-0.0219.079-0.004-0.0040.0000.0000.0000.000
138A149HOH0-0.013-0.03117.9340.0090.0090.0000.0000.0000.000
139A150HOH0-0.009-0.00729.4190.0000.0000.0000.0000.0000.000
140A151HOH0-0.002-0.00634.5530.0000.0000.0000.0000.0000.000
141A152HOH00.0130.00719.225-0.004-0.0040.0000.0000.0000.000
142A153HOH0-0.028-0.02316.7710.0000.0000.0000.0000.0000.000
143A154HOH0-0.024-0.01832.140-0.001-0.0010.0000.0000.0000.000
144A155HOH0-0.050-0.03221.616-0.002-0.0020.0000.0000.0000.000
145A156HOH00.0030.0147.0100.0740.0740.0000.0000.0000.000
146A158HOH0-0.0130.01616.117-0.002-0.0020.0000.0000.0000.000
147A159HOH0-0.004-0.01640.9000.0000.0000.0000.0000.0000.000
148A160HOH0-0.055-0.04034.4910.0020.0020.0000.0000.0000.000
149A161HOH00.0610.04418.143-0.006-0.0060.0000.0000.0000.000
150A162HOH0-0.030-0.01824.4410.0040.0040.0000.0000.0000.000
151A163HOH0-0.015-0.02123.8350.0000.0000.0000.0000.0000.000
152A164HOH0-0.042-0.02333.2340.0010.0010.0000.0000.0000.000
153A165HOH0-0.047-0.03041.0850.0010.0010.0000.0000.0000.000
154A166HOH0-0.043-0.04828.963-0.001-0.0010.0000.0000.0000.000
155A167HOH0-0.015-0.02927.4590.0020.0020.0000.0000.0000.000
156A168HOH0-0.078-0.06231.6210.0010.0010.0000.0000.0000.000
157A169HOH0-0.024-0.02448.6220.0010.0010.0000.0000.0000.000
158A170HOH0-0.011-0.01225.960-0.004-0.0040.0000.0000.0000.000
159A171HOH0-0.026-0.02026.861-0.001-0.0010.0000.0000.0000.000
160A172HOH0-0.043-0.02734.4390.0020.0020.0000.0000.0000.000
161A173HOH0-0.033-0.02340.4790.0000.0000.0000.0000.0000.000
162A174HOH0-0.007-0.01423.056-0.002-0.0020.0000.0000.0000.000
163A175HOH00.0020.00318.547-0.011-0.0110.0000.0000.0000.000
164A176HOH0-0.018-0.02429.0390.0010.0010.0000.0000.0000.000
165A177HOH0-0.009-0.01725.791-0.005-0.0050.0000.0000.0000.000
166A178HOH00.007-0.01510.0990.0000.0000.0000.0000.0000.000
167A179HOH0-0.050-0.02926.9770.0010.0010.0000.0000.0000.000
168A180HOH0-0.034-0.03624.9930.0040.0040.0000.0000.0000.000
169A181HOH0-0.023-0.01935.061-0.001-0.0010.0000.0000.0000.000
170A182HOH0-0.006-0.01023.562-0.003-0.0030.0000.0000.0000.000
171A183HOH0-0.024-0.03035.7020.0000.0000.0000.0000.0000.000
172A184HOH0-0.013-0.00612.4460.0060.0060.0000.0000.0000.000
173A185HOH0-0.029-0.01632.8410.0010.0010.0000.0000.0000.000
174A186HOH0-0.060-0.04725.1530.0020.0020.0000.0000.0000.000
175A187HOH0-0.051-0.0339.2380.0310.0310.0000.0000.0000.000
176A188HOH00.0300.02531.032-0.001-0.0010.0000.0000.0000.000
177A189HOH0-0.030-0.0199.971-0.032-0.0320.0000.0000.0000.000
178A190HOH0-0.032-0.03328.2910.0020.0020.0000.0000.0000.000
179A191HOH0-0.011-0.01921.4430.0050.0050.0000.0000.0000.000
180A192HOH0-0.021-0.03018.718-0.002-0.0020.0000.0000.0000.000
181A193HOH0-0.016-0.01919.099-0.013-0.0130.0000.0000.0000.000
182A194HOH00.0480.03033.411-0.001-0.0010.0000.0000.0000.000
183A195HOH0-0.056-0.03519.3750.0020.0020.0000.0000.0000.000
184A196HOH0-0.014-0.01115.182-0.014-0.0140.0000.0000.0000.000
185A197HOH0-0.048-0.03831.920-0.001-0.0010.0000.0000.0000.000
186A198HOH0-0.028-0.02044.6810.0010.0010.0000.0000.0000.000
187A199HOH0-0.057-0.05017.591-0.005-0.0050.0000.0000.0000.000
188A200HOH0-0.0070.00334.5030.0000.0000.0000.0000.0000.000
189A201HOH0-0.058-0.03338.2290.0000.0000.0000.0000.0000.000
190A202HOH00.0230.00527.681-0.004-0.0040.0000.0000.0000.000
191A205HOH0-0.012-0.02519.9930.0030.0030.0000.0000.0000.000
192A207HOH0-0.049-0.05215.355-0.021-0.0210.0000.0000.0000.000
193A208HOH00.0300.02615.6640.0210.0210.0000.0000.0000.000
194A209HOH00.0460.03637.4420.0010.0010.0000.0000.0000.000
195A210HOH0-0.049-0.02834.2360.0010.0010.0000.0000.0000.000
196A211HOH00.0090.00237.026-0.001-0.0010.0000.0000.0000.000
197A212HOH00.0360.02114.427-0.008-0.0080.0000.0000.0000.000
198A215HOH0-0.021-0.02734.8610.0010.0010.0000.0000.0000.000
199A216HOH0-0.0010.00834.341-0.001-0.0010.0000.0000.0000.000
200A217HOH00.0150.00728.163-0.004-0.0040.0000.0000.0000.000
201A218HOH00.0170.00628.2320.0000.0000.0000.0000.0000.000
202A219HOH00.0390.01914.736-0.011-0.0110.0000.0000.0000.000
203A223HOH0-0.014-0.0125.9970.2170.2170.0000.0000.0000.000
204A228HOH0-0.004-0.01221.5430.0030.0030.0000.0000.0000.000
205A230HOH0-0.028-0.01520.877-0.002-0.0020.0000.0000.0000.000
206A232HOH0-0.0010.00224.5940.0020.0020.0000.0000.0000.000
207A234HOH0-0.026-0.03420.339-0.003-0.0030.0000.0000.0000.000
208A236HOH0-0.033-0.0297.030-0.039-0.0390.0000.0000.0000.000
209A237HOH0-0.017-0.01739.4510.0010.0010.0000.0000.0000.000
210A239HOH00.0340.02529.083-0.001-0.0010.0000.0000.0000.000
211A242HOH00.0440.02514.2060.0090.0090.0000.0000.0000.000
212A243HOH0-0.032-0.02633.680-0.002-0.0020.0000.0000.0000.000
213A248HOH0-0.048-0.03230.0170.0010.0010.0000.0000.0000.000
214A249HOH0-0.022-0.06036.4460.0010.0010.0000.0000.0000.000
215A252HOH0-0.021-0.01421.065-0.001-0.0010.0000.0000.0000.000
216A254HOH0-0.048-0.03623.7450.0050.0050.0000.0000.0000.000
217A255HOH0-0.023-0.02825.1450.0030.0030.0000.0000.0000.000
218A256HOH0-0.035-0.05531.0740.0000.0000.0000.0000.0000.000
219A258HOH0-0.016-0.01333.4460.0010.0010.0000.0000.0000.000
220A263HOH0-0.028-0.01622.288-0.009-0.0090.0000.0000.0000.000
221A267HOH0-0.0040.00739.9100.0000.0000.0000.0000.0000.000
222A273HOH0-0.063-0.04518.0320.0090.0090.0000.0000.0000.000
223A280HOH0-0.053-0.03220.5840.0010.0010.0000.0000.0000.000
224A281HOH0-0.004-0.00834.4250.0010.0010.0000.0000.0000.000
225A284HOH0-0.038-0.02735.232-0.001-0.0010.0000.0000.0000.000
226B203HOH00.0110.00327.360-0.001-0.0010.0000.0000.0000.000