FMODB

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

Last updated: 2025-10-17

All entries: 77277

Number of unique PDB entries: 32023

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FMODB ID: LGR49

Calculation Name: 4P3F-A-Xray547

Preferred Name:

Target Type:

Ligand Name: di(hydroxyethyl)ether | 1,2-ethanediol

Ligand 3-letter code: PEG | EDO

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 4P3F

Chain ID: A

ChEMBL ID:

UniProt ID: Q9UHB9

Base Structure: X-ray

Registration Date: 2025-10-04

Reference: Sci Data 11, 1164 (2024).

DOI: https://doi.org/10.1038/s41597-024-03999-2

Apendix: None


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptAll
Protonation MOE:Protonate 3D
Complement MOE:Homology Modeling
Water No
Procedure Manual calculation
Remarks
ac.sh, 23 2024 Oct; Missing atoms/residues were imported from a 100% homology model, which was constructed by MOE.
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 197
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2382738.048611
FMO2-HF: Nuclear repulsion 2300470.936238
FMO2-HF: Total energy -82267.112373
FMO2-MP2: Total energy -82506.280381


3D Structure Molmil
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:48:ASP)


Summations of interaction energy for fragment #1(A:48:ASP)
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.
2.13.177-0.008-0.549-0.520.002
Interaction energy analysis for fragmet #1(A:48:ASP)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.055 / q_NPA : -0.037
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].
3A50LEU0-0.056-0.0193.834-4.649-3.572-0.008-0.549-0.5200.002
4A51SER00.0330.0196.4081.9081.9080.0000.0000.0000.000
5A52LEU0-0.056-0.0488.5640.1570.1570.0000.0000.0000.000
6A53GLU-1-0.803-0.88712.321-2.405-2.4050.0000.0000.0000.000
7A54ILE0-0.025-0.01814.7810.2680.2680.0000.0000.0000.000
8A55LEU00.0050.00817.7270.1260.1260.0000.0000.0000.000
9A56GLN00.0630.02117.6370.2080.2080.0000.0000.0000.000
10A57ILE0-0.009-0.00615.0310.1210.1210.0000.0000.0000.000
11A58ILE0-0.050-0.01619.5670.1310.1310.0000.0000.0000.000
12A59LYS10.9250.97822.8250.9800.9800.0000.0000.0000.000
13A60GLU-1-0.868-0.92519.703-1.637-1.6370.0000.0000.0000.000
14A61SER0-0.070-0.05522.2920.0720.0720.0000.0000.0000.000
15A62GLN0-0.066-0.06224.9880.1290.1290.0000.0000.0000.000
16A63GLN0-0.030-0.01726.9860.1250.1250.0000.0000.0000.000
17A64GLN0-0.0040.01725.4150.0740.0740.0000.0000.0000.000
18A65HIS0-0.037-0.03726.1130.1060.1060.0000.0000.0000.000
19A66GLY00.0470.01529.9870.0150.0150.0000.0000.0000.000
20A67LEU0-0.043-0.00130.0130.0350.0350.0000.0000.0000.000
21A68ARG10.9620.97830.8780.7350.7350.0000.0000.0000.000
22A69HIS00.0190.00233.5040.0040.0040.0000.0000.0000.000
23A70GLY00.0690.04336.4150.0240.0240.0000.0000.0000.000
24A71ASP-1-0.854-0.92035.663-0.595-0.5950.0000.0000.0000.000
25A72PHE00.0500.00633.797-0.053-0.0530.0000.0000.0000.000
26A73GLN00.0070.00433.334-0.043-0.0430.0000.0000.0000.000
27A74ARG10.8820.95832.0500.6710.6710.0000.0000.0000.000
28A75TYR0-0.012-0.02925.721-0.064-0.0640.0000.0000.0000.000
29A76ARG10.8600.92528.8850.5630.5630.0000.0000.0000.000
30A77GLY00.0060.01829.676-0.036-0.0360.0000.0000.0000.000
31A78TYR0-0.041-0.03022.566-0.036-0.0360.0000.0000.0000.000
32A79CYS00.0150.01224.794-0.091-0.0910.0000.0000.0000.000
33A80SER0-0.025-0.02624.794-0.073-0.0730.0000.0000.0000.000
34A81ARG10.8840.94126.6160.8480.8480.0000.0000.0000.000
35A82ARG10.9520.98717.6491.9061.9060.0000.0000.0000.000
36A83GLN00.005-0.01821.6760.0050.0050.0000.0000.0000.000
37A84ARG10.9080.96022.5220.8350.8350.0000.0000.0000.000
38A85ARG10.9590.98221.3421.3831.3830.0000.0000.0000.000
39A86LEU00.0290.03216.349-0.024-0.0240.0000.0000.0000.000
40A87ARG11.0101.00318.6101.0261.0260.0000.0000.0000.000
41A88LYS10.9520.98121.1720.9550.9550.0000.0000.0000.000
42A89THR00.003-0.00515.7470.0410.0410.0000.0000.0000.000
43A90LEU0-0.013-0.00314.537-0.038-0.0380.0000.0000.0000.000
44A91ASN00.000-0.00717.560-0.002-0.0020.0000.0000.0000.000
45A92PHE00.0150.02118.3650.0850.0850.0000.0000.0000.000
46A93LYS10.9330.98411.8833.0653.0650.0000.0000.0000.000
47A94MET0-0.020-0.01016.4630.0460.0460.0000.0000.0000.000
48A95GLY00.0200.01918.5730.1300.1300.0000.0000.0000.000
49A96ASN0-0.021-0.02619.2700.2230.2230.0000.0000.0000.000
50A97ARG10.8940.95516.3061.0021.0020.0000.0000.0000.000
51A98HIS00.0200.01417.7090.0110.0110.0000.0000.0000.000
52A99LYS10.8920.95120.2720.6690.6690.0000.0000.0000.000
53A100PHE00.0480.02219.251-0.047-0.0470.0000.0000.0000.000
54A101THR00.004-0.01016.671-0.048-0.0480.0000.0000.0000.000
55A102GLY00.0170.02017.018-0.024-0.0240.0000.0000.0000.000
56A103LYS10.8520.93111.4921.5161.5160.0000.0000.0000.000
57A104LYS10.9840.98513.163-1.299-1.2990.0000.0000.0000.000
58A105VAL00.0010.0149.0510.0410.0410.0000.0000.0000.000
59A106THR00.0010.00512.480-0.141-0.1410.0000.0000.0000.000
60A107GLU-1-0.875-0.94111.381-2.217-2.2170.0000.0000.0000.000
61A108ASP-1-0.770-0.87411.014-2.543-2.5430.0000.0000.0000.000
62A109LEU0-0.032-0.04512.687-0.403-0.4030.0000.0000.0000.000
63A110LEU0-0.0030.0069.800-0.117-0.1170.0000.0000.0000.000
64A111THR00.0090.0097.781-0.628-0.6280.0000.0000.0000.000
65A112ASP-1-0.792-0.8987.016-5.264-5.2640.0000.0000.0000.000
66A113ASN00.0170.0018.7740.7970.7970.0000.0000.0000.000
67A114ARG10.8810.92110.6643.9933.9930.0000.0000.0000.000
68A115TYR00.0330.01013.8190.3980.3980.0000.0000.0000.000
69A116LEU00.0440.02911.3370.2680.2680.0000.0000.0000.000
70A117LEU00.0240.00914.8790.3420.3420.0000.0000.0000.000
71A118LEU0-0.058-0.03116.6590.2830.2830.0000.0000.0000.000
72A119VAL00.0660.04018.8780.1760.1760.0000.0000.0000.000
73A120LEU00.0350.03318.2460.1460.1460.0000.0000.0000.000
74A121MET0-0.060-0.02920.5610.1900.1900.0000.0000.0000.000
75A122ASP-1-0.812-0.88122.995-0.958-0.9580.0000.0000.0000.000
76A123ALA0-0.0180.00523.8180.1150.1150.0000.0000.0000.000
77A124GLU-1-0.716-0.80323.810-1.014-1.0140.0000.0000.0000.000
78A125ARG10.8050.86926.3501.0601.0600.0000.0000.0000.000
79A126ALA0-0.055-0.02528.6590.0760.0760.0000.0000.0000.000
80A127TRP00.1100.03828.7710.0660.0660.0000.0000.0000.000
81A128SER00.0320.00530.3640.0670.0670.0000.0000.0000.000
82A129TYR0-0.063-0.04732.1610.0310.0310.0000.0000.0000.000
83A130ALA00.0080.01133.7160.0410.0410.0000.0000.0000.000
84A131MET0-0.0160.00133.2310.0450.0450.0000.0000.0000.000
85A132GLN00.0350.02835.983-0.008-0.0080.0000.0000.0000.000
86A133LEU0-0.063-0.04538.3300.0300.0300.0000.0000.0000.000
87A134LYS10.8740.93436.1980.5470.5470.0000.0000.0000.000
88A135GLN00.0140.01940.0470.0080.0080.0000.0000.0000.000
89A136GLU-1-0.871-0.90641.766-0.417-0.4170.0000.0000.0000.000
90A137ALA00.0830.04044.3180.0060.0060.0000.0000.0000.000
91A138ASN0-0.075-0.06345.9190.0180.0180.0000.0000.0000.000
92A139THR00.0550.03848.234-0.001-0.0010.0000.0000.0000.000
93A140GLU-1-0.756-0.85747.205-0.324-0.3240.0000.0000.0000.000
94A141PRO0-0.020-0.01047.962-0.011-0.0110.0000.0000.0000.000
95A142ARG10.9690.97447.4950.2920.2920.0000.0000.0000.000
96A143LYS10.8170.90143.1770.3890.3890.0000.0000.0000.000
97A144ARG10.9290.95042.9760.3120.3120.0000.0000.0000.000
98A145PHE00.0430.02541.918-0.022-0.0220.0000.0000.0000.000
99A146HIS00.0120.00440.725-0.024-0.0240.0000.0000.0000.000
100A147LEU00.0080.00737.513-0.036-0.0360.0000.0000.0000.000
101A148LEU00.0480.02937.154-0.041-0.0410.0000.0000.0000.000
102A149SER0-0.040-0.02936.462-0.028-0.0280.0000.0000.0000.000
103A150ARG10.8430.93134.3840.5520.5520.0000.0000.0000.000
104A151LEU00.0370.02232.643-0.055-0.0550.0000.0000.0000.000
105A152ARG11.0071.00931.7010.4890.4890.0000.0000.0000.000
106A153LYS10.8430.90929.4820.7760.7760.0000.0000.0000.000
107A154ALA00.009-0.00128.183-0.056-0.0560.0000.0000.0000.000
108A155VAL00.0520.03126.942-0.078-0.0780.0000.0000.0000.000
109A156LYS10.8050.88226.7550.6130.6130.0000.0000.0000.000
110A157HIS00.0250.02424.2980.0400.0400.0000.0000.0000.000
111A158ALA00.0000.01222.770-0.129-0.1290.0000.0000.0000.000
112A159GLU-1-0.760-0.87122.033-0.815-0.8150.0000.0000.0000.000
113A160GLU-1-0.962-0.98021.278-1.226-1.2260.0000.0000.0000.000
114A161LEU0-0.030-0.01816.334-0.130-0.1300.0000.0000.0000.000
115A162GLU-1-0.810-0.90617.468-1.240-1.2400.0000.0000.0000.000
116A163ARG10.9650.98817.7770.8790.8790.0000.0000.0000.000
117A164LEU0-0.074-0.03415.677-0.077-0.0770.0000.0000.0000.000
118A165CYS0-0.060-0.03113.493-0.474-0.4740.0000.0000.0000.000
119A166GLU-1-0.861-0.92013.475-1.096-1.0960.0000.0000.0000.000
120A167SER00.0110.00911.3690.0750.0750.0000.0000.0000.000
121A168ASN00.0380.0178.876-0.824-0.8240.0000.0000.0000.000
122A169ARG10.8380.8906.5673.1023.1020.0000.0000.0000.000
123A170VAL0-0.037-0.0096.540-2.868-2.8680.0000.0000.0000.000
124A171ASP-1-0.743-0.8486.831-4.311-4.3110.0000.0000.0000.000
125A172ALA00.035-0.0078.3570.5370.5370.0000.0000.0000.000
126A173LYS10.8830.97010.9222.6452.6450.0000.0000.0000.000
127A174THR00.005-0.03210.5210.1830.1830.0000.0000.0000.000
128A175LYS10.7710.88310.9382.4322.4320.0000.0000.0000.000
129A176LEU00.0160.01814.7340.2350.2350.0000.0000.0000.000
130A177GLU-1-0.742-0.87115.243-1.701-1.7010.0000.0000.0000.000
131A178ALA0-0.023-0.01716.9830.1540.1540.0000.0000.0000.000
132A179GLN0-0.020-0.00318.2360.1980.1980.0000.0000.0000.000
133A180ALA00.0190.01320.7040.1370.1370.0000.0000.0000.000
134A181TYR0-0.016-0.02921.2920.0850.0850.0000.0000.0000.000
135A182THR00.006-0.03922.7790.0640.0640.0000.0000.0000.000
136A183ALA0-0.0250.01624.7770.0890.0890.0000.0000.0000.000
137A184TYR00.009-0.02726.1170.0560.0560.0000.0000.0000.000
138A185LEU0-0.033-0.02025.6880.0670.0670.0000.0000.0000.000
139A186SER0-0.046-0.03728.3990.0580.0580.0000.0000.0000.000
140A187GLY00.0310.02330.4860.0490.0490.0000.0000.0000.000
141A188MET0-0.002-0.00831.8080.0540.0540.0000.0000.0000.000
142A189LEU0-0.074-0.03633.0600.0310.0310.0000.0000.0000.000
143A190ARG10.8410.91434.5230.4570.4570.0000.0000.0000.000
144A191PHE0-0.0070.00436.2580.0280.0280.0000.0000.0000.000
145A192GLU-1-0.843-0.92237.370-0.440-0.4400.0000.0000.0000.000
146A193HIS0-0.075-0.02539.2650.0150.0150.0000.0000.0000.000
147A194GLN00.0090.00241.1140.0290.0290.0000.0000.0000.000
148A195GLU-1-0.832-0.89438.945-0.380-0.3800.0000.0000.0000.000
149A196TRP00.0740.00838.959-0.026-0.0260.0000.0000.0000.000
150A197LYS11.0151.00538.7730.2380.2380.0000.0000.0000.000
151A198ALA00.0440.02235.527-0.011-0.0110.0000.0000.0000.000
152A199ALA0-0.017-0.01334.234-0.034-0.0340.0000.0000.0000.000
153A200ILE00.0080.00134.098-0.033-0.0330.0000.0000.0000.000
154A201GLU-1-0.954-0.95731.814-0.388-0.3880.0000.0000.0000.000
155A202ALA0-0.025-0.00629.929-0.028-0.0280.0000.0000.0000.000
156A203PHE00.039-0.01229.197-0.053-0.0530.0000.0000.0000.000
157A204ASN00.0550.02530.012-0.033-0.0330.0000.0000.0000.000
158A205LYS10.9160.98923.2330.7610.7610.0000.0000.0000.000
159A206CYS0-0.092-0.04425.427-0.046-0.0460.0000.0000.0000.000
160A207LYS10.9920.99825.4190.3780.3780.0000.0000.0000.000
161A208THR0-0.004-0.01425.2530.0040.0040.0000.0000.0000.000
162A209ILE0-0.056-0.02420.1960.0060.0060.0000.0000.0000.000
163A210TYR00.001-0.01720.499-0.036-0.0360.0000.0000.0000.000
164A211GLU-1-0.851-0.90323.144-0.509-0.5090.0000.0000.0000.000
165A212LYS10.9130.96317.6060.6470.6470.0000.0000.0000.000
166A213LEU0-0.072-0.03816.533-0.032-0.0320.0000.0000.0000.000
167A214ALA0-0.007-0.00619.670-0.055-0.0550.0000.0000.0000.000
168A215SER0-0.017-0.02922.1860.0230.0230.0000.0000.0000.000
169A216ALA0-0.057-0.01217.2970.0830.0830.0000.0000.0000.000
170A217PHE0-0.054-0.03313.792-0.120-0.1200.0000.0000.0000.000
171A218THR00.0590.03318.3530.0580.0580.0000.0000.0000.000
172A219GLU-1-0.865-0.94020.486-0.464-0.4640.0000.0000.0000.000
173A220GLU-1-0.955-0.97921.469-0.817-0.8170.0000.0000.0000.000
174A221GLN0-0.044-0.03915.949-0.258-0.2580.0000.0000.0000.000
175A222ALA00.0170.01320.597-0.038-0.0380.0000.0000.0000.000
176A223VAL00.0040.01523.2830.0200.0200.0000.0000.0000.000
177A224LEU0-0.0090.00220.0620.0180.0180.0000.0000.0000.000
178A225TYR0-0.051-0.06617.021-0.004-0.0040.0000.0000.0000.000
179A226ASN00.0620.02223.5860.0230.0230.0000.0000.0000.000
180A227GLN00.0370.02627.141-0.014-0.0140.0000.0000.0000.000
181A228ARG10.8020.90325.0160.9190.9190.0000.0000.0000.000
182A229VAL00.0100.00126.6370.0270.0270.0000.0000.0000.000
183A230GLU-1-0.920-0.95329.141-0.474-0.4740.0000.0000.0000.000
184A231GLU-1-0.853-0.89929.368-0.752-0.7520.0000.0000.0000.000
185A232ILE00.001-0.00328.8860.0210.0210.0000.0000.0000.000
186A233SER0-0.020-0.02032.7160.0400.0400.0000.0000.0000.000
187A234PRO0-0.031-0.01534.9780.0330.0330.0000.0000.0000.000
188A235ASN00.0090.01235.2480.0090.0090.0000.0000.0000.000
189A236ILE00.0390.02632.3230.0210.0210.0000.0000.0000.000
190A237ARG10.9580.98536.9000.3210.3210.0000.0000.0000.000
191A238TYR00.0060.00140.3020.0190.0190.0000.0000.0000.000
192A239CYS0-0.065-0.02738.4650.0060.0060.0000.0000.0000.000
193A240ALA00.0230.00940.4060.0140.0140.0000.0000.0000.000
194A241TYR0-0.008-0.01542.0080.0110.0110.0000.0000.0000.000
195A242ASN0-0.079-0.03944.1730.0140.0140.0000.0000.0000.000
196A243ILE0-0.147-0.06240.6330.0000.0000.0000.0000.0000.000
197A244GLY-1-0.905-0.93745.137-0.192-0.1920.0000.0000.0000.000