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: 6Z93Z

Calculation Name: 2BE3-A-Xray547

Preferred Name:

Target Type:

Ligand Name: tetraethylene glycol | glycerol | chloride ion

Ligand 3-letter code: PG4 | GOL | CL

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 2BE3

Chain ID: A

ChEMBL ID:

UniProt ID: A0A0H2

Base Structure: X-ray

Registration Date: 2025-10-03

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 203
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2421091.408852
FMO2-HF: Nuclear repulsion 2337612.4405
FMO2-HF: Total energy -83478.968353
FMO2-MP2: Total energy -83723.821091


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:1:MET)


Summations of interaction energy for fragment #1(A:1:MET)
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.
-47.237-43.1144.498-2.568-6.053-0.006
Interaction energy analysis for fragmet #1(A:1:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.835 / q_NPA : 0.907
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].
3A3LEU00.1290.0723.860-1.0170.954-0.015-0.789-1.167-0.001
5A5TRP0-0.077-0.0603.2500.3271.3680.109-0.341-0.810-0.001
6A6GLU-1-0.966-0.9853.815-38.898-37.8700.084-0.292-0.819-0.002
7A7GLU-1-0.874-0.9434.745-22.130-22.1200.0070.001-0.0180.000
9A9LEU0-0.037-0.0413.4771.0901.5680.026-0.114-0.389-0.001
13A13ILE0-0.027-0.0254.7970.8850.937-0.001-0.001-0.0510.000
49A49ILE00.0660.0342.5861.0360.5794.288-1.032-2.799-0.001
4A4GLU-1-0.772-0.8576.219-37.096-37.0960.0000.0000.0000.000
8A8PHE0-0.046-0.0157.8012.4272.4270.0000.0000.0000.000
10A10ASP-1-0.834-0.9056.973-23.642-23.6420.0000.0000.0000.000
11A11PRO0-0.001-0.0018.8061.4411.4410.0000.0000.0000.000
12A12TYR00.018-0.0098.8971.7791.7790.0000.0000.0000.000
14A14GLN0-0.046-0.0239.2280.5290.5290.0000.0000.0000.000
15A15ALA00.0310.02112.7450.9810.9810.0000.0000.0000.000
16A16VAL0-0.033-0.02111.1691.0121.0120.0000.0000.0000.000
17A17GLY0-0.011-0.00613.1290.6460.6460.0000.0000.0000.000
18A18GLU-1-0.796-0.87514.577-13.239-13.2390.0000.0000.0000.000
19A19LEU0-0.0030.00216.7240.8120.8120.0000.0000.0000.000
20A20LYS10.8620.93612.94417.69517.6950.0000.0000.0000.000
21A21ILE0-0.025-0.00618.5130.6490.6490.0000.0000.0000.000
22A22LYS10.8390.89220.84512.55812.5580.0000.0000.0000.000
23A23LEU00.0030.00420.4220.5080.5080.0000.0000.0000.000
24A24ARG10.8420.90818.57113.44613.4460.0000.0000.0000.000
25A25GLY00.0070.00424.3380.3730.3730.0000.0000.0000.000
26A26ILE00.0280.02326.2840.3340.3340.0000.0000.0000.000
27A27ARG10.9090.95624.64710.72010.7200.0000.0000.0000.000
28A28LYS10.9430.97128.4619.1809.1800.0000.0000.0000.000
29A29GLN0-0.064-0.03530.2870.2440.2440.0000.0000.0000.000
30A30TYR00.0570.02032.2420.1320.1320.0000.0000.0000.000
31A31ARG11.0041.00730.4498.9098.9090.0000.0000.0000.000
32A32LYS10.8310.92231.6848.7228.7220.0000.0000.0000.000
33A33GLN0-0.053-0.02336.2400.2640.2640.0000.0000.0000.000
34A34ASN0-0.028-0.01438.6530.1660.1660.0000.0000.0000.000
35A35LYS10.9360.97737.2617.2957.2950.0000.0000.0000.000
36A36HIS00.1270.08135.123-0.140-0.1400.0000.0000.0000.000
37A37SER0-0.119-0.07930.477-0.031-0.0310.0000.0000.0000.000
38A38PRO00.0720.05031.737-0.077-0.0770.0000.0000.0000.000
39A39ILE0-0.037-0.01926.037-0.240-0.2400.0000.0000.0000.000
40A40GLU-1-0.810-0.89228.493-9.025-9.0250.0000.0000.0000.000
41A41PHE0-0.031-0.02423.577-0.291-0.2910.0000.0000.0000.000
42A42VAL00.0180.02119.674-0.034-0.0340.0000.0000.0000.000
43A43THR0-0.006-0.00316.452-0.219-0.2190.0000.0000.0000.000
44A44GLY00.0350.01114.9600.3630.3630.0000.0000.0000.000
45A45ARG10.7710.88410.49619.53419.5340.0000.0000.0000.000
46A46VAL00.0830.0596.2411.1411.1410.0000.0000.0000.000
47A47LYS10.7520.8708.04720.07520.0750.0000.0000.0000.000
48A48PRO00.0330.0106.022-2.149-2.1490.0000.0000.0000.000
50A50GLU-1-0.828-0.9275.296-42.713-42.7130.0000.0000.0000.000
51A51SER0-0.004-0.0057.9563.0323.0320.0000.0000.0000.000
52A52ILE0-0.048-0.0157.3112.6812.6810.0000.0000.0000.000
53A53LYS10.9280.9656.28341.19741.1970.0000.0000.0000.000
54A54GLU-1-0.847-0.89310.778-17.294-17.2940.0000.0000.0000.000
55A55LYS10.8100.88913.43719.04219.0420.0000.0000.0000.000
56A56MET0-0.0040.01112.2390.3020.3020.0000.0000.0000.000
57A57ALA00.0400.02014.8271.3251.3250.0000.0000.0000.000
58A58ARG10.7710.86116.59717.60917.6090.0000.0000.0000.000
59A59ARG10.8520.91618.86014.76714.7670.0000.0000.0000.000
60A60GLY00.0400.04319.3870.6480.6480.0000.0000.0000.000
61A61ILE0-0.061-0.00316.2880.1080.1080.0000.0000.0000.000
62A62THR00.0210.00416.151-0.964-0.9640.0000.0000.0000.000
63A63TYR00.025-0.0249.443-0.976-0.9760.0000.0000.0000.000
64A64ALA0-0.0070.00914.351-0.171-0.1710.0000.0000.0000.000
65A65THR00.022-0.00617.6040.2500.2500.0000.0000.0000.000
66A66LEU0-0.033-0.00811.0040.2180.2180.0000.0000.0000.000
67A67GLU-1-0.819-0.91814.778-17.216-17.2160.0000.0000.0000.000
68A68HIS0-0.043-0.01215.8780.6510.6510.0000.0000.0000.000
69A69ASP-1-0.790-0.88018.750-14.251-14.2510.0000.0000.0000.000
70A70LEU0-0.075-0.04112.7730.3190.3190.0000.0000.0000.000
71A71GLN00.0530.02215.405-0.584-0.5840.0000.0000.0000.000
72A72ASP-1-0.746-0.83414.856-18.156-18.1560.0000.0000.0000.000
73A73ILE00.0490.0409.249-1.027-1.0270.0000.0000.0000.000
74A74ALA00.0660.03910.362-1.247-1.2470.0000.0000.0000.000
75A75GLY0-0.004-0.00812.5190.8280.8280.0000.0000.0000.000
76A76LEU0-0.039-0.02614.397-0.453-0.4530.0000.0000.0000.000
77A77ARG10.8870.94817.22714.87314.8730.0000.0000.0000.000
78A78VAL00.0390.01920.069-0.087-0.0870.0000.0000.0000.000
79A79MET0-0.035-0.01421.208-0.050-0.0500.0000.0000.0000.000
80A80VAL00.011-0.01125.7950.0350.0350.0000.0000.0000.000
81A81GLN00.0230.03229.3980.0030.0030.0000.0000.0000.000
82A82PHE00.0210.01532.636-0.038-0.0380.0000.0000.0000.000
83A83VAL00.008-0.01933.195-0.250-0.2500.0000.0000.0000.000
84A84ASP-1-0.797-0.89633.975-7.720-7.7200.0000.0000.0000.000
85A85ASP-1-0.728-0.84932.833-8.131-8.1310.0000.0000.0000.000
86A86VAL0-0.065-0.03629.277-0.216-0.2160.0000.0000.0000.000
87A87LYS10.8510.91230.9797.4917.4910.0000.0000.0000.000
88A88GLU-1-0.805-0.87533.356-7.865-7.8650.0000.0000.0000.000
89A89VAL0-0.046-0.03527.239-0.119-0.1190.0000.0000.0000.000
90A90VAL0-0.003-0.00128.785-0.232-0.2320.0000.0000.0000.000
91A91ASP-1-0.887-0.94230.243-8.244-8.2440.0000.0000.0000.000
92A92ILE0-0.104-0.05429.1160.0140.0140.0000.0000.0000.000
93A93LEU0-0.030-0.02224.831-0.146-0.1460.0000.0000.0000.000
94A94HIS10.8440.91028.2629.0739.0730.0000.0000.0000.000
95A95LYS10.9380.98730.9578.2918.2910.0000.0000.0000.000
96A96ARG10.7830.86425.13710.61210.6120.0000.0000.0000.000
97A97GLN00.0460.01428.655-0.063-0.0630.0000.0000.0000.000
98A98ASP-1-0.784-0.84224.208-11.061-11.0610.0000.0000.0000.000
99A99MET0-0.033-0.00922.123-0.530-0.5300.0000.0000.0000.000
100A100ARG10.8640.91124.09311.08611.0860.0000.0000.0000.000
101A101ILE0-0.005-0.00124.681-0.435-0.4350.0000.0000.0000.000
102A102ILE0-0.032-0.00622.4040.3160.3160.0000.0000.0000.000
103A103GLN00.0230.01124.975-0.225-0.2250.0000.0000.0000.000
104A104GLU-1-0.797-0.87025.712-9.793-9.7930.0000.0000.0000.000
105A105ARG10.8150.89222.27712.18912.1890.0000.0000.0000.000
106A106ASP-1-0.710-0.82127.879-9.164-9.1640.0000.0000.0000.000
107A107TYR0-0.045-0.03625.476-0.051-0.0510.0000.0000.0000.000
108A108ILE00.016-0.00130.181-0.069-0.0690.0000.0000.0000.000
109A109THR0-0.003-0.02532.5940.2490.2490.0000.0000.0000.000
110A110HIS0-0.042-0.01832.7930.1460.1460.0000.0000.0000.000
111A111ARG10.9140.97231.9968.0368.0360.0000.0000.0000.000
112A112LYS10.8800.95324.82911.67511.6750.0000.0000.0000.000
113A113ALA00.0340.00731.4930.0610.0610.0000.0000.0000.000
114A114SER0-0.081-0.03928.2060.2280.2280.0000.0000.0000.000
115A115GLY00.0260.01131.3830.0700.0700.0000.0000.0000.000
116A116TYR0-0.079-0.05523.158-0.117-0.1170.0000.0000.0000.000
117A117ARG10.8610.91628.4159.2359.2350.0000.0000.0000.000
118A118SER0-0.033-0.03923.767-0.229-0.2290.0000.0000.0000.000
119A119TYR00.027-0.00226.8200.1630.1630.0000.0000.0000.000
120A120HIS0-0.075-0.04521.768-0.165-0.1650.0000.0000.0000.000
121A121VAL00.0480.02123.5620.3710.3710.0000.0000.0000.000
122A122VAL0-0.031-0.01520.195-0.466-0.4660.0000.0000.0000.000
123A123VAL00.002-0.01620.0650.5630.5630.0000.0000.0000.000
124A124GLU-1-0.785-0.85620.113-12.177-12.1770.0000.0000.0000.000
125A125TYR0-0.017-0.04917.1740.7640.7640.0000.0000.0000.000
126A126THR00.0190.00918.959-0.460-0.4600.0000.0000.0000.000
127A127VAL0-0.0160.01614.7250.2690.2690.0000.0000.0000.000
128A128ASP-1-0.872-0.93718.121-12.223-12.2230.0000.0000.0000.000
129A129THR0-0.007-0.00515.646-0.886-0.8860.0000.0000.0000.000
130A130ILE00.015-0.00516.4360.5850.5850.0000.0000.0000.000
131A131ASN0-0.042-0.01115.0130.9420.9420.0000.0000.0000.000
132A132GLY00.0180.01818.8770.2330.2330.0000.0000.0000.000
133A133ALA0-0.009-0.00619.290-0.595-0.5950.0000.0000.0000.000
134A134LYS10.8430.91015.08916.72816.7280.0000.0000.0000.000
135A135THR0-0.026-0.02317.750-0.051-0.0510.0000.0000.0000.000
136A136ILE0-0.030-0.01213.588-0.599-0.5990.0000.0000.0000.000
137A137LEU00.0200.01516.3120.8940.8940.0000.0000.0000.000
138A138ALA0-0.004-0.01015.378-1.053-1.0530.0000.0000.0000.000
139A139GLU-1-0.837-0.89616.505-13.468-13.4680.0000.0000.0000.000
140A140ILE00.0090.00417.861-0.518-0.5180.0000.0000.0000.000
141A141GLN0-0.050-0.02319.7870.7860.7860.0000.0000.0000.000
142A142ILE0-0.0040.00522.269-0.190-0.1900.0000.0000.0000.000
143A143ARG10.8240.90121.65412.51312.5130.0000.0000.0000.000
144A144THR00.0990.03426.839-0.144-0.1440.0000.0000.0000.000
145A145LEU00.036-0.00326.800-0.472-0.4720.0000.0000.0000.000
146A146ALA00.0260.02728.144-0.306-0.3060.0000.0000.0000.000
147A147MET0-0.0420.00027.839-0.297-0.2970.0000.0000.0000.000
148A148ASN00.0170.00621.946-0.684-0.6840.0000.0000.0000.000
149A149PHE0-0.0040.01524.277-0.506-0.5060.0000.0000.0000.000
150A150TRP00.0100.00625.907-0.467-0.4670.0000.0000.0000.000
151A151ALA00.0170.00523.980-0.300-0.3000.0000.0000.0000.000
152A152THR0-0.096-0.06720.066-0.590-0.5900.0000.0000.0000.000
153A153ILE00.0090.02821.654-0.603-0.6030.0000.0000.0000.000
154A154GLU-1-0.853-0.92123.998-11.927-11.9270.0000.0000.0000.000
155A155HIS00.0130.00516.4960.2150.2150.0000.0000.0000.000
156A156SER0-0.047-0.04019.468-0.825-0.8250.0000.0000.0000.000
157A157LEU0-0.030-0.01020.516-0.271-0.2710.0000.0000.0000.000
158A158ASN00.014-0.00222.3030.1740.1740.0000.0000.0000.000
159A159TYR0-0.021-0.00114.017-0.476-0.4760.0000.0000.0000.000
160A160LYS10.9110.96719.27812.49412.4940.0000.0000.0000.000
161A161TYR0-0.009-0.02721.4690.1000.1000.0000.0000.0000.000
162A162GLN0-0.0100.00520.265-0.009-0.0090.0000.0000.0000.000
163A163GLY0-0.0060.00323.6560.2000.2000.0000.0000.0000.000
164A164ASP-1-0.924-0.94827.066-9.954-9.9540.0000.0000.0000.000
165A165PHE0-0.049-0.04326.064-0.213-0.2130.0000.0000.0000.000
166A166PRO00.0470.02129.3990.3380.3380.0000.0000.0000.000
167A167ASP-1-0.835-0.90832.577-8.562-8.5620.0000.0000.0000.000
168A168GLU-1-0.802-0.87735.495-8.235-8.2350.0000.0000.0000.000
169A169ILE0-0.022-0.02029.050-0.001-0.0010.0000.0000.0000.000
170A170LYS10.8840.92831.7309.3079.3070.0000.0000.0000.000
171A171LYS10.9160.93833.3168.0038.0030.0000.0000.0000.000
172A172ARG10.8540.91233.1648.5338.5330.0000.0000.0000.000
173A173LEU00.0240.03328.0160.0080.0080.0000.0000.0000.000
174A174GLU-1-0.798-0.87632.147-8.580-8.5800.0000.0000.0000.000
175A175ILE0-0.071-0.02935.2160.1570.1570.0000.0000.0000.000
176A176THR0-0.021-0.03932.435-0.003-0.0030.0000.0000.0000.000
177A177ALA0-0.0110.01232.548-0.018-0.0180.0000.0000.0000.000
178A178ARG10.9530.96933.6427.9057.9050.0000.0000.0000.000
179A179ILE00.0330.01936.4020.1030.1030.0000.0000.0000.000
180A180ALA0-0.027-0.01432.0740.0600.0600.0000.0000.0000.000
181A181HIS0-0.043-0.02934.195-0.250-0.2500.0000.0000.0000.000
182A182GLN0-0.037-0.02835.891-0.029-0.0290.0000.0000.0000.000
183A183LEU0-0.025-0.00934.4180.0900.0900.0000.0000.0000.000
184A184ASP-1-0.752-0.84933.085-8.925-8.9250.0000.0000.0000.000
185A185GLU-1-0.931-0.96636.480-7.601-7.6010.0000.0000.0000.000
186A186GLU-1-0.855-0.93239.823-6.681-6.6810.0000.0000.0000.000
187A187MET0-0.061-0.02238.4980.0830.0830.0000.0000.0000.000
188A188GLY0-0.017-0.01839.8430.0310.0310.0000.0000.0000.000
189A189GLU-1-0.945-0.97340.499-6.537-6.5370.0000.0000.0000.000
190A190ILE0-0.0180.00043.4280.1480.1480.0000.0000.0000.000
191A191ARG10.7980.87937.0217.4997.4990.0000.0000.0000.000
192A192ASP-1-0.905-0.95441.877-6.731-6.7310.0000.0000.0000.000
193A193ASP-1-0.870-0.93444.495-6.249-6.2490.0000.0000.0000.000
194A194ILE0-0.030-0.01539.981-0.015-0.0150.0000.0000.0000.000
195A195GLN0-0.069-0.04637.4600.0210.0210.0000.0000.0000.000
196A196GLU-1-0.961-0.96941.833-6.067-6.0670.0000.0000.0000.000
197A197ALA0-0.009-0.01344.1930.0340.0340.0000.0000.0000.000
198A198GLN0-0.034-0.04237.783-0.103-0.1030.0000.0000.0000.000
199A199ALA0-0.061-0.02141.229-0.102-0.1020.0000.0000.0000.000
200A200LEU0-0.056-0.01843.1430.0910.0910.0000.0000.0000.000
201A201PHE0-0.069-0.04541.7160.0690.0690.0000.0000.0000.000
202A202ASP-1-0.842-0.93036.155-8.080-8.0800.0000.0000.0000.000
203A203PRO-1-1.026-0.99236.324-7.865-7.8650.0000.0000.0000.000