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: G4L61

Calculation Name: 2I6G-B-Xray549

Preferred Name:

Target Type:

Ligand Name: n-dimethyl-lysine | acetic acid | 1,2-ethanediol

Ligand 3-letter code: MLY | ACY | EDO

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 2I6G

Chain ID: B

ChEMBL ID:

UniProt ID: Q8ZPC3

Base Structure: X-ray

Registration Date: 2025-10-12

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 OptH
Protonation MOE:Protonate 3D
Complement ac.sh, 23 2024 Oct
Water No
Procedure Manual calculation
Remarks
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 199
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2251101.331385
FMO2-HF: Nuclear repulsion 2171747.163553
FMO2-HF: Total energy -79354.167832
FMO2-MP2: Total energy -79580.745491


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(B:0:GLY)


Summations of interaction energy for fragment #1(B:0:GLY)
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.
-77.935-77.14-0.004-0.428-0.363-0.001
Interaction energy analysis for fragmet #1(B:0:GLY)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.847 / q_NPA : 0.909
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].
3B2THR00.011-0.0013.720-7.412-6.617-0.004-0.428-0.363-0.001
4B3VAL00.0100.0056.1732.9662.9660.0000.0000.0000.000
5B4ARG10.8720.9299.66323.82023.8200.0000.0000.0000.000
6B5ASP-1-0.768-0.87712.564-21.776-21.7760.0000.0000.0000.000
7B6GLU-1-0.825-0.93214.671-17.523-17.5230.0000.0000.0000.000
8B7ASN0-0.093-0.02913.8162.0982.0980.0000.0000.0000.000
9B8TYR0-0.019-0.02810.186-0.580-0.5800.0000.0000.0000.000
10B9PHE00.018-0.00613.6060.4490.4490.0000.0000.0000.000
11B10THR0-0.080-0.04216.9921.2121.2120.0000.0000.0000.000
12B11GLU-1-0.985-0.99512.531-23.555-23.5550.0000.0000.0000.000
13B12LYS10.8810.95811.79824.63324.6330.0000.0000.0000.000
14B13TYR0-0.060-0.07815.4670.8330.8330.0000.0000.0000.000
15B14GLY00.0160.02719.1720.9030.9030.0000.0000.0000.000
16B15LEU0-0.049-0.01420.8930.9370.9370.0000.0000.0000.000
17B16THR0-0.014-0.02022.177-0.196-0.1960.0000.0000.0000.000
18B17ARG10.9620.97619.81315.14615.1460.0000.0000.0000.000
19B18THR00.0320.01420.1880.7130.7130.0000.0000.0000.000
20B19HIS00.0160.02022.835-0.183-0.1830.0000.0000.0000.000
21B20SER00.0480.00825.320-0.426-0.4260.0000.0000.0000.000
22B21ASP-1-0.827-0.92026.366-10.569-10.5690.0000.0000.0000.000
23B22VAL00.0200.01724.4410.1140.1140.0000.0000.0000.000
24B23LEU0-0.031-0.01120.392-0.248-0.2480.0000.0000.0000.000
25B24ALA0-0.067-0.03323.662-0.232-0.2320.0000.0000.0000.000
26B25ALA00.0280.01226.4040.0560.0560.0000.0000.0000.000
27B26ALA00.0260.01522.2440.1180.1180.0000.0000.0000.000
28B27LYS10.8670.94520.35114.53014.5300.0000.0000.0000.000
29B28VAL0-0.054-0.01924.6050.2100.2100.0000.0000.0000.000
30B29VAL0-0.032-0.00727.4810.3010.3010.0000.0000.0000.000
31B30ALA00.0070.01324.994-0.525-0.5250.0000.0000.0000.000
32B31PRO0-0.005-0.00921.2190.3780.3780.0000.0000.0000.000
33B32GLY00.0240.01224.1610.2700.2700.0000.0000.0000.000
34B33ARG10.7770.86526.6349.3879.3870.0000.0000.0000.000
35B34THR0-0.006-0.01926.9820.2560.2560.0000.0000.0000.000
36B35LEU00.0020.01729.153-0.077-0.0770.0000.0000.0000.000
37B36ASP-1-0.809-0.89827.826-11.480-11.4800.0000.0000.0000.000
38B37LEU00.006-0.00430.6860.0820.0820.0000.0000.0000.000
39B38GLY00.0030.01033.9270.2600.2600.0000.0000.0000.000
40B39CYS0-0.0070.00728.754-0.115-0.1150.0000.0000.0000.000
41B40GLY0-0.004-0.00429.189-0.414-0.4140.0000.0000.0000.000
42B41ASN0-0.057-0.04626.1520.0160.0160.0000.0000.0000.000
43B42GLY00.0590.02625.887-0.428-0.4280.0000.0000.0000.000
44B43ARG10.8580.92422.79611.91511.9150.0000.0000.0000.000
45B44ASN0-0.006-0.00322.275-1.035-1.0350.0000.0000.0000.000
46B45SER00.036-0.02323.254-0.351-0.3510.0000.0000.0000.000
47B46LEU0-0.0280.00119.791-0.354-0.3540.0000.0000.0000.000
48B47TYR00.0120.01217.465-0.639-0.6390.0000.0000.0000.000
49B48LEU00.0000.00218.991-0.666-0.6660.0000.0000.0000.000
50B49ALA00.0500.03220.587-0.289-0.2890.0000.0000.0000.000
51B50ALA0-0.037-0.01915.360-0.590-0.5900.0000.0000.0000.000
52B51ASN0-0.154-0.08815.394-2.289-2.2890.0000.0000.0000.000
53B52GLY00.0100.01017.3480.4340.4340.0000.0000.0000.000
54B53TYR0-0.082-0.04519.4330.5580.5580.0000.0000.0000.000
55B54ASP-1-0.914-0.95422.512-12.604-12.6040.0000.0000.0000.000
56B55VAL0-0.014-0.01123.9560.5030.5030.0000.0000.0000.000
57B56THR0-0.0020.01426.6260.1170.1170.0000.0000.0000.000
58B57ALA00.0130.00027.9150.0140.0140.0000.0000.0000.000
59B58TRP0-0.017-0.03130.0590.2260.2260.0000.0000.0000.000
60B59ASP-1-0.769-0.88432.818-9.467-9.4670.0000.0000.0000.000
61B60LYS10.9720.98634.6708.0688.0680.0000.0000.0000.000
62B61ASN00.0030.00633.8740.0370.0370.0000.0000.0000.000
63B62PRO00.0640.01733.714-0.326-0.3260.0000.0000.0000.000
64B63ALA00.0030.00432.477-0.241-0.2410.0000.0000.0000.000
65B64SER0-0.039-0.02529.696-0.427-0.4270.0000.0000.0000.000
66B65MET00.0360.02528.741-0.516-0.5160.0000.0000.0000.000
67B66ALA0-0.0070.00029.026-0.318-0.3180.0000.0000.0000.000
68B67ASN0-0.025-0.02026.085-0.329-0.3290.0000.0000.0000.000
69B68LEU00.0200.03624.048-0.616-0.6160.0000.0000.0000.000
70B69GLU-1-0.746-0.85224.179-12.513-12.5130.0000.0000.0000.000
71B70ARG10.8480.92623.50511.46811.4680.0000.0000.0000.000
72B71ILE0-0.010-0.00819.011-0.555-0.5550.0000.0000.0000.000
73B72LYS10.8660.93619.46211.48511.4850.0000.0000.0000.000
74B73ALA0-0.019-0.00120.168-0.609-0.6090.0000.0000.0000.000
75B74ALA0-0.053-0.02317.606-0.510-0.5100.0000.0000.0000.000
76B75GLU-1-0.786-0.83913.938-24.698-24.6980.0000.0000.0000.000
77B76GLY00.0150.02516.073-1.006-1.0060.0000.0000.0000.000
78B77LEU0-0.056-0.02417.125-0.233-0.2330.0000.0000.0000.000
79B78ASP-1-0.879-0.95319.967-13.859-13.8590.0000.0000.0000.000
80B79ASN0-0.113-0.05819.9730.3270.3270.0000.0000.0000.000
81B80LEU0-0.003-0.00822.961-0.031-0.0310.0000.0000.0000.000
82B81GLN0-0.045-0.02624.844-0.043-0.0430.0000.0000.0000.000
83B82THR0-0.080-0.07827.3350.0580.0580.0000.0000.0000.000
84B83ASP-1-0.770-0.86230.110-9.490-9.4900.0000.0000.0000.000
85B84LEU0-0.068-0.03233.828-0.051-0.0510.0000.0000.0000.000
86B85VAL00.021-0.00536.0110.2740.2740.0000.0000.0000.000
87B86ASP-1-0.870-0.93938.356-7.724-7.7240.0000.0000.0000.000
88B87LEU00.0350.00536.9330.1780.1780.0000.0000.0000.000
89B88ASN0-0.023-0.01241.1730.0510.0510.0000.0000.0000.000
90B89THR0-0.101-0.04844.0110.1910.1910.0000.0000.0000.000
91B90LEU0-0.0380.00439.1270.0640.0640.0000.0000.0000.000
92B91THR0-0.024-0.00343.4040.1010.1010.0000.0000.0000.000
93B92PHE0-0.001-0.02737.892-0.041-0.0410.0000.0000.0000.000
94B93ASP-1-0.871-0.94040.912-7.387-7.3870.0000.0000.0000.000
95B94GLY0-0.0020.00238.569-0.228-0.2280.0000.0000.0000.000
96B95GLU-1-0.869-0.93136.480-8.619-8.6190.0000.0000.0000.000
97B96TYR0-0.0050.00031.720-0.125-0.1250.0000.0000.0000.000
98B97ASP-1-0.791-0.87130.209-10.045-10.0450.0000.0000.0000.000
99B98PHE0-0.011-0.01827.1800.1080.1080.0000.0000.0000.000
100B99ILE00.0190.02531.557-0.066-0.0660.0000.0000.0000.000
101B100LEU0-0.034-0.01127.9460.0360.0360.0000.0000.0000.000
102B101SER00.0140.00232.2120.1110.1110.0000.0000.0000.000
103B102THR0-0.028-0.02630.203-0.026-0.0260.0000.0000.0000.000
104B103VAL0-0.045-0.03632.137-0.142-0.1420.0000.0000.0000.000
105B104VAL00.0290.03134.9060.1350.1350.0000.0000.0000.000
106B105MET00.0390.00836.7230.2570.2570.0000.0000.0000.000
107B106MET00.0020.01837.7410.2040.2040.0000.0000.0000.000
108B107PHE0-0.055-0.03637.2330.1690.1690.0000.0000.0000.000
109B108LEU0-0.043-0.01540.1500.0060.0060.0000.0000.0000.000
110B109GLU-1-0.861-0.93943.802-6.790-6.7900.0000.0000.0000.000
111B110ALA00.0080.00547.046-0.072-0.0720.0000.0000.0000.000
112B111GLN00.008-0.00748.772-0.032-0.0320.0000.0000.0000.000
113B112THR0-0.014-0.00844.1250.0830.0830.0000.0000.0000.000
114B113ILE0-0.0040.00742.690-0.100-0.1000.0000.0000.0000.000
115B114PRO0-0.0030.00145.031-0.105-0.1050.0000.0000.0000.000
116B115GLY00.0080.00846.927-0.029-0.0290.0000.0000.0000.000
117B116LEU00.0400.01239.995-0.089-0.0890.0000.0000.0000.000
118B117ILE00.0230.01041.634-0.188-0.1880.0000.0000.0000.000
119B118ALA00.0210.01242.675-0.099-0.0990.0000.0000.0000.000
120B119ASN0-0.076-0.06141.6060.1570.1570.0000.0000.0000.000
121B120MET0-0.0170.00236.407-0.091-0.0910.0000.0000.0000.000
122B121GLN0-0.026-0.01339.4340.0080.0080.0000.0000.0000.000
123B122ARG10.8980.96241.6977.2437.2430.0000.0000.0000.000
124B123CYS0-0.0220.02938.6300.0800.0800.0000.0000.0000.000
125B124THR00.0070.02135.907-0.389-0.3890.0000.0000.0000.000
126B125LYS10.9000.95132.17310.03510.0350.0000.0000.0000.000
127B126PRO00.0260.01137.986-0.040-0.0400.0000.0000.0000.000
128B127GLY00.0070.00436.950-0.197-0.1970.0000.0000.0000.000
129B128GLY0-0.038-0.01234.180-0.323-0.3230.0000.0000.0000.000
130B129TYR00.006-0.01231.9090.2520.2520.0000.0000.0000.000
131B130ASN0-0.010-0.00834.1950.1770.1770.0000.0000.0000.000
132B131LEU0-0.0070.00029.834-0.006-0.0060.0000.0000.0000.000
133B132ILE00.0070.00333.802-0.016-0.0160.0000.0000.0000.000
134B133VAL0-0.0080.00132.349-0.029-0.0290.0000.0000.0000.000
135B134ALA0-0.015-0.01035.514-0.080-0.0800.0000.0000.0000.000
136B135ALA00.0370.02538.4350.0360.0360.0000.0000.0000.000
137B136MET0-0.056-0.02240.7760.1070.1070.0000.0000.0000.000
138B137ASP-1-0.822-0.89544.142-6.520-6.5200.0000.0000.0000.000
139B138THR0-0.048-0.04846.3120.0450.0450.0000.0000.0000.000
140B139PRO0-0.015-0.02149.0430.0240.0240.0000.0000.0000.000
141B140ASP-1-0.815-0.87347.136-6.827-6.8270.0000.0000.0000.000
142B141PHE0-0.042-0.02344.592-0.104-0.1040.0000.0000.0000.000
143B142PRO00.0340.03347.031-0.088-0.0880.0000.0000.0000.000
144B143CYS0-0.027-0.01344.918-0.124-0.1240.0000.0000.0000.000
145B144THR0-0.022-0.01347.4730.0360.0360.0000.0000.0000.000
146B145VAL0-0.044-0.02244.1880.0480.0480.0000.0000.0000.000
147B146GLY00.0100.00446.879-0.067-0.0670.0000.0000.0000.000
148B147PHE0-0.056-0.03441.025-0.104-0.1040.0000.0000.0000.000
149B148PRO00.0010.01144.9820.1230.1230.0000.0000.0000.000
150B149PHE00.004-0.00443.2160.1220.1220.0000.0000.0000.000
151B150ALA00.014-0.00344.338-0.169-0.1690.0000.0000.0000.000
152B151PHE0-0.0100.01540.9600.1470.1470.0000.0000.0000.000
153B152LYS10.8830.92445.8126.5296.5290.0000.0000.0000.000
154B153GLU-1-0.763-0.87946.932-6.739-6.7390.0000.0000.0000.000
155B154GLY0-0.038-0.02646.2660.1760.1760.0000.0000.0000.000
156B155GLU-1-0.915-0.95946.756-6.784-6.7840.0000.0000.0000.000
157B156LEU00.0210.01639.1000.0290.0290.0000.0000.0000.000
158B157ARG10.9530.97143.4826.9116.9110.0000.0000.0000.000
159B158ARG10.8570.92444.4916.5696.5690.0000.0000.0000.000
160B159TYR0-0.0080.00144.6730.0970.0970.0000.0000.0000.000
161B160TYR0-0.049-0.02739.5480.0060.0060.0000.0000.0000.000
162B161GLU-1-0.875-0.94244.227-6.929-6.9290.0000.0000.0000.000
163B162GLY0-0.028-0.01246.6760.0500.0500.0000.0000.0000.000
164B163TRP0-0.017-0.00537.956-0.162-0.1620.0000.0000.0000.000
165B164ASP-1-0.807-0.88339.078-7.969-7.9690.0000.0000.0000.000
166B165MET0-0.028-0.02038.901-0.261-0.2610.0000.0000.0000.000
167B166LEU0-0.056-0.02434.020-0.010-0.0100.0000.0000.0000.000
168B167LYS10.8810.93830.41210.17410.1740.0000.0000.0000.000
169B168TYR0-0.043-0.05736.3250.0410.0410.0000.0000.0000.000
170B169ASN0-0.058-0.04336.772-0.023-0.0230.0000.0000.0000.000
171B170GLU-1-0.706-0.82538.801-7.226-7.2260.0000.0000.0000.000
172B171ASP-1-0.800-0.87837.095-8.373-8.3730.0000.0000.0000.000
173B172VAL0-0.037-0.01939.2630.0040.0040.0000.0000.0000.000
174B173GLY00.0090.01136.515-0.257-0.2570.0000.0000.0000.000
175B174GLU-1-0.870-0.94135.115-8.809-8.8090.0000.0000.0000.000
176B175LEU0-0.0030.01136.305-0.238-0.2380.0000.0000.0000.000
177B176HIS00.013-0.01731.9260.0520.0520.0000.0000.0000.000
178B177ARG10.9020.96536.9957.6367.6360.0000.0000.0000.000
179B178THR00.0230.01440.508-0.106-0.1060.0000.0000.0000.000
180B179ASP-1-0.815-0.91042.737-7.034-7.0340.0000.0000.0000.000
181B180GLU-1-0.941-0.98046.180-6.237-6.2370.0000.0000.0000.000
182B181ASN0-0.086-0.03247.0830.0740.0740.0000.0000.0000.000
183B182GLY00.0110.01343.785-0.097-0.0970.0000.0000.0000.000
184B183ASN0-0.084-0.04541.389-0.365-0.3650.0000.0000.0000.000
185B184ARG10.8530.93134.8029.2739.2730.0000.0000.0000.000
186B185ILE00.003-0.00140.0510.0280.0280.0000.0000.0000.000
187B186LYS10.8760.92938.2248.1598.1590.0000.0000.0000.000
188B187LEU00.0230.00840.6750.1870.1870.0000.0000.0000.000
189B188ARG10.7690.86440.4616.9306.9300.0000.0000.0000.000
190B189PHE0-0.036-0.03037.1170.0190.0190.0000.0000.0000.000
191B190ALA00.0220.02439.100-0.014-0.0140.0000.0000.0000.000
192B191THR0-0.015-0.01533.783-0.159-0.1590.0000.0000.0000.000
193B192MET0-0.046-0.01936.2340.0820.0820.0000.0000.0000.000
194B193LEU0-0.008-0.01230.969-0.279-0.2790.0000.0000.0000.000
195B194ALA00.0150.00634.8810.1360.1360.0000.0000.0000.000
196B195ARG10.8010.89334.8408.5778.5770.0000.0000.0000.000
197B196LYS10.8320.91937.1198.1188.1180.0000.0000.0000.000
198B197THR00.013-0.00639.281-0.162-0.1620.0000.0000.0000.000
199B198ALA-1-0.916-0.95639.592-7.590-7.5900.0000.0000.0000.000