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: 3GGGL

Calculation Name: 6LTQ-D-Xray547

Preferred Name:

Target Type:

Ligand Name: cysteinesulfonic acid | pentaethylene glycol | glycerol

Ligand 3-letter code: OCS | 1PE | GOL

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 6LTQ

Chain ID: D

ChEMBL ID:

UniProt ID:

Base Structure: X-ray

Registration Date: 2025-10-06

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 215
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2597978.471066
FMO2-HF: Nuclear repulsion 2515158.078422
FMO2-HF: Total energy -82820.392644
FMO2-MP2: Total energy -83066.105864


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(D:7:SER)


Summations of interaction energy for fragment #1(D:7:SER)
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.
62.62367.6631.479-2.602-3.9150.008
Interaction energy analysis for fragmet #1(D:7:SER)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.857 / q_NPA : 0.911
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].
3D9LEU00.0390.0262.4232.2006.5531.475-2.471-3.3560.007
4D10SER00.0210.0333.6784.0114.4430.006-0.109-0.3280.001
5D11ASP-1-0.897-0.9414.419-32.749-32.611-0.001-0.013-0.1230.000
7D13LYS10.8250.9134.21335.32335.440-0.001-0.009-0.1080.000
6D12SER0-0.069-0.0595.9813.3573.3570.0000.0000.0000.000
8D14LYS10.8910.9616.34618.80818.8080.0000.0000.0000.000
9D15LEU00.0050.0138.770-1.221-1.2210.0000.0000.0000.000
10D16SER0-0.017-0.03110.4052.0072.0070.0000.0000.0000.000
11D17VAL0-0.027-0.02112.376-0.305-0.3050.0000.0000.0000.000
12D18LEU00.0430.02815.5980.5330.5330.0000.0000.0000.000
13D19LEU0-0.025-0.00918.6090.2430.2430.0000.0000.0000.000
14D20THR00.0570.02921.7900.0690.0690.0000.0000.0000.000
15D21GLY0-0.031-0.02024.7280.1160.1160.0000.0000.0000.000
16D22PHE00.0050.00228.461-0.157-0.1570.0000.0000.0000.000
17D23GLU-1-0.862-0.94131.609-8.763-8.7630.0000.0000.0000.000
18D24PRO0-0.077-0.03434.836-0.026-0.0260.0000.0000.0000.000
19D25PHE00.0790.04636.275-0.072-0.0720.0000.0000.0000.000
20D26GLY00.0380.01939.9690.0730.0730.0000.0000.0000.000
21D27GLY00.0230.02342.9780.1360.1360.0000.0000.0000.000
22D28GLU-1-0.857-0.89641.056-7.080-7.0800.0000.0000.0000.000
23D29LYS10.9840.99042.2776.6896.6890.0000.0000.0000.000
24D30VAL0-0.062-0.04538.023-0.096-0.0960.0000.0000.0000.000
25D31ASN00.0910.05134.089-0.078-0.0780.0000.0000.0000.000
26D32PRO00.0060.01034.127-0.120-0.1200.0000.0000.0000.000
27D33SER0-0.009-0.00729.799-0.237-0.2370.0000.0000.0000.000
28D34MET00.0510.03030.226-0.161-0.1610.0000.0000.0000.000
29D35ARG10.7650.85731.9607.8737.8730.0000.0000.0000.000
30D36ILE0-0.002-0.00527.927-0.026-0.0260.0000.0000.0000.000
31D37VAL00.0430.02926.222-0.152-0.1520.0000.0000.0000.000
32D38LYS10.9550.98827.8478.5498.5490.0000.0000.0000.000
33D39ARG10.8580.94530.4628.6918.6910.0000.0000.0000.000
34D40LEU0-0.019-0.02924.9860.0000.0000.0000.0000.0000.000
35D41SER00.0220.00524.967-0.377-0.3770.0000.0000.0000.000
36D42LYS10.9070.97125.6959.2529.2520.0000.0000.0000.000
37D43ALA00.0550.03021.1800.0810.0810.0000.0000.0000.000
38D44VAL0-0.019-0.00321.562-0.506-0.5060.0000.0000.0000.000
39D45PHE0-0.001-0.00818.9710.1930.1930.0000.0000.0000.000
40D46PRO00.007-0.00518.246-0.668-0.6680.0000.0000.0000.000
41D47HIS0-0.015-0.01714.253-1.236-1.2360.0000.0000.0000.000
42D48ILE00.0040.01013.044-1.180-1.1800.0000.0000.0000.000
43D49SER0-0.001-0.00713.1610.7690.7690.0000.0000.0000.000
44D50LEU0-0.044-0.02115.122-0.466-0.4660.0000.0000.0000.000
45D51HIS00.0680.06014.9961.2491.2490.0000.0000.0000.000
46D52THR0-0.062-0.04119.4700.3240.3240.0000.0000.0000.000
47D53LEU00.0570.03423.0270.0170.0170.0000.0000.0000.000
48D54ILE0-0.060-0.03025.3190.1380.1380.0000.0000.0000.000
49D55LEU00.0350.02125.544-0.122-0.1220.0000.0000.0000.000
50D56PRO00.0730.03829.5000.2450.2450.0000.0000.0000.000
51D57VAL0-0.038-0.02932.508-0.215-0.2150.0000.0000.0000.000
52D58SER0-0.016-0.03233.7310.2160.2160.0000.0000.0000.000
53D59TYR00.035-0.00833.112-0.311-0.3110.0000.0000.0000.000
54D60GLN0-0.091-0.04032.313-0.008-0.0080.0000.0000.0000.000
55D61LYS10.9240.93331.3738.2098.2090.0000.0000.0000.000
56D62SER0-0.068-0.02129.689-0.464-0.4640.0000.0000.0000.000
57D63THR00.0280.00126.628-0.488-0.4880.0000.0000.0000.000
58D64GLU-1-0.837-0.89525.983-10.378-10.3780.0000.0000.0000.000
59D65VAL00.0380.01326.369-0.436-0.4360.0000.0000.0000.000
60D66LEU0-0.047-0.01921.776-0.483-0.4830.0000.0000.0000.000
61D67GLU-1-0.765-0.82520.792-15.904-15.9040.0000.0000.0000.000
62D68GLU-1-0.928-0.96221.726-12.061-12.0610.0000.0000.0000.000
63D69TYR0-0.005-0.01318.931-0.356-0.3560.0000.0000.0000.000
64D70TYR0-0.025-0.05217.426-0.947-0.9470.0000.0000.0000.000
65D71LYS10.9310.97517.06713.82713.8270.0000.0000.0000.000
66D72THR0-0.045-0.03418.736-0.284-0.2840.0000.0000.0000.000
67D73ASN0-0.052-0.01716.843-0.474-0.4740.0000.0000.0000.000
68D74ASN0-0.018-0.0088.9320.1310.1310.0000.0000.0000.000
69D75ILE0-0.015-0.00912.9200.6680.6680.0000.0000.0000.000
70D76ASP-1-0.802-0.8628.393-30.589-30.5890.0000.0000.0000.000
71D77ILE0-0.012-0.01611.2650.3970.3970.0000.0000.0000.000
72D78ALA00.0400.02614.6020.4960.4960.0000.0000.0000.000
73D79LEU0-0.039-0.01318.2640.3750.3750.0000.0000.0000.000
74D80HIS10.8700.91720.99613.54313.5430.0000.0000.0000.000
75D81LEU0-0.006-0.00324.4260.2420.2420.0000.0000.0000.000
76D82GLY00.0930.02827.7580.0380.0380.0000.0000.0000.000
77D83GLN0-0.0060.00031.2320.0730.0730.0000.0000.0000.000
78D84ALA00.0270.01434.8970.0080.0080.0000.0000.0000.000
79D85GLY00.0260.01336.6850.0740.0740.0000.0000.0000.000
80D86GLY00.0470.02240.1340.0600.0600.0000.0000.0000.000
81D87SER0-0.052-0.03236.8250.0060.0060.0000.0000.0000.000
82D88ALA00.017-0.00938.869-0.024-0.0240.0000.0000.0000.000
83D89GLY0-0.025-0.02336.1050.0650.0650.0000.0000.0000.000
84D90ILE0-0.033-0.02129.323-0.048-0.0480.0000.0000.0000.000
85D91ARG10.8600.94031.9338.7818.7810.0000.0000.0000.000
86D92LEU0-0.008-0.00726.026-0.203-0.2030.0000.0000.0000.000
87D93GLU-1-0.649-0.78027.999-9.447-9.4470.0000.0000.0000.000
88D94ARG10.9010.94825.30810.97910.9790.0000.0000.0000.000
89D95VAL0-0.014-0.00625.972-0.443-0.4430.0000.0000.0000.000
90D96ALA0-0.0070.01326.3720.1600.1600.0000.0000.0000.000
91D97ILE00.018-0.01028.241-0.235-0.2350.0000.0000.0000.000
92D98ASN00.0270.01829.807-0.017-0.0170.0000.0000.0000.000
93D99LEU0-0.005-0.00330.9100.1710.1710.0000.0000.0000.000
94D100LEU0-0.075-0.03032.454-0.126-0.1260.0000.0000.0000.000
95D101ASP-1-0.845-0.93735.856-7.482-7.4820.0000.0000.0000.000
96D102SER0-0.081-0.06039.199-0.019-0.0190.0000.0000.0000.000
97D103LYS10.8480.91541.2657.3477.3470.0000.0000.0000.000
98D104HIS0-0.033-0.00242.3400.1520.1520.0000.0000.0000.000
99D105PRO00.0550.03941.808-0.183-0.1830.0000.0000.0000.000
100D106ASP-1-0.770-0.86437.522-8.288-8.2880.0000.0000.0000.000
101D107ASN0-0.034-0.05938.1320.3280.3280.0000.0000.0000.000
102D108ASP-1-0.845-0.87237.652-8.313-8.3130.0000.0000.0000.000
103D109GLY0-0.026-0.00240.9170.1650.1650.0000.0000.0000.000
104D110GLN0-0.074-0.04939.9560.1820.1820.0000.0000.0000.000
105D111VAL00.0230.00441.045-0.128-0.1280.0000.0000.0000.000
106D112LYS10.8990.96136.8298.2298.2290.0000.0000.0000.000
107D113GLU-1-0.775-0.88340.438-7.270-7.2700.0000.0000.0000.000
108D114ASP-1-0.900-0.95239.318-7.730-7.7300.0000.0000.0000.000
109D115VAL0-0.065-0.02336.114-0.031-0.0310.0000.0000.0000.000
110D116SER00.0240.01132.822-0.114-0.1140.0000.0000.0000.000
111D117ILE0-0.077-0.02328.424-0.021-0.0210.0000.0000.0000.000
112D118ILE0-0.038-0.03325.851-0.264-0.2640.0000.0000.0000.000
113D119ASP-1-0.839-0.90629.242-9.429-9.4290.0000.0000.0000.000
114D120ASN0-0.071-0.04630.124-0.087-0.0870.0000.0000.0000.000
115D121GLY00.0000.01826.952-0.411-0.4110.0000.0000.0000.000
116D122PRO0-0.019-0.01624.8160.3890.3890.0000.0000.0000.000
117D123ASP-1-0.825-0.89728.052-9.790-9.7900.0000.0000.0000.000
118D124ALA0-0.055-0.03228.7740.1980.1980.0000.0000.0000.000
119D125TYR0-0.018-0.00121.965-0.595-0.5950.0000.0000.0000.000
120D126MET0-0.040-0.02824.2330.5470.5470.0000.0000.0000.000
121D127THR0-0.026-0.02420.641-0.754-0.7540.0000.0000.0000.000
122D128ARG10.9170.94213.20120.08720.0870.0000.0000.0000.000
123D129VAL00.0210.02217.680-0.336-0.3360.0000.0000.0000.000
124D130LYS10.9560.99318.03116.03416.0340.0000.0000.0000.000
125D131ILE00.004-0.02121.3950.4620.4620.0000.0000.0000.000
126D132LYS10.9370.95824.27710.61810.6180.0000.0000.0000.000
127D133ALA00.0480.02822.9150.4200.4200.0000.0000.0000.000
128D134VAL00.0120.02222.2900.2350.2350.0000.0000.0000.000
129D135ALA00.002-0.00824.8910.3670.3670.0000.0000.0000.000
130D136GLU-1-0.819-0.90028.147-9.098-9.0980.0000.0000.0000.000
131D137LEU00.0000.01723.6950.3470.3470.0000.0000.0000.000
132D138LEU0-0.010-0.01027.2480.3290.3290.0000.0000.0000.000
133D139LYS10.9170.96829.5499.2629.2620.0000.0000.0000.000
134D140LYS10.8520.90630.5699.5049.5040.0000.0000.0000.000
135D141LYS10.8870.95727.35210.49410.4940.0000.0000.0000.000
136D142LYS10.9090.94831.8098.1638.1630.0000.0000.0000.000
137D143ILE0-0.0090.00330.5360.1840.1840.0000.0000.0000.000
138D144PRO00.0210.00833.813-0.147-0.1470.0000.0000.0000.000
139D145ALA00.0310.03030.677-0.099-0.0990.0000.0000.0000.000
140D146PHE0-0.052-0.03332.2730.1230.1230.0000.0000.0000.000
141D147VAL0-0.0150.00128.657-0.207-0.2070.0000.0000.0000.000
142D148SER0-0.066-0.05530.6610.4560.4560.0000.0000.0000.000
143D149TYR00.040-0.00530.279-0.558-0.5580.0000.0000.0000.000
144D150THR00.0610.04032.448-0.023-0.0230.0000.0000.0000.000
145D151ALA00.0000.01430.1710.1590.1590.0000.0000.0000.000
146D152GLY00.0030.00332.3020.0490.0490.0000.0000.0000.000
147D153GLN0-0.002-0.00133.914-0.355-0.3550.0000.0000.0000.000
148D154TYR00.0280.00134.826-0.009-0.0090.0000.0000.0000.000
149D155ILE00.0310.01331.165-0.300-0.3000.0000.0000.0000.000
150D156CYS0-0.080-0.04030.224-0.359-0.3590.0000.0000.0000.000
151D157ASN00.0060.00628.841-0.626-0.6260.0000.0000.0000.000
152D158GLU-1-0.785-0.89328.488-10.248-10.2480.0000.0000.0000.000
153D159VAL00.0300.01624.982-0.502-0.5020.0000.0000.0000.000
154D160TYR0-0.102-0.06522.570-0.972-0.9720.0000.0000.0000.000
155D161TYR00.032-0.02223.675-0.778-0.7780.0000.0000.0000.000
156D162TYR00.007-0.01522.258-0.403-0.4030.0000.0000.0000.000
157D163SER0-0.031-0.02420.144-0.820-0.8200.0000.0000.0000.000
158D164LEU0-0.062-0.02419.230-1.029-1.0290.0000.0000.0000.000
159D165HIS00.1200.07619.854-0.654-0.6540.0000.0000.0000.000
160D166ARG10.8010.86515.85516.54416.5440.0000.0000.0000.000
161D167SER0-0.105-0.03714.995-0.899-0.8990.0000.0000.0000.000
162D168ASN0-0.027-0.02615.302-1.785-1.7850.0000.0000.0000.000
163D169VAL0-0.008-0.00416.749-0.726-0.7260.0000.0000.0000.000
164D170THR0-0.028-0.02915.249-0.624-0.6240.0000.0000.0000.000
165D171GLY00.0120.01611.808-1.972-1.9720.0000.0000.0000.000
166D172THR0-0.084-0.01211.467-2.730-2.7300.0000.0000.0000.000
167D173PRO00.0520.02913.3051.1621.1620.0000.0000.0000.000
168D174LYS10.8960.9397.29930.88630.8860.0000.0000.0000.000
169D175HIS0-0.059-0.02512.0991.3031.3030.0000.0000.0000.000
170D176ALA00.0670.02815.3950.0510.0510.0000.0000.0000.000
171D177LEU0-0.0360.00318.8880.3060.3060.0000.0000.0000.000
172D178PHE00.0550.03021.920-0.036-0.0360.0000.0000.0000.000
173D179VAL0-0.055-0.02525.1950.1780.1780.0000.0000.0000.000
174D180HIS0-0.010-0.01827.8390.1320.1320.0000.0000.0000.000
175D181LEU0-0.055-0.02630.052-0.029-0.0290.0000.0000.0000.000
176D182PRO00.0040.00933.5110.1480.1480.0000.0000.0000.000
177D183PHE00.0760.05236.775-0.149-0.1490.0000.0000.0000.000
178D184LEU00.001-0.00736.268-0.046-0.0460.0000.0000.0000.000
179D185PRO00.015-0.00839.9700.1120.1120.0000.0000.0000.000
180D186GLU-1-0.820-0.89041.114-7.337-7.3370.0000.0000.0000.000
181D187GLN0-0.010-0.02139.578-0.045-0.0450.0000.0000.0000.000
182D188VAL00.0090.01743.6870.0820.0820.0000.0000.0000.000
183D189ALA0-0.008-0.00646.1720.1290.1290.0000.0000.0000.000
184D190THR0-0.087-0.04447.1090.0950.0950.0000.0000.0000.000
185D191LYS10.8040.90245.0726.8366.8360.0000.0000.0000.000
186D192GLU-1-0.824-0.90950.139-6.031-6.0310.0000.0000.0000.000
187D193GLY00.0420.01253.069-0.041-0.0410.0000.0000.0000.000
188D194LYS10.9300.94753.1995.4605.4600.0000.0000.0000.000
189D195LEU0-0.010-0.00348.394-0.098-0.0980.0000.0000.0000.000
190D196GLU-1-0.909-0.94548.909-5.818-5.8180.0000.0000.0000.000
191D197LYS10.9070.94849.8715.6685.6680.0000.0000.0000.000
192D198LEU0-0.0090.00844.690-0.104-0.1040.0000.0000.0000.000
193D199PRO0-0.011-0.00341.752-0.022-0.0220.0000.0000.0000.000
194D200SER0-0.021-0.00440.557-0.078-0.0780.0000.0000.0000.000
195D201MET0-0.039-0.00935.441-0.087-0.0870.0000.0000.0000.000
196D202THR00.0250.00238.227-0.139-0.1390.0000.0000.0000.000
197D203LEU00.0740.03833.663-0.207-0.2070.0000.0000.0000.000
198D204GLU-1-0.870-0.92433.989-8.195-8.1950.0000.0000.0000.000
199D205LEU00.0000.00833.470-0.296-0.2960.0000.0000.0000.000
200D206GLN00.043-0.01132.287-0.491-0.4910.0000.0000.0000.000
201D207THR0-0.022-0.03229.487-0.376-0.3760.0000.0000.0000.000
202D208LYS10.9000.96128.6768.5888.5880.0000.0000.0000.000
203D209ALA00.0380.01428.322-0.295-0.2950.0000.0000.0000.000
204D210VAL00.0350.01524.717-0.380-0.3800.0000.0000.0000.000
205D211ARG10.9480.98424.0599.6379.6370.0000.0000.0000.000
206D212LEU0-0.0100.00023.613-0.380-0.3800.0000.0000.0000.000
207D213ILE00.0060.00621.070-0.393-0.3930.0000.0000.0000.000
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