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: LRJG9

Calculation Name: 6SF7-A-Xray547

Preferred Name:

Target Type:

Ligand Name: sulfate ion | tetraethylene glycol | di(hydroxyethyl)ether | 1,2-ethanediol

Ligand 3-letter code: SO4 | PG4 | PEG | EDO

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 6SF7

Chain ID: A

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 203
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2268918.622994
FMO2-HF: Nuclear repulsion 2192938.795142
FMO2-HF: Total energy -75979.827852
FMO2-MP2: Total energy -76204.779438


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:GLU)


Summations of interaction energy for fragment #1(A:1:GLU)
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.
-14.183-11.1820.008-0.999-2.0090
Interaction energy analysis for fragmet #1(A:1:GLU)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.118 / q_NPA : -0.063
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].
3A3THR0-0.030-0.0083.3006.2688.5760.011-0.858-1.4600.000
134A134THR00.0400.0173.712-1.487-1.2000.000-0.031-0.2560.000
135A135GLY00.0570.0133.872-2.457-2.378-0.001-0.065-0.0140.000
136A136LYS10.8410.9374.15520.23220.486-0.001-0.026-0.2270.000
148A148ASP-1-0.822-0.9254.575-27.577-27.504-0.001-0.019-0.0520.000
4A4VAL00.0590.0235.512-2.135-2.1350.0000.0000.0000.000
5A5LYS10.9670.9869.291-3.614-3.6140.0000.0000.0000.000
6A6GLN00.0110.01911.454-0.425-0.4250.0000.0000.0000.000
7A7ILE0-0.034-0.02113.4040.5000.5000.0000.0000.0000.000
8A8THR00.0220.01316.646-0.200-0.2000.0000.0000.0000.000
9A9ASN00.031-0.00219.147-0.361-0.3610.0000.0000.0000.000
10A10THR00.011-0.00419.8980.1100.1100.0000.0000.0000.000
11A11ASN00.0220.00021.305-0.201-0.2010.0000.0000.0000.000
12A12VAL0-0.0040.01019.044-0.077-0.0770.0000.0000.0000.000
13A13ALA00.0320.03620.415-0.068-0.0680.0000.0000.0000.000
14A14PRO0-0.004-0.01315.0700.2400.2400.0000.0000.0000.000
15A15TYR0-0.002-0.03512.543-0.153-0.1530.0000.0000.0000.000
16A16SER0-0.0060.00118.883-0.186-0.1860.0000.0000.0000.000
17A17GLY00.0340.02921.488-0.064-0.0640.0000.0000.0000.000
18A18VAL0-0.034-0.01218.346-0.154-0.1540.0000.0000.0000.000
19A19THR0-0.034-0.05821.8050.1100.1100.0000.0000.0000.000
20A20TRP0-0.027-0.01623.910-0.058-0.0580.0000.0000.0000.000
21A21MET00.0130.02325.8380.1040.1040.0000.0000.0000.000
22A22GLY00.0430.02328.370-0.016-0.0160.0000.0000.0000.000
23A23ALA0-0.005-0.00328.820-0.006-0.0060.0000.0000.0000.000
24A24GLY00.0230.01024.568-0.111-0.1110.0000.0000.0000.000
25A25THR0-0.043-0.00419.7490.1990.1990.0000.0000.0000.000
26A26GLY00.0700.03923.012-0.093-0.0930.0000.0000.0000.000
27A27PHE0-0.015-0.01521.0640.0770.0770.0000.0000.0000.000
28A28VAL0-0.0130.00923.268-0.058-0.0580.0000.0000.0000.000
29A29VAL00.007-0.00424.4950.0210.0210.0000.0000.0000.000
30A30GLY00.0170.01026.7340.0310.0310.0000.0000.0000.000
31A31ASN0-0.079-0.06430.0000.0640.0640.0000.0000.0000.000
32A32HIS0-0.039-0.01432.5030.0610.0610.0000.0000.0000.000
33A33THR00.003-0.01130.262-0.041-0.0410.0000.0000.0000.000
34A34ILE0-0.006-0.01426.5350.0380.0380.0000.0000.0000.000
35A35ILE00.0130.01723.753-0.032-0.0320.0000.0000.0000.000
36A36THR00.015-0.01524.3770.0080.0080.0000.0000.0000.000
37A37ASN0-0.012-0.01523.7450.0480.0480.0000.0000.0000.000
38A38LYS10.8710.94025.8501.0841.0840.0000.0000.0000.000
39A39ALA0-0.0150.00826.0950.0700.0700.0000.0000.0000.000
40A40VAL0-0.029-0.00225.7360.0770.0770.0000.0000.0000.000
41A41THR00.018-0.04228.6840.0560.0560.0000.0000.0000.000
42A42TYR0-0.034-0.00431.6950.0610.0610.0000.0000.0000.000
43A43HIS0-0.109-0.05630.8390.0500.0500.0000.0000.0000.000
44A44MET0-0.049-0.00631.6800.0310.0310.0000.0000.0000.000
45A45LYS10.9260.97735.3050.2580.2580.0000.0000.0000.000
46A46VAL00.0190.00337.7200.0140.0140.0000.0000.0000.000
47A47GLY0-0.029-0.01839.4950.0080.0080.0000.0000.0000.000
48A48ASP-1-0.831-0.91735.974-0.281-0.2810.0000.0000.0000.000
49A49GLU-1-0.823-0.90034.898-0.061-0.0610.0000.0000.0000.000
50A50ILE00.0170.02629.291-0.030-0.0300.0000.0000.0000.000
51A51LYS10.8330.91928.2260.0850.0850.0000.0000.0000.000
52A52ALA00.0230.01627.159-0.041-0.0410.0000.0000.0000.000
53A53HIS10.8300.93322.774-0.365-0.3650.0000.0000.0000.000
54A54PRO0-0.0300.00224.2750.1200.1200.0000.0000.0000.000
55A55ASN0-0.005-0.01120.921-0.081-0.0810.0000.0000.0000.000
56A56GLY00.0240.02324.1900.0480.0480.0000.0000.0000.000
57A57PHE00.001-0.01125.749-0.078-0.0780.0000.0000.0000.000
58A58TYR0-0.013-0.01329.1300.0370.0370.0000.0000.0000.000
59A59ASN00.0510.05127.8840.0050.0050.0000.0000.0000.000
60A60ASN00.023-0.01729.780-0.029-0.0290.0000.0000.0000.000
61A61GLY00.0740.05627.489-0.023-0.0230.0000.0000.0000.000
62A62GLY0-0.004-0.00328.1160.0300.0300.0000.0000.0000.000
63A63GLY0-0.023-0.01329.771-0.004-0.0040.0000.0000.0000.000
64A64LEU0-0.037-0.01631.391-0.025-0.0250.0000.0000.0000.000
65A65TYR0-0.013-0.01531.8280.0400.0400.0000.0000.0000.000
66A66LYS10.9000.96234.5690.0810.0810.0000.0000.0000.000
67A67VAL00.0200.01033.8370.0100.0100.0000.0000.0000.000
68A68THR0-0.008-0.01036.455-0.009-0.0090.0000.0000.0000.000
69A69LYS10.8700.94236.8920.3340.3340.0000.0000.0000.000
70A70ILE00.0190.00533.582-0.005-0.0050.0000.0000.0000.000
71A71VAL0-0.0120.00133.7580.0180.0180.0000.0000.0000.000
72A72ASP-1-0.785-0.87331.768-0.751-0.7510.0000.0000.0000.000
73A73TYR0-0.069-0.02929.2130.0600.0600.0000.0000.0000.000
74A74PRO00.005-0.00931.614-0.034-0.0340.0000.0000.0000.000
75A75GLY00.0110.02631.4970.0050.0050.0000.0000.0000.000
76A76LYS10.8750.90427.6981.3371.3370.0000.0000.0000.000
77A77GLU-1-0.799-0.88125.292-1.372-1.3720.0000.0000.0000.000
78A78ASP-1-0.771-0.89524.265-1.253-1.2530.0000.0000.0000.000
79A79ILE0-0.040-0.02524.157-0.078-0.0780.0000.0000.0000.000
80A80ALA00.0250.01126.3890.0580.0580.0000.0000.0000.000
81A81VAL0-0.025-0.00827.975-0.019-0.0190.0000.0000.0000.000
82A82VAL0-0.001-0.00330.3660.0200.0200.0000.0000.0000.000
83A83GLN0-0.074-0.05031.7010.0420.0420.0000.0000.0000.000
84A84VAL00.0040.00032.588-0.007-0.0070.0000.0000.0000.000
85A85GLU-1-0.888-0.94035.329-0.074-0.0740.0000.0000.0000.000
86A86GLU-1-0.805-0.90136.2010.1210.1210.0000.0000.0000.000
87A87LYS10.9440.96536.679-0.023-0.0230.0000.0000.0000.000
88A88SER00.016-0.00135.882-0.020-0.0200.0000.0000.0000.000
89A89THR0-0.049-0.04137.1830.0130.0130.0000.0000.0000.000
90A90GLN0-0.014-0.00937.0560.0280.0280.0000.0000.0000.000
91A91PRO00.0660.03635.115-0.003-0.0030.0000.0000.0000.000
92A92LYS10.7770.89438.193-0.105-0.1050.0000.0000.0000.000
93A93GLY00.0340.00739.8720.0220.0220.0000.0000.0000.000
94A94ARG10.8630.95232.113-0.297-0.2970.0000.0000.0000.000
95A95LYS10.8450.91535.970-0.180-0.1800.0000.0000.0000.000
96A96PHE00.0650.01628.9770.0480.0480.0000.0000.0000.000
97A97LYS10.8720.93430.945-0.193-0.1930.0000.0000.0000.000
98A98ASP-1-0.877-0.91331.0150.3110.3110.0000.0000.0000.000
99A99PHE0-0.036-0.02229.8070.0670.0670.0000.0000.0000.000
100A100THR0-0.036-0.02526.4300.0000.0000.0000.0000.0000.000
101A101SER0-0.022-0.02322.8820.0400.0400.0000.0000.0000.000
102A102LYS10.8840.94024.573-0.135-0.1350.0000.0000.0000.000
103A103PHE0-0.016-0.00817.4090.0740.0740.0000.0000.0000.000
104A104ASN00.0000.00521.943-0.093-0.0930.0000.0000.0000.000
105A105ILE0-0.011-0.00821.030-0.065-0.0650.0000.0000.0000.000
106A106ALA00.0490.03817.7260.1070.1070.0000.0000.0000.000
107A107SER0-0.010-0.00519.750-0.067-0.0670.0000.0000.0000.000
108A108GLU-1-0.838-0.90918.251-1.530-1.5300.0000.0000.0000.000
109A109ALA00.0060.00314.1370.0130.0130.0000.0000.0000.000
110A110LYS10.8140.88513.8851.9331.9330.0000.0000.0000.000
111A111GLU-1-0.822-0.91811.777-4.808-4.8080.0000.0000.0000.000
112A112ASN0-0.043-0.0277.883-1.320-1.3200.0000.0000.0000.000
113A113GLU-1-0.853-0.9077.489-3.732-3.7320.0000.0000.0000.000
114A114PRO0-0.003-0.0175.736-1.777-1.7770.0000.0000.0000.000
115A115ILE0-0.047-0.0166.6512.2402.2400.0000.0000.0000.000
116A116SER0-0.051-0.0497.663-0.887-0.8870.0000.0000.0000.000
117A117VAL00.0250.0209.9440.0090.0090.0000.0000.0000.000
118A118ILE0-0.004-0.00712.3800.4190.4190.0000.0000.0000.000
119A119GLY00.0380.00314.946-0.121-0.1210.0000.0000.0000.000
120A120TYR0-0.049-0.04817.7800.1900.1900.0000.0000.0000.000
121A121PRO00.0040.01616.590-0.097-0.0970.0000.0000.0000.000
122A122ASN00.0210.00118.954-0.115-0.1150.0000.0000.0000.000
123A123PRO00.0350.03422.3960.1360.1360.0000.0000.0000.000
124A124ASN00.0470.01624.9760.0520.0520.0000.0000.0000.000
125A125GLY0-0.0110.00026.4110.0570.0570.0000.0000.0000.000
126A126ASN0-0.002-0.02026.6460.0330.0330.0000.0000.0000.000
127A127LYS0-0.050-0.02122.6360.0460.0460.0000.0000.0000.000
128A128LEU00.0240.01324.188-0.015-0.0150.0000.0000.0000.000
129A129GLN00.0190.02819.5840.2220.2220.0000.0000.0000.000
130A130MET00.0050.01817.110-0.096-0.0960.0000.0000.0000.000
131A131TYR0-0.008-0.02113.5590.2570.2570.0000.0000.0000.000
132A132GLU-1-0.835-0.8779.7541.3701.3700.0000.0000.0000.000
133A133SER0-0.045-0.0348.8500.2590.2590.0000.0000.0000.000
137A137VAL00.0070.0045.6470.9040.9040.0000.0000.0000.000
138A138LEU0-0.112-0.0597.366-0.885-0.8850.0000.0000.0000.000
139A139SER00.0250.02210.3820.4820.4820.0000.0000.0000.000
140A140VAL0-0.024-0.01414.065-0.018-0.0180.0000.0000.0000.000
141A141ASN0-0.027-0.00916.8190.3490.3490.0000.0000.0000.000
142A142GLY00.0430.03020.3640.0530.0530.0000.0000.0000.000
143A143ASN0-0.041-0.02922.158-0.058-0.0580.0000.0000.0000.000
144A144ILE0-0.021-0.00118.1200.0240.0240.0000.0000.0000.000
145A145VAL00.0040.01113.469-0.075-0.0750.0000.0000.0000.000
146A146SER0-0.030-0.02613.387-0.139-0.1390.0000.0000.0000.000
147A147SER00.003-0.0048.986-0.349-0.3490.0000.0000.0000.000
149A149ALA00.0080.0156.702-1.387-1.3870.0000.0000.0000.000
150A150ILE0-0.0200.0108.0541.2181.2180.0000.0000.0000.000
151A151ILE0-0.0010.01410.3880.9410.9410.0000.0000.0000.000
152A152GLN00.0340.01714.070-0.028-0.0280.0000.0000.0000.000
153A153PRO00.0340.03317.626-0.008-0.0080.0000.0000.0000.000
154A154GLY0-0.0080.00120.5740.0480.0480.0000.0000.0000.000
155A155SER0-0.045-0.04217.6190.1680.1680.0000.0000.0000.000
156A156SER00.0310.03519.616-0.092-0.0920.0000.0000.0000.000
157A157GLY00.0200.01321.8330.1740.1740.0000.0000.0000.000
158A158SER0-0.042-0.04917.4280.2180.2180.0000.0000.0000.000
159A159PRO0-0.0170.01117.166-0.239-0.2390.0000.0000.0000.000
160A160ILE00.000-0.00311.278-0.130-0.1300.0000.0000.0000.000
161A161LEU0-0.048-0.01613.1280.3800.3800.0000.0000.0000.000
162A162ASN00.0720.02311.809-0.395-0.3950.0000.0000.0000.000
163A163SER00.0380.0139.8980.7130.7130.0000.0000.0000.000
164A164LYS10.9190.96911.2220.3630.3630.0000.0000.0000.000
165A165HIS10.8860.94013.854-0.878-0.8780.0000.0000.0000.000
166A166GLU-1-0.864-0.91515.209-0.183-0.1830.0000.0000.0000.000
167A167ALA00.002-0.01116.333-0.295-0.2950.0000.0000.0000.000
168A168ILE00.011-0.00412.7000.1040.1040.0000.0000.0000.000
169A169GLY00.032-0.00217.062-0.105-0.1050.0000.0000.0000.000
170A170VAL0-0.045-0.00618.3660.1190.1190.0000.0000.0000.000
171A171ILE0-0.010-0.00714.206-0.168-0.1680.0000.0000.0000.000
172A172TYR00.004-0.00118.3780.2380.2380.0000.0000.0000.000
173A173ALA0-0.0060.00518.8420.1720.1720.0000.0000.0000.000
174A174GLY00.0680.02415.735-0.371-0.3710.0000.0000.0000.000
175A175ASN0-0.059-0.03813.2750.2990.2990.0000.0000.0000.000
176A176LYS00.0000.04816.2900.2300.2300.0000.0000.0000.000
177A177PRO00.021-0.00418.2410.1110.1110.0000.0000.0000.000
178A178SER0-0.016-0.02421.0490.1290.1290.0000.0000.0000.000
179A179GLY00.003-0.02119.9600.2300.2300.0000.0000.0000.000
180A180GLU-1-0.917-0.95813.610-2.433-2.4330.0000.0000.0000.000
181A181SER0-0.0280.00714.426-0.184-0.1840.0000.0000.0000.000
182A182THR00.0240.0009.879-0.155-0.1550.0000.0000.0000.000
183A183ARG10.9350.9649.2644.8744.8740.0000.0000.0000.000
184A184GLY00.0510.03711.2751.0501.0500.0000.0000.0000.000
185A185PHE0-0.038-0.03113.166-0.617-0.6170.0000.0000.0000.000
186A186ALA00.0500.01716.0380.3280.3280.0000.0000.0000.000
187A187VAL0-0.0100.00217.837-0.084-0.0840.0000.0000.0000.000
188A188TYR00.008-0.00117.8040.0150.0150.0000.0000.0000.000
189A189PHE0-0.027-0.00919.7270.2070.2070.0000.0000.0000.000
190A190SER00.0450.00021.7800.0910.0910.0000.0000.0000.000
191A191PRO00.014-0.02323.8400.0880.0880.0000.0000.0000.000
192A192GLU-1-0.867-0.90927.274-1.060-1.0600.0000.0000.0000.000
193A193ILE00.0230.01724.3920.0800.0800.0000.0000.0000.000
194A194LYS10.8300.90122.7221.0411.0410.0000.0000.0000.000
195A195LYS10.8570.91226.9850.6250.6250.0000.0000.0000.000
196A196PHE00.0200.01328.7320.0630.0630.0000.0000.0000.000
197A197ILE00.0370.02225.2130.0570.0570.0000.0000.0000.000
198A198ALA0-0.007-0.00529.5680.0720.0720.0000.0000.0000.000
199A199ASP-1-0.873-0.92431.667-0.441-0.4410.0000.0000.0000.000
200A200ASN0-0.049-0.03732.6970.0570.0570.0000.0000.0000.000
201A201LEU0-0.008-0.00129.8630.0150.0150.0000.0000.0000.000
202A202ASP-1-0.800-0.87132.952-0.104-0.1040.0000.0000.0000.000
203A203LYS00.0560.07135.4190.0240.0240.0000.0000.0000.000