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: KKVV3

Calculation Name: 1B48-A-Xray547

Preferred Name:

Target Type:

Ligand Name: 4-s-glutathionyl-5-pentyl-tetrahydro-furan-2-ol | glutathione

Ligand 3-letter code: HAG | GSH

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1B48

Chain ID: A

ChEMBL ID:

UniProt ID: P24472

Base Structure: X-ray

Registration Date: 2025-09-02

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 221
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2782498.560146
FMO2-HF: Nuclear repulsion 2693449.947945
FMO2-HF: Total energy -89048.612201
FMO2-MP2: Total energy -89308.154917


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:2:ALA)


Summations of interaction energy for fragment #1(A:2:ALA)
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.
-20.484-19.2750-0.483-0.727-0.001
Interaction energy analysis for fragmet #1(A:2:ALA)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.856 / q_NPA : 0.918
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].
3A4LYS10.9711.0053.81841.53742.7460.000-0.483-0.727-0.001
4A5PRO0-0.014-0.0035.6423.1923.1920.0000.0000.0000.000
5A6LYS10.8550.9359.22727.00427.0040.0000.0000.0000.000
6A7LEU0-0.024-0.01710.7791.7091.7090.0000.0000.0000.000
7A8TYR0-0.005-0.03012.4160.9050.9050.0000.0000.0000.000
8A9TYR0-0.017-0.02817.1871.0321.0320.0000.0000.0000.000
9A10PHE00.0350.02020.537-0.112-0.1120.0000.0000.0000.000
10A11ASN00.0600.02622.179-0.740-0.7400.0000.0000.0000.000
11A12GLY00.0730.04323.251-0.002-0.0020.0000.0000.0000.000
12A13ARG10.7440.83623.86110.96110.9610.0000.0000.0000.000
13A14GLY00.000-0.00124.484-0.436-0.4360.0000.0000.0000.000
14A15ARG10.9160.93725.12811.81911.8190.0000.0000.0000.000
15A16MET00.0110.03518.013-0.248-0.2480.0000.0000.0000.000
16A17GLU-1-0.739-0.85620.509-14.799-14.7990.0000.0000.0000.000
17A18SER00.0490.02121.288-0.614-0.6140.0000.0000.0000.000
18A19ILE0-0.067-0.03616.836-0.301-0.3010.0000.0000.0000.000
19A20ARG10.7970.89616.78214.99314.9930.0000.0000.0000.000
20A21TRP00.0150.00717.292-0.594-0.5940.0000.0000.0000.000
21A22LEU0-0.069-0.02517.466-0.165-0.1650.0000.0000.0000.000
22A23LEU0-0.028-0.01412.079-0.376-0.3760.0000.0000.0000.000
23A24ALA00.0350.02414.252-0.664-0.6640.0000.0000.0000.000
24A25ALA0-0.046-0.03516.0140.0140.0140.0000.0000.0000.000
25A26ALA0-0.016-0.00914.3620.3690.3690.0000.0000.0000.000
26A27GLY0-0.038-0.01213.550-0.368-0.3680.0000.0000.0000.000
27A28VAL0-0.070-0.0298.783-1.842-1.8420.0000.0000.0000.000
28A29GLU-1-0.948-0.9727.955-28.669-28.6690.0000.0000.0000.000
29A30PHE0-0.022-0.0438.612-2.228-2.2280.0000.0000.0000.000
30A31GLU-1-0.835-0.8957.541-36.995-36.9950.0000.0000.0000.000
31A32GLU-1-0.803-0.93411.072-17.953-17.9530.0000.0000.0000.000
32A33GLU-1-0.900-0.92814.179-20.155-20.1550.0000.0000.0000.000
33A34PHE00.021-0.00715.8910.6130.6130.0000.0000.0000.000
34A35LEU0-0.073-0.03219.6990.1310.1310.0000.0000.0000.000
35A36GLU-1-0.936-0.96522.555-13.129-13.1290.0000.0000.0000.000
36A37THR00.011-0.01525.3300.6830.6830.0000.0000.0000.000
37A38ARG10.8540.92426.2159.2469.2460.0000.0000.0000.000
38A39GLU-1-0.829-0.91127.276-11.018-11.0180.0000.0000.0000.000
39A40GLN00.0180.00820.5280.3170.3170.0000.0000.0000.000
40A41TYR0-0.020-0.02522.812-0.318-0.3180.0000.0000.0000.000
41A42GLU-1-0.859-0.94224.496-10.710-10.7100.0000.0000.0000.000
42A43LYS10.9090.95122.58212.42812.4280.0000.0000.0000.000
43A44MET00.0300.02619.185-0.489-0.4890.0000.0000.0000.000
44A45GLN0-0.034-0.02421.247-0.183-0.1830.0000.0000.0000.000
45A46LYS10.9230.95924.04011.13811.1380.0000.0000.0000.000
46A47ASP-1-0.874-0.91419.518-15.498-15.4980.0000.0000.0000.000
47A48GLY0-0.012-0.00220.402-0.567-0.5670.0000.0000.0000.000
48A49HIS10.8030.88617.10617.18317.1830.0000.0000.0000.000
49A50LEU0-0.0160.00519.186-0.390-0.3900.0000.0000.0000.000
50A51LEU00.0350.01021.0300.5700.5700.0000.0000.0000.000
51A52PHE00.003-0.00323.9690.4340.4340.0000.0000.0000.000
52A53GLY00.0340.02425.6330.3350.3350.0000.0000.0000.000
53A54GLN0-0.0130.01125.2010.1930.1930.0000.0000.0000.000
54A55VAL00.0620.04320.998-0.467-0.4670.0000.0000.0000.000
55A56PRO0-0.055-0.05820.4470.6690.6690.0000.0000.0000.000
56A57LEU00.0140.02716.2410.2920.2920.0000.0000.0000.000
57A58VAL00.001-0.00813.544-0.476-0.4760.0000.0000.0000.000
58A59GLU-1-0.865-0.8978.993-30.742-30.7420.0000.0000.0000.000
59A60ILE00.000-0.0199.472-2.180-2.1800.0000.0000.0000.000
60A61ASP-1-0.821-0.9068.372-27.742-27.7420.0000.0000.0000.000
61A62GLY00.0010.0139.0071.0081.0080.0000.0000.0000.000
62A63MET0-0.032-0.00510.0142.4372.4370.0000.0000.0000.000
63A64MET00.0190.00512.575-0.884-0.8840.0000.0000.0000.000
64A65LEU0-0.0150.00715.2331.5411.5410.0000.0000.0000.000
65A66THR00.027-0.00517.551-0.339-0.3390.0000.0000.0000.000
66A67GLN0-0.0040.00120.5680.4380.4380.0000.0000.0000.000
67A68THR00.0510.00822.6180.2380.2380.0000.0000.0000.000
68A69ARG10.8930.93622.67710.72510.7250.0000.0000.0000.000
69A70ALA00.0330.03222.6960.0110.0110.0000.0000.0000.000
70A71ILE00.0110.00917.264-0.412-0.4120.0000.0000.0000.000
71A72LEU00.0170.00418.934-0.577-0.5770.0000.0000.0000.000
72A73SER0-0.034-0.02220.598-0.006-0.0060.0000.0000.0000.000
73A74TYR0-0.042-0.03612.5470.6580.6580.0000.0000.0000.000
74A75LEU00.0170.00414.661-0.537-0.5370.0000.0000.0000.000
75A76ALA00.0280.01616.756-0.268-0.2680.0000.0000.0000.000
76A77ALA0-0.039-0.01119.5250.3460.3460.0000.0000.0000.000
77A78LYS10.8470.9309.40727.91927.9190.0000.0000.0000.000
78A79TYR0-0.006-0.01710.468-1.306-1.3060.0000.0000.0000.000
79A80ASN0-0.045-0.00915.7760.6620.6620.0000.0000.0000.000
80A81LEU00.0290.02418.2010.5110.5110.0000.0000.0000.000
81A82TYR0-0.088-0.09121.3180.3880.3880.0000.0000.0000.000
82A83GLY00.0170.01223.9560.3830.3830.0000.0000.0000.000
83A84LYS10.8780.92825.1689.2409.2400.0000.0000.0000.000
84A85ASP-1-0.830-0.92027.366-9.668-9.6680.0000.0000.0000.000
85A86LEU00.047-0.00128.454-0.148-0.1480.0000.0000.0000.000
86A87LYS10.9360.97630.5968.7738.7730.0000.0000.0000.000
87A88GLU-1-0.864-0.92029.500-9.969-9.9690.0000.0000.0000.000
88A89ARG10.8850.94525.59811.85911.8590.0000.0000.0000.000
89A90VAL00.0350.00828.547-0.082-0.0820.0000.0000.0000.000
90A91ARG10.8990.96031.5669.2479.2470.0000.0000.0000.000
91A92ILE0-0.014-0.00125.9920.0580.0580.0000.0000.0000.000
92A93ASP-1-0.804-0.86427.639-11.594-11.5940.0000.0000.0000.000
93A94MET0-0.032-0.01429.7780.1490.1490.0000.0000.0000.000
94A95TYR00.0190.01030.9080.1710.1710.0000.0000.0000.000
95A96ALA00.0170.01427.3380.0210.0210.0000.0000.0000.000
96A97ASP-1-0.889-0.91229.302-9.965-9.9650.0000.0000.0000.000
97A98GLY00.0430.02631.8340.0460.0460.0000.0000.0000.000
98A99THR0-0.032-0.03730.325-0.002-0.0020.0000.0000.0000.000
99A100GLN00.0210.01227.095-0.409-0.4090.0000.0000.0000.000
100A101ASP-1-0.894-0.94530.874-9.057-9.0570.0000.0000.0000.000
101A102LEU0-0.051-0.03734.2500.1290.1290.0000.0000.0000.000
102A103MET00.0160.00626.5710.1460.1460.0000.0000.0000.000
103A104MET0-0.041-0.00630.960-0.285-0.2850.0000.0000.0000.000
104A105MET0-0.035-0.00832.9230.0480.0480.0000.0000.0000.000
105A106ILE00.0150.00733.0680.1670.1670.0000.0000.0000.000
106A107ALA0-0.028-0.01230.6240.0160.0160.0000.0000.0000.000
107A108VAL0-0.029-0.02632.451-0.047-0.0470.0000.0000.0000.000
108A109ALA00.0310.02835.2450.1860.1860.0000.0000.0000.000
109A110PRO0-0.020-0.01633.9160.2640.2640.0000.0000.0000.000
110A111PHE0-0.031-0.02431.7270.1340.1340.0000.0000.0000.000
111A112LYS10.9200.99037.7567.9527.9520.0000.0000.0000.000
112A113THR00.0190.00041.399-0.056-0.0560.0000.0000.0000.000
113A114PRO0-0.038-0.05044.091-0.019-0.0190.0000.0000.0000.000
114A115LYS10.8850.93645.4176.5396.5390.0000.0000.0000.000
115A116GLU-1-0.771-0.90444.507-7.148-7.1480.0000.0000.0000.000
116A117LYS10.8190.96339.9317.9517.9510.0000.0000.0000.000
117A118GLU-1-0.899-0.92643.471-6.666-6.6660.0000.0000.0000.000
118A119GLU-1-0.750-0.85045.585-6.676-6.6760.0000.0000.0000.000
119A120SER0-0.097-0.08241.820-0.114-0.1140.0000.0000.0000.000
120A121TYR00.0300.00637.399-0.264-0.2640.0000.0000.0000.000
121A122ASP-1-0.822-0.90342.162-6.941-6.9410.0000.0000.0000.000
122A123LEU0-0.078-0.02342.7380.0070.0070.0000.0000.0000.000
123A124ILE0-0.006-0.00637.950-0.041-0.0410.0000.0000.0000.000
124A125LEU00.0530.01840.226-0.060-0.0600.0000.0000.0000.000
125A126SER0-0.072-0.03642.3120.0560.0560.0000.0000.0000.000
126A127ARG10.9490.98440.9967.6327.6320.0000.0000.0000.000
127A128ALA00.0130.00438.788-0.006-0.0060.0000.0000.0000.000
128A129LYS10.9170.94640.2167.1277.1270.0000.0000.0000.000
129A130THR0-0.027-0.02343.0030.1050.1050.0000.0000.0000.000
130A131ARG10.8840.94641.3517.4317.4310.0000.0000.0000.000
131A132TYR00.0260.00337.3960.0010.0010.0000.0000.0000.000
132A133PHE00.0190.01935.382-0.073-0.0730.0000.0000.0000.000
133A134PRO00.0540.02439.729-0.040-0.0400.0000.0000.0000.000
134A135VAL0-0.0310.00139.3880.0720.0720.0000.0000.0000.000
135A136PHE00.023-0.00734.031-0.057-0.0570.0000.0000.0000.000
136A137GLU-1-0.795-0.90437.678-7.696-7.6960.0000.0000.0000.000
137A138LYS10.8290.89239.8667.1217.1210.0000.0000.0000.000
138A139ILE0-0.020-0.00236.1780.0530.0530.0000.0000.0000.000
139A140LEU00.0220.00233.7530.0040.0040.0000.0000.0000.000
140A141LYS10.8920.95237.7707.0817.0810.0000.0000.0000.000
141A142ASP-1-0.875-0.90541.271-7.124-7.1240.0000.0000.0000.000
142A143HIS0-0.056-0.04034.1680.1370.1370.0000.0000.0000.000
143A144GLY00.0090.03038.472-0.074-0.0740.0000.0000.0000.000
144A145GLU-1-0.854-0.91733.139-9.164-9.1640.0000.0000.0000.000
145A146ALA0-0.036-0.00830.726-0.038-0.0380.0000.0000.0000.000
146A147PHE0-0.012-0.01026.319-0.189-0.1890.0000.0000.0000.000
147A148LEU00.0230.01130.4680.2880.2880.0000.0000.0000.000
148A149VAL0-0.066-0.03927.9410.2400.2400.0000.0000.0000.000
149A150GLY00.0340.01730.4350.3210.3210.0000.0000.0000.000
150A151ASN0-0.100-0.07030.252-0.268-0.2680.0000.0000.0000.000
151A152GLN00.0220.00322.955-0.442-0.4420.0000.0000.0000.000
152A153LEU0-0.0170.01021.0830.2910.2910.0000.0000.0000.000
153A154SER0-0.018-0.04423.149-0.360-0.3600.0000.0000.0000.000
154A155TRP00.050-0.00922.072-0.093-0.0930.0000.0000.0000.000
155A156ALA00.0060.00023.8810.0760.0760.0000.0000.0000.000
156A157ASP-1-0.756-0.85525.968-10.688-10.6880.0000.0000.0000.000
157A158ILE0-0.0120.00021.4190.1500.1500.0000.0000.0000.000
158A159GLN00.016-0.00724.862-0.262-0.2620.0000.0000.0000.000
159A160LEU0-0.0180.00327.0530.3020.3020.0000.0000.0000.000
160A161LEU0-0.020-0.00626.3920.2820.2820.0000.0000.0000.000
161A162GLU-1-0.791-0.92924.785-12.589-12.5890.0000.0000.0000.000
162A163ALA00.009-0.00927.6350.2720.2720.0000.0000.0000.000
163A164ILE0-0.037-0.01531.0520.3160.3160.0000.0000.0000.000
164A165LEU0-0.007-0.00627.7590.2200.2200.0000.0000.0000.000
165A166MET0-0.041-0.00929.3670.0490.0490.0000.0000.0000.000
166A167VAL0-0.0010.00331.8670.2320.2320.0000.0000.0000.000
167A168GLU-1-0.803-0.88934.284-8.795-8.7950.0000.0000.0000.000
168A169GLU-1-0.802-0.87829.950-10.533-10.5330.0000.0000.0000.000
169A170LEU0-0.049-0.01034.8860.0970.0970.0000.0000.0000.000
170A171SER0-0.007-0.01138.3410.3390.3390.0000.0000.0000.000
171A172ALA00.0400.02638.247-0.014-0.0140.0000.0000.0000.000
172A173PRO00.001-0.00239.294-0.072-0.0720.0000.0000.0000.000
173A174VAL0-0.020-0.00538.7640.1320.1320.0000.0000.0000.000
174A175LEU00.0140.00035.8670.0590.0590.0000.0000.0000.000
175A176SER0-0.064-0.02839.9310.0560.0560.0000.0000.0000.000
176A177ASP-1-0.893-0.95243.147-6.906-6.9060.0000.0000.0000.000
177A178PHE0-0.044-0.00840.3410.0510.0510.0000.0000.0000.000
178A179PRO00.0380.01440.209-0.221-0.2210.0000.0000.0000.000
179A180LEU0-0.025-0.02338.462-0.150-0.1500.0000.0000.0000.000
180A181LEU0-0.0020.00635.793-0.312-0.3120.0000.0000.0000.000
181A182GLN0-0.0160.00035.383-0.264-0.2640.0000.0000.0000.000
182A183ALA0-0.005-0.00135.526-0.235-0.2350.0000.0000.0000.000
183A184PHE0-0.035-0.01129.536-0.252-0.2520.0000.0000.0000.000
184A185LYS10.8940.91431.3468.7388.7380.0000.0000.0000.000
185A186THR0-0.049-0.02230.563-0.387-0.3870.0000.0000.0000.000
186A187ARG10.8830.93830.0309.3279.3270.0000.0000.0000.000
187A188ILE00.0080.00325.848-0.366-0.3660.0000.0000.0000.000
188A189SER0-0.010-0.02425.865-0.584-0.5840.0000.0000.0000.000
189A190ASN0-0.033-0.01826.177-0.351-0.3510.0000.0000.0000.000
190A191ILE00.0030.02421.524-0.093-0.0930.0000.0000.0000.000
191A192PRO00.008-0.00420.189-0.258-0.2580.0000.0000.0000.000
192A193THR00.0330.02016.0290.1840.1840.0000.0000.0000.000
193A194ILE00.0080.02318.814-0.310-0.3100.0000.0000.0000.000
194A195LYS10.9160.95621.61811.19911.1990.0000.0000.0000.000
195A196LYS10.9330.96117.34416.37716.3770.0000.0000.0000.000
196A197PHE00.0320.01317.868-0.296-0.2960.0000.0000.0000.000
197A198LEU0-0.016-0.00620.0620.2430.2430.0000.0000.0000.000
198A199GLN0-0.047-0.00321.4920.8750.8750.0000.0000.0000.000
199A200PRO00.018-0.01122.732-0.451-0.4510.0000.0000.0000.000
200A201GLY0-0.0180.00221.5460.2480.2480.0000.0000.0000.000
201A202SER0-0.096-0.04918.478-0.896-0.8960.0000.0000.0000.000
202A203GLN00.009-0.01413.0790.3060.3060.0000.0000.0000.000
203A204ARG10.8640.95518.45612.04112.0410.0000.0000.0000.000
204A205LYS10.7900.92020.08715.68615.6860.0000.0000.0000.000
205A206PRO00.0180.01923.9300.3180.3180.0000.0000.0000.000
206A207PRO0-0.006-0.01927.681-0.198-0.1980.0000.0000.0000.000
207A208PRO0-0.040-0.00730.327-0.068-0.0680.0000.0000.0000.000
208A209ASP-1-0.814-0.91430.130-10.286-10.2860.0000.0000.0000.000
209A210GLY00.0020.00033.2810.0580.0580.0000.0000.0000.000
210A211PRO00.0900.03431.0230.0130.0130.0000.0000.0000.000
211A212TYR0-0.029-0.01326.448-0.395-0.3950.0000.0000.0000.000
212A213VAL0-0.056-0.02930.606-0.102-0.1020.0000.0000.0000.000
213A214GLU-1-0.919-0.95533.665-8.906-8.9060.0000.0000.0000.000
214A215VAL00.0180.00028.310-0.022-0.0220.0000.0000.0000.000
215A216VAL0-0.016-0.01328.436-0.060-0.0600.0000.0000.0000.000
216A217ARG10.9150.95730.6848.4738.4730.0000.0000.0000.000
217A218ILE00.0080.01532.3640.2520.2520.0000.0000.0000.000
218A219VAL0-0.0100.00126.4890.0630.0630.0000.0000.0000.000
219A220LEU0-0.037-0.03527.240-0.184-0.1840.0000.0000.0000.000
220A221LYS10.7520.89230.17110.67110.6710.0000.0000.0000.000
221A222PHE-1-0.832-0.89631.579-8.444-8.4440.0000.0000.0000.000