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

tag_button

FMODB ID: GR6R1

Calculation Name: 3DPJ-F-Xray547

Preferred Name:

Target Type:

Ligand Name: 2-(n-morpholino)-ethanesulfonic acid | 1,2-ethanediol

Ligand 3-letter code: MES | EDO

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 3DPJ

Chain ID: F

ChEMBL ID:

UniProt ID: Q5LS67

Base Structure: X-ray

Registration Date: 2025-10-04

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 188
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -1956486.559135
FMO2-HF: Nuclear repulsion 1882060.83513
FMO2-HF: Total energy -74425.724005
FMO2-MP2: Total energy -74640.012729


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:3:GLN)


Summations of interaction energy for fragment #1(A:3:GLN)
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.
-24.703-17.63811.841-7.634-11.272-0.059
Interaction energy analysis for fragmet #1(A:3:GLN)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.809 / q_NPA : 0.901
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].
3A5GLN00.1120.0533.857-0.4981.307-0.020-0.859-0.9260.000
4A6THR0-0.049-0.0092.6841.9432.8300.648-0.551-0.984-0.006
5A7ARG10.8370.9165.23031.68931.781-0.001-0.004-0.0870.000
39A41ASN00.003-0.0064.060-7.724-7.2350.000-0.052-0.4360.000
42A44TYR0-0.044-0.0032.619-10.094-6.8155.641-2.546-6.375-0.023
43A45HIS0-0.044-0.0182.317-17.485-16.9725.573-3.622-2.464-0.030
6A8ASP-1-0.843-0.9286.715-26.925-26.9250.0000.0000.0000.000
7A9GLN0-0.056-0.0296.8915.2175.2170.0000.0000.0000.000
8A10ILE0-0.0070.0037.3352.2062.2060.0000.0000.0000.000
9A11VAL0-0.0040.00310.1072.3922.3920.0000.0000.0000.000
10A12ALA00.009-0.00112.5841.8451.8450.0000.0000.0000.000
11A13ALA00.0070.00413.1851.4491.4490.0000.0000.0000.000
12A14ALA00.010-0.00414.2531.2311.2310.0000.0000.0000.000
13A15ASP-1-0.843-0.89616.032-14.042-14.0420.0000.0000.0000.000
14A16GLU-1-0.819-0.89218.349-12.694-12.6940.0000.0000.0000.000
15A17LEU0-0.016-0.00716.6890.7940.7940.0000.0000.0000.000
16A18PHE00.023-0.01317.4800.5740.5740.0000.0000.0000.000
17A19TYR0-0.099-0.04521.7230.5040.5040.0000.0000.0000.000
18A20ARG10.8010.86923.57713.14813.1480.0000.0000.0000.000
19A21GLN0-0.073-0.05321.6150.5130.5130.0000.0000.0000.000
20A22GLY00.0600.05725.0530.3700.3700.0000.0000.0000.000
21A23PHE0-0.028-0.02419.776-0.564-0.5640.0000.0000.0000.000
22A24ALA0-0.028-0.01622.437-0.496-0.4960.0000.0000.0000.000
23A25GLN0-0.010-0.01724.391-0.167-0.1670.0000.0000.0000.000
24A26THR00.0000.02118.686-0.267-0.2670.0000.0000.0000.000
25A27SER0-0.055-0.05419.567-0.390-0.3900.0000.0000.0000.000
26A28PHE00.023-0.01214.593-0.663-0.6630.0000.0000.0000.000
27A29VAL00.0070.02914.902-1.226-1.2260.0000.0000.0000.000
28A30ASP-1-0.729-0.82516.659-14.991-14.9910.0000.0000.0000.000
29A31ILE00.004-0.00312.157-0.538-0.5380.0000.0000.0000.000
30A32SER0-0.064-0.05311.649-1.075-1.0750.0000.0000.0000.000
31A33ALA0-0.002-0.00312.660-1.079-1.0790.0000.0000.0000.000
32A34ALA0-0.034-0.00614.9010.0400.0400.0000.0000.0000.000
33A35VAL0-0.028-0.0219.278-0.166-0.1660.0000.0000.0000.000
34A36GLY00.0210.03711.054-0.884-0.8840.0000.0000.0000.000
35A37ILE0-0.076-0.0396.676-2.817-2.8170.0000.0000.0000.000
36A38SER00.0340.0119.2401.6391.6390.0000.0000.0000.000
37A39ARG11.0331.00110.04016.83216.8320.0000.0000.0000.000
38A40GLY00.0030.0028.851-0.390-0.3900.0000.0000.0000.000
40A42PHE00.0460.0305.753-5.242-5.2420.0000.0000.0000.000
41A43TYR0-0.008-0.0267.994-0.924-0.9240.0000.0000.0000.000
44A46PHE00.0300.0196.6051.8911.8910.0000.0000.0000.000
45A47LYS10.9280.96110.39222.57922.5790.0000.0000.0000.000
46A48THR00.0130.00613.2780.9460.9460.0000.0000.0000.000
47A49LYS10.8630.91315.58413.07713.0770.0000.0000.0000.000
48A50ASP-1-0.801-0.89317.762-14.189-14.1890.0000.0000.0000.000
49A51GLU-1-0.851-0.92512.071-23.365-23.3650.0000.0000.0000.000
50A52ILE00.0080.00412.500-0.518-0.5180.0000.0000.0000.000
51A53LEU00.0140.02014.814-0.033-0.0330.0000.0000.0000.000
52A54ALA00.0310.01817.4570.3160.3160.0000.0000.0000.000
53A55GLU-1-0.847-0.92512.626-22.462-22.4620.0000.0000.0000.000
54A56VAL0-0.0080.00415.8340.2110.2110.0000.0000.0000.000
55A57ILE0-0.004-0.00217.6140.5530.5530.0000.0000.0000.000
56A58ARG10.8790.94514.92119.49019.4900.0000.0000.0000.000
57A59LEU00.0040.01415.6380.3970.3970.0000.0000.0000.000
58A60ARG10.8420.88918.54114.22314.2230.0000.0000.0000.000
59A61LEU00.0020.01022.0510.6030.6030.0000.0000.0000.000
60A62ALA00.0240.01520.3610.5010.5010.0000.0000.0000.000
61A63ARG10.8920.93718.91415.89315.8930.0000.0000.0000.000
62A64THR00.001-0.00123.3080.4790.4790.0000.0000.0000.000
63A65ALA00.0190.00225.9480.4280.4280.0000.0000.0000.000
64A66GLN0-0.053-0.01723.9060.0720.0720.0000.0000.0000.000
65A67MET0-0.0120.00226.4170.4300.4300.0000.0000.0000.000
66A68LEU00.0160.00428.5700.3670.3670.0000.0000.0000.000
67A69ALA0-0.0130.00229.0000.3900.3900.0000.0000.0000.000
68A70ASP-1-0.852-0.93327.721-11.050-11.0500.0000.0000.0000.000
69A71TRP0-0.007-0.00531.1590.3370.3370.0000.0000.0000.000
70A72GLN00.0090.02034.0030.2370.2370.0000.0000.0000.000
71A73GLY0-0.0040.00334.2410.2470.2470.0000.0000.0000.000
72A74THR0-0.063-0.04533.9440.2460.2460.0000.0000.0000.000
73A75GLY00.0020.00936.6060.2340.2340.0000.0000.0000.000
74A76ASP-1-0.855-0.93739.363-7.446-7.4460.0000.0000.0000.000
75A77SER00.0000.00541.9310.0930.0930.0000.0000.0000.000
76A78PRO00.0390.01542.560-0.188-0.1880.0000.0000.0000.000
77A79ARG10.8950.90942.6556.4236.4230.0000.0000.0000.000
78A80ALA00.0190.02441.743-0.072-0.0720.0000.0000.0000.000
79A81ARG10.8090.93438.3187.8457.8450.0000.0000.0000.000
80A82ILE00.0060.00138.353-0.215-0.2150.0000.0000.0000.000
81A83ALA00.0120.00740.119-0.082-0.0820.0000.0000.0000.000
82A84SER0-0.023-0.01335.927-0.104-0.1040.0000.0000.0000.000
83A85PHE0-0.038-0.01734.678-0.249-0.2490.0000.0000.0000.000
84A86ILE0-0.0070.00136.868-0.107-0.1070.0000.0000.0000.000
85A87ASP-1-0.816-0.91238.870-7.766-7.7660.0000.0000.0000.000
86A88LEU0-0.021-0.00430.968-0.186-0.1860.0000.0000.0000.000
87A89MET0-0.041-0.01634.510-0.155-0.1550.0000.0000.0000.000
88A90ILE00.0230.01036.6670.0040.0040.0000.0000.0000.000
89A91MET0-0.037-0.00832.003-0.162-0.1620.0000.0000.0000.000
90A92ASN0-0.026-0.02430.018-0.338-0.3380.0000.0000.0000.000
91A93ARG10.8570.93432.9018.2318.2310.0000.0000.0000.000
92A94ALA00.0400.03033.4040.0370.0370.0000.0000.0000.000
93A95LYS10.9100.95825.26011.88911.8890.0000.0000.0000.000
94A96ILE0-0.0130.00331.304-0.051-0.0510.0000.0000.0000.000
95A97THR00.013-0.01033.6430.0040.0040.0000.0000.0000.000
96A98ARG10.9450.99131.1339.9549.9540.0000.0000.0000.000
97A99TYR0-0.039-0.03427.981-0.068-0.0680.0000.0000.0000.000
98A100GLY00.0950.07430.502-0.154-0.1540.0000.0000.0000.000
99A101CYS0-0.0350.02331.347-0.296-0.2960.0000.0000.0000.000
100A102PRO00.0110.02026.280-0.035-0.0350.0000.0000.0000.000
101A103VAL00.015-0.00127.060-0.364-0.3640.0000.0000.0000.000
102A104GLY00.0950.04129.097-0.013-0.0130.0000.0000.0000.000
103A105SER0-0.028-0.00628.773-0.054-0.0540.0000.0000.0000.000
104A106LEU00.0180.01223.752-0.027-0.0270.0000.0000.0000.000
105A107CYS0-0.018-0.01327.538-0.033-0.0330.0000.0000.0000.000
106A108THR0-0.043-0.04430.0730.2050.2050.0000.0000.0000.000
107A109GLU-1-0.796-0.87926.571-11.454-11.4540.0000.0000.0000.000
108A110LEU0-0.020-0.02924.7030.0510.0510.0000.0000.0000.000
109A111SER0-0.022-0.00628.8160.1390.1390.0000.0000.0000.000
110A112LYS10.9080.95932.4898.6768.6760.0000.0000.0000.000
111A113LEU0-0.067-0.04626.9290.1190.1190.0000.0000.0000.000
112A114ASP-1-0.935-0.94130.897-9.255-9.2550.0000.0000.0000.000
113A115HIS0-0.012-0.00923.3200.0410.0410.0000.0000.0000.000
114A116ALA00.0390.00925.8740.0500.0500.0000.0000.0000.000
115A117ALA0-0.019-0.01223.430-0.008-0.0080.0000.0000.0000.000
116A118GLN00.0570.02125.413-0.346-0.3460.0000.0000.0000.000
117A119GLY0-0.010-0.00228.6550.1860.1860.0000.0000.0000.000
118A120GLN0-0.045-0.02720.3760.0720.0720.0000.0000.0000.000
119A121ALA00.0190.00625.790-0.083-0.0830.0000.0000.0000.000
120A122ASN00.0460.01426.7080.2170.2170.0000.0000.0000.000
121A123GLY00.0340.03128.0810.3240.3240.0000.0000.0000.000
122A124LEU0-0.022-0.01624.6840.0560.0560.0000.0000.0000.000
123A125PHE00.0250.00828.6950.1700.1700.0000.0000.0000.000
124A126THR0-0.072-0.03931.4690.3630.3630.0000.0000.0000.000
125A127LEU00.0030.00327.2480.1950.1950.0000.0000.0000.000
126A128PHE00.012-0.00229.7630.1910.1910.0000.0000.0000.000
127A129ARG10.8530.91033.6618.9198.9190.0000.0000.0000.000
128A130ASP-1-0.802-0.88934.668-8.598-8.5980.0000.0000.0000.000
129A131TRP0-0.0160.00134.0550.2250.2250.0000.0000.0000.000
130A132LEU00.0230.00236.1570.2120.2120.0000.0000.0000.000
131A133GLN0-0.016-0.00138.9950.3970.3970.0000.0000.0000.000
132A134ARG10.8580.91737.2838.5948.5940.0000.0000.0000.000
133A135GLN0-0.036-0.02837.7590.3800.3800.0000.0000.0000.000
134A136PHE00.0410.00541.7420.1790.1790.0000.0000.0000.000
135A137ALA0-0.029-0.01043.8910.2020.2020.0000.0000.0000.000
136A138GLU-1-0.867-0.93641.394-7.757-7.7570.0000.0000.0000.000
137A139ALA0-0.034-0.02545.4260.1050.1050.0000.0000.0000.000
138A140GLY00.0300.02447.2400.1370.1370.0000.0000.0000.000
139A141CYS0-0.041-0.01948.7840.1740.1740.0000.0000.0000.000
140A142THR00.019-0.00646.883-0.056-0.0560.0000.0000.0000.000
141A143THR0-0.046-0.02147.788-0.080-0.0800.0000.0000.0000.000
142A144GLU-1-0.861-0.94548.714-6.545-6.5450.0000.0000.0000.000
143A145ALA0-0.0050.01043.994-0.089-0.0890.0000.0000.0000.000
144A146PRO00.0080.00243.151-0.161-0.1610.0000.0000.0000.000
145A147ALA00.0200.01543.412-0.161-0.1610.0000.0000.0000.000
146A148LEU0-0.0140.00145.281-0.053-0.0530.0000.0000.0000.000
147A149ALA00.0010.00840.044-0.109-0.1090.0000.0000.0000.000
148A150MET0-0.020-0.02239.172-0.243-0.2430.0000.0000.0000.000
149A151HIS0-0.035-0.00341.665-0.041-0.0410.0000.0000.0000.000
150A152LEU00.0340.01941.074-0.031-0.0310.0000.0000.0000.000
151A153LEU0-0.0020.00535.018-0.139-0.1390.0000.0000.0000.000
152A154ALA00.0190.01538.636-0.150-0.1500.0000.0000.0000.000
153A155ARG10.8050.88140.7466.8426.8420.0000.0000.0000.000
154A156SER00.002-0.02237.325-0.109-0.1090.0000.0000.0000.000
155A157GLN00.006-0.03934.348-0.298-0.2980.0000.0000.0000.000
156A158GLY00.0240.03238.003-0.031-0.0310.0000.0000.0000.000
157A159ALA00.0320.01340.3690.0360.0360.0000.0000.0000.000
158A160ALA0-0.024-0.02435.549-0.014-0.0140.0000.0000.0000.000
159A161THR0-0.039-0.02837.497-0.132-0.1320.0000.0000.0000.000
160A162LEU00.0120.00738.5730.0090.0090.0000.0000.0000.000
161A163ALA00.0130.01038.7830.0430.0430.0000.0000.0000.000
162A164GLN0-0.036-0.01632.4210.0190.0190.0000.0000.0000.000
163A165SER0-0.050-0.02337.3730.0310.0310.0000.0000.0000.000
164A166PHE0-0.052-0.03439.8730.1190.1190.0000.0000.0000.000
165A167HIS0-0.049-0.00736.4480.0060.0060.0000.0000.0000.000
166A168ASP-1-0.850-0.91639.994-6.993-6.9930.0000.0000.0000.000
167A169GLU-1-0.851-0.94938.582-8.175-8.1750.0000.0000.0000.000
168A170GLY0-0.019-0.00341.2650.0190.0190.0000.0000.0000.000
169A171PHE00.009-0.00243.0410.0610.0610.0000.0000.0000.000
170A172LEU00.0180.00637.4540.0070.0070.0000.0000.0000.000
171A173ARG10.9550.96941.3187.4787.4780.0000.0000.0000.000
172A174SER0-0.0270.00244.2450.1510.1510.0000.0000.0000.000
173A175GLU-1-0.858-0.92943.477-6.866-6.8660.0000.0000.0000.000
174A176VAL00.0070.00440.9040.0270.0270.0000.0000.0000.000
175A177ALA0-0.005-0.00443.9940.0650.0650.0000.0000.0000.000
176A178ASP-1-0.831-0.88747.571-6.294-6.2940.0000.0000.0000.000
177A179MET0-0.037-0.01040.4750.0070.0070.0000.0000.0000.000
178A180HIS0-0.028-0.02643.1940.1440.1440.0000.0000.0000.000
179A181ARG10.8730.93247.3796.2976.2970.0000.0000.0000.000
180A182TRP00.0200.00845.6760.0240.0240.0000.0000.0000.000
181A183LEU00.0050.00944.8000.0420.0420.0000.0000.0000.000
182A184ASP-1-0.836-0.90748.694-6.319-6.3190.0000.0000.0000.000
183A185ASN0-0.118-0.05651.8470.0660.0660.0000.0000.0000.000
184A186THR0-0.047-0.02648.6770.0500.0500.0000.0000.0000.000
185A187LEU0-0.044-0.02546.799-0.031-0.0310.0000.0000.0000.000
186A188PRO0-0.0160.00351.2390.1180.1180.0000.0000.0000.000
187A189MET0-0.050-0.02552.435-0.041-0.0410.0000.0000.0000.000
188A190THR-1-0.944-0.96049.871-6.171-6.1710.0000.0000.0000.000