FMODB

FMODB: The database of quantum mechanical data based on the FMO method

Last updated: 2025-10-06

All entries: 70436

Number of unique PDB entries: 28101

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FMODB ID: 9R3Y2

Calculation Name: 4Z3G-A-Xray547

Preferred Name:

Target Type:

Ligand Name: 2-(n-morpholino)-ethanesulfonic acid | beta-d-galactopyranose | alpha-d-galactopyranose | 4-methoxyphenol

Ligand 3-letter code: MES | GAL | GLA | 4KS

Ligand of Interest (LOI):

PDB ID: 4Z3G

Chain ID: A

ChEMBL ID:

UniProt ID: A0A182

Base Structure: X-ray

Registration Date: 2025-10-05

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
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 197
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2242931.865285
FMO2-HF: Nuclear repulsion 2163897.470682
FMO2-HF: Total energy -79034.394603
FMO2-MP2: Total energy -79267.588577


3D Structure
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:MET)


Summations of interaction energy for fragment #1(A:-1:MET)
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.
-5.399-2.2390.259-1.633-1.786-0.01
Interaction energy analysis for fragmet #1(A:-1:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.853 / q_NPA : 0.921
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].
3A1TRP0-0.0010.0103.082-5.129-2.0630.260-1.628-1.698-0.010
4A2ASN00.0230.0075.3425.2325.326-0.001-0.005-0.0880.000
5A3ASN00.0330.0238.945-2.065-2.0650.0000.0000.0000.000
6A4ILE0-0.030-0.01511.7170.9960.9960.0000.0000.0000.000
7A5VAL00.0400.01815.1930.0510.0510.0000.0000.0000.000
8A6PHE0-0.040-0.01118.4400.2290.2290.0000.0000.0000.000
9A7TYR0-0.056-0.06020.8320.0070.0070.0000.0000.0000.000
10A8SER0-0.026-0.03824.8750.2220.2220.0000.0000.0000.000
11A9LEU0-0.006-0.01528.1120.0230.0230.0000.0000.0000.000
12A10GLY00.0330.02831.5690.0930.0930.0000.0000.0000.000
13A11ASP-1-0.885-0.93234.419-7.897-7.8970.0000.0000.0000.000
14A12VAL00.0570.03337.317-0.013-0.0130.0000.0000.0000.000
15A13ASN0-0.002-0.01040.6740.2300.2300.0000.0000.0000.000
16A14SER0-0.008-0.00143.0860.0880.0880.0000.0000.0000.000
17A15TYR00.0320.00646.310-0.004-0.0040.0000.0000.0000.000
18A16GLN0-0.006-0.00548.3210.1210.1210.0000.0000.0000.000
19A17GLY00.0170.01451.9690.0050.0050.0000.0000.0000.000
20A18GLY0-0.0100.00353.2530.0890.0890.0000.0000.0000.000
21A19ASN0-0.022-0.02256.788-0.041-0.0410.0000.0000.0000.000
22A20VAL0-0.010-0.00255.157-0.007-0.0070.0000.0000.0000.000
23A21VAL00.0500.02358.4640.0360.0360.0000.0000.0000.000
24A22ILE0-0.012-0.01556.561-0.112-0.1120.0000.0000.0000.000
25A23THR0-0.008-0.00456.577-0.100-0.1000.0000.0000.0000.000
26A24GLN0-0.0140.00755.396-0.019-0.0190.0000.0000.0000.000
27A25ARG10.8700.92949.5746.0926.0920.0000.0000.0000.000
28A26PRO00.0040.02051.351-0.044-0.0440.0000.0000.0000.000
29A27GLN00.025-0.01147.858-0.060-0.0600.0000.0000.0000.000
30A28PHE0-0.004-0.00741.9800.0740.0740.0000.0000.0000.000
31A29ILE0-0.033-0.00843.055-0.112-0.1120.0000.0000.0000.000
32A30THR0-0.040-0.02539.084-0.036-0.0360.0000.0000.0000.000
33A31SER00.002-0.02039.565-0.072-0.0720.0000.0000.0000.000
34A32TRP0-0.034-0.00929.265-0.030-0.0300.0000.0000.0000.000
35A33ARG10.8730.91136.1127.9097.9090.0000.0000.0000.000
36A34PRO0-0.025-0.00533.505-0.187-0.1870.0000.0000.0000.000
37A35GLY00.005-0.00232.8580.3360.3360.0000.0000.0000.000
38A36ILE0-0.049-0.02130.975-0.299-0.2990.0000.0000.0000.000
39A37ALA00.0190.01327.8830.1980.1980.0000.0000.0000.000
40A38THR00.0360.01127.381-0.263-0.2630.0000.0000.0000.000
41A39VAL0-0.050-0.00720.942-0.058-0.0580.0000.0000.0000.000
42A40THR00.0270.00424.163-0.018-0.0180.0000.0000.0000.000
43A41TRP00.009-0.00116.674-0.083-0.0830.0000.0000.0000.000
44A42ASN0-0.047-0.03116.922-0.071-0.0710.0000.0000.0000.000
45A43GLN00.0220.02112.7501.1131.1130.0000.0000.0000.000
46A44CYS0-0.097-0.06510.976-1.021-1.0210.0000.0000.0000.000
47A45ASN00.0260.0175.851-0.189-0.1890.0000.0000.0000.000
48A46GLY00.0260.0135.805-6.552-6.5520.0000.0000.0000.000
49A47PRO0-0.032-0.0167.1882.4442.4440.0000.0000.0000.000
50A48GLU-1-0.905-0.9509.969-18.924-18.9240.0000.0000.0000.000
51A49PHE0-0.022-0.01913.5131.2971.2970.0000.0000.0000.000
52A50ALA00.0180.02513.465-1.600-1.6000.0000.0000.0000.000
53A51ASP-1-0.800-0.90114.959-17.682-17.6820.0000.0000.0000.000
54A52GLY00.0110.01717.4081.1041.1040.0000.0000.0000.000
55A53SER0-0.080-0.05016.4330.1820.1820.0000.0000.0000.000
56A54TRP0-0.022-0.01810.732-1.374-1.3740.0000.0000.0000.000
57A55ALA0-0.033-0.01613.2680.4040.4040.0000.0000.0000.000
58A56TYR0-0.035-0.01911.769-2.332-2.3320.0000.0000.0000.000
59A57TYR0-0.005-0.01012.0911.9581.9580.0000.0000.0000.000
60A58ARG10.8840.94614.56615.25515.2550.0000.0000.0000.000
61A59GLU-1-0.801-0.89816.650-16.997-16.9970.0000.0000.0000.000
62A60TYR0-0.050-0.03318.447-0.338-0.3380.0000.0000.0000.000
63A61ILE00.011-0.00420.2410.5470.5470.0000.0000.0000.000
64A62ALA00.0090.01723.466-0.114-0.1140.0000.0000.0000.000
65A63TRP0-0.003-0.01822.5570.2520.2520.0000.0000.0000.000
66A64VAL00.015-0.00428.0400.1510.1510.0000.0000.0000.000
67A65VAL0-0.028-0.00428.586-0.013-0.0130.0000.0000.0000.000
68A66PHE00.0340.01631.8300.1090.1090.0000.0000.0000.000
69A67PRO0-0.0100.00835.587-0.063-0.0630.0000.0000.0000.000
70A68LYS10.8430.91036.0258.5598.5590.0000.0000.0000.000
71A69LYS10.9040.95939.8157.2877.2870.0000.0000.0000.000
72A70VAL00.0090.00641.614-0.189-0.1890.0000.0000.0000.000
73A71MET0-0.0100.01744.0650.1070.1070.0000.0000.0000.000
74A72THR00.005-0.01146.831-0.076-0.0760.0000.0000.0000.000
75A73LYS10.9740.97148.2536.4756.4750.0000.0000.0000.000
76A74ASN00.0080.01350.821-0.072-0.0720.0000.0000.0000.000
77A75GLY00.0290.01950.8020.0880.0880.0000.0000.0000.000
78A76TYR00.0090.01351.314-0.029-0.0290.0000.0000.0000.000
79A77PRO0-0.030-0.02148.034-0.131-0.1310.0000.0000.0000.000
80A78LEU00.0360.01647.2450.1140.1140.0000.0000.0000.000
81A79PHE0-0.003-0.01545.193-0.220-0.2200.0000.0000.0000.000
82A80ILE0-0.0030.01041.1500.1230.1230.0000.0000.0000.000
83A81GLU-1-0.784-0.86842.375-6.741-6.7410.0000.0000.0000.000
84A82VAL00.0390.01138.5970.0170.0170.0000.0000.0000.000
85A83HIS0-0.036-0.01941.9230.1160.1160.0000.0000.0000.000
86A84ASN00.006-0.00941.960-0.107-0.1070.0000.0000.0000.000
87A85LYS10.9370.98835.3558.6078.6070.0000.0000.0000.000
88A86GLY00.0550.03537.060-0.254-0.2540.0000.0000.0000.000
89A87SER0-0.057-0.03534.558-0.174-0.1740.0000.0000.0000.000
90A88TRP0-0.069-0.02829.683-0.525-0.5250.0000.0000.0000.000
91A89SER0-0.064-0.03128.4900.3660.3660.0000.0000.0000.000
92A90GLU-1-0.858-0.95031.097-8.582-8.5820.0000.0000.0000.000
93A91GLU-1-0.773-0.83726.252-11.690-11.6900.0000.0000.0000.000
94A92ASN0-0.020-0.01928.3180.1510.1510.0000.0000.0000.000
95A93THR00.0390.01630.2670.1070.1070.0000.0000.0000.000
96A94GLY00.0150.00733.3730.2660.2660.0000.0000.0000.000
97A95ASP-1-0.806-0.86732.003-9.288-9.2880.0000.0000.0000.000
98A96ASN00.0230.00634.1840.2420.2420.0000.0000.0000.000
99A97ASP-1-0.860-0.92235.125-8.340-8.3400.0000.0000.0000.000
100A98SER0-0.070-0.05032.9320.0300.0300.0000.0000.0000.000
101A99TYR0-0.020-0.01634.078-0.080-0.0800.0000.0000.0000.000
102A100PHE00.028-0.00828.498-0.215-0.2150.0000.0000.0000.000
103A101PHE00.0030.01030.9710.0420.0420.0000.0000.0000.000
104A102LEU0-0.003-0.00424.430-0.284-0.2840.0000.0000.0000.000
105A103LYS10.8650.91827.49510.45610.4560.0000.0000.0000.000
106A104GLY00.0470.03324.275-0.332-0.3320.0000.0000.0000.000
107A105TYR0-0.077-0.07424.7160.2570.2570.0000.0000.0000.000
108A106LYS10.8310.92121.20313.82713.8270.0000.0000.0000.000
109A107TRP00.0470.02919.247-0.272-0.2720.0000.0000.0000.000
110A108ASP-1-0.757-0.85016.923-17.072-17.0720.0000.0000.0000.000
111A109GLN00.0560.03918.254-0.034-0.0340.0000.0000.0000.000
112A110ARG10.9540.97713.68619.55819.5580.0000.0000.0000.000
113A111ALA0-0.055-0.02316.8681.2791.2790.0000.0000.0000.000
114A112PHE00.0280.00716.487-1.324-1.3240.0000.0000.0000.000
115A113ASP-1-0.899-0.94317.661-14.767-14.7670.0000.0000.0000.000
116A114THR0-0.016-0.00418.944-0.538-0.5380.0000.0000.0000.000
117A115ALA0-0.0130.00017.9650.8030.8030.0000.0000.0000.000
118A116ASN00.0340.01617.128-1.874-1.8740.0000.0000.0000.000
119A117LEU0-0.036-0.01412.2200.2900.2900.0000.0000.0000.000
120A119GLN0-0.0040.02415.6220.3930.3930.0000.0000.0000.000
121A120LYS10.9830.98217.73816.36716.3670.0000.0000.0000.000
122A121PRO00.014-0.01119.8890.5060.5060.0000.0000.0000.000
123A122GLY0-0.0020.01323.0470.1590.1590.0000.0000.0000.000
124A123GLU-1-0.836-0.89321.299-14.263-14.2630.0000.0000.0000.000
125A124THR0-0.010-0.01225.2460.1470.1470.0000.0000.0000.000
126A125THR00.0030.01124.750-0.254-0.2540.0000.0000.0000.000
127A126ARG10.9470.97726.9799.8749.8740.0000.0000.0000.000
128A127LEU0-0.0200.00125.982-0.417-0.4170.0000.0000.0000.000
129A128THR0-0.004-0.02129.3980.3210.3210.0000.0000.0000.000
130A129GLU-1-0.779-0.84826.596-11.560-11.5600.0000.0000.0000.000
131A130LYS10.8240.92931.2518.4958.4950.0000.0000.0000.000
132A131PHE0-0.020-0.01128.348-0.109-0.1090.0000.0000.0000.000
133A132ASP-1-0.788-0.91634.241-8.054-8.0540.0000.0000.0000.000
134A133ASP-1-0.812-0.88936.536-8.035-8.0350.0000.0000.0000.000
135A134ILE0-0.039-0.00634.609-0.006-0.0060.0000.0000.0000.000
136A135ILE0-0.032-0.00239.2930.1200.1200.0000.0000.0000.000
137A136PHE00.0430.01637.526-0.067-0.0670.0000.0000.0000.000
138A137LYS10.8480.91243.5566.8886.8880.0000.0000.0000.000
139A138VAL0-0.0030.00746.107-0.121-0.1210.0000.0000.0000.000
140A139ALA0-0.021-0.00448.1430.1550.1550.0000.0000.0000.000
141A140LEU00.0130.00249.950-0.099-0.0990.0000.0000.0000.000
142A141PRO0-0.0250.00151.7050.0330.0330.0000.0000.0000.000
143A142ALA00.029-0.01153.9260.0580.0580.0000.0000.0000.000
144A143ASP-1-0.877-0.94056.063-5.599-5.5990.0000.0000.0000.000
145A144LEU0-0.059-0.01153.813-0.004-0.0040.0000.0000.0000.000
146A145PRO00.0000.00456.8870.0940.0940.0000.0000.0000.000
147A146LEU00.0380.04058.947-0.083-0.0830.0000.0000.0000.000
148A147GLY0-0.0080.00560.7080.0160.0160.0000.0000.0000.000
149A148ASP-1-0.885-0.93457.655-5.392-5.3920.0000.0000.0000.000
150A149TYR0-0.020-0.01952.744-0.092-0.0920.0000.0000.0000.000
151A150SER0-0.019-0.01651.017-0.062-0.0620.0000.0000.0000.000
152A151VAL0-0.012-0.01946.090-0.018-0.0180.0000.0000.0000.000
153A152THR00.0180.01442.3070.0280.0280.0000.0000.0000.000
154A153ILE0-0.036-0.01140.186-0.010-0.0100.0000.0000.0000.000
155A154PRO00.0360.01837.686-0.105-0.1050.0000.0000.0000.000
156A155TYR0-0.033-0.03034.5880.0220.0220.0000.0000.0000.000
157A156THR00.0360.01228.567-0.003-0.0030.0000.0000.0000.000
158A157SER0-0.050-0.04130.7420.0310.0310.0000.0000.0000.000
159A158GLY00.0660.02727.696-0.003-0.0030.0000.0000.0000.000
160A159ILE0-0.054-0.03323.3060.0300.0300.0000.0000.0000.000
161A160GLN00.0390.02718.4140.2010.2010.0000.0000.0000.000
162A161ARG10.8320.89819.44513.38013.3800.0000.0000.0000.000
163A162HIS0-0.031-0.03312.325-1.953-1.9530.0000.0000.0000.000
164A163PHE00.0190.00413.2710.8110.8110.0000.0000.0000.000
165A164ALA00.0270.0149.986-1.629-1.6290.0000.0000.0000.000
166A165SER00.0240.0046.616-0.223-0.2230.0000.0000.0000.000
167A166TYR0-0.098-0.0598.053-0.285-0.2850.0000.0000.0000.000
168A167LEU00.0210.01110.5851.3821.3820.0000.0000.0000.000
169A168GLY00.0120.00313.010-0.803-0.8030.0000.0000.0000.000
170A169ALA0-0.0270.00011.5460.1550.1550.0000.0000.0000.000
171A170ARG10.7800.84812.84518.76218.7620.0000.0000.0000.000
172A171PHE00.0070.00113.713-0.990-0.9900.0000.0000.0000.000
173A172LYS10.8570.91815.81313.68713.6870.0000.0000.0000.000
174A173ILE00.0240.02718.734-0.401-0.4010.0000.0000.0000.000
175A174PRO00.0150.00518.9680.6220.6220.0000.0000.0000.000
176A175TYR0-0.001-0.03321.8960.1100.1100.0000.0000.0000.000
177A176ASN00.012-0.00525.4390.4830.4830.0000.0000.0000.000
178A177VAL00.0290.02721.2550.2060.2060.0000.0000.0000.000
179A178ALA00.0240.01424.6110.2820.2820.0000.0000.0000.000
180A179LYS10.7900.88526.1169.7979.7970.0000.0000.0000.000
181A180THR0-0.056-0.03426.7480.3290.3290.0000.0000.0000.000
182A181LEU0-0.0020.01623.874-0.166-0.1660.0000.0000.0000.000
183A182PRO00.0150.00127.5100.3730.3730.0000.0000.0000.000
184A183ARG10.8000.91530.4379.1459.1450.0000.0000.0000.000
185A184GLU-1-0.837-0.90230.397-10.067-10.0670.0000.0000.0000.000
186A185ASN0-0.0170.04133.824-0.095-0.0950.0000.0000.0000.000
187A186GLU-1-0.901-0.96136.251-7.578-7.5780.0000.0000.0000.000
188A187MET0-0.063-0.01139.9010.1150.1150.0000.0000.0000.000
189A188LEU0-0.007-0.00942.3070.0710.0710.0000.0000.0000.000
190A189PHE00.0310.00145.8060.0910.0910.0000.0000.0000.000
191A190LEU0-0.034-0.00948.0300.0710.0710.0000.0000.0000.000
192A191PHE0-0.002-0.00950.8170.0110.0110.0000.0000.0000.000
193A192LYS10.8950.93354.6615.2225.2220.0000.0000.0000.000
194A193ASN0-0.017-0.01157.3240.0370.0370.0000.0000.0000.000
195A194ILE0-0.042-0.03458.9140.0770.0770.0000.0000.0000.000
196A195GLY00.0380.02061.0720.0950.0950.0000.0000.0000.000
197A196GLY-1-0.932-0.95361.810-4.990-4.9900.0000.0000.0000.000