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: 3MKLL

Calculation Name: 2G3B-B-Xray547

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 2G3B

Chain ID: B

ChEMBL ID:

UniProt ID: Q0S8G3

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
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 -1898994.071284
FMO2-HF: Nuclear repulsion 1827722.712799
FMO2-HF: Total energy -71271.358485
FMO2-MP2: Total energy -71481.524972


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:SER)


Summations of interaction energy for fragment #1(A:2: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.
-16.187-11.0360.43-2.221-3.3620.004
Interaction energy analysis for fragmet #1(A:2:SER)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.850 / q_NPA : 0.915
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].
3A4ARG10.9520.9782.63845.98748.1240.182-0.973-1.346-0.001
4A5ARG10.9070.9562.95846.85349.2690.248-1.122-1.5430.005
5A6ASP-1-0.831-0.9164.567-46.671-46.3050.000-0.060-0.3070.000
42A43HIS0-0.057-0.0284.129-7.163-6.9310.000-0.066-0.1660.000
6A7ALA0-0.029-0.0056.6565.7695.7690.0000.0000.0000.000
7A8ILE00.0150.0036.3603.5553.5550.0000.0000.0000.000
8A9LEU0-0.0090.0177.2532.9252.9250.0000.0000.0000.000
9A10LYS10.8940.96210.37022.00222.0020.0000.0000.0000.000
10A11ALA00.0320.02212.1511.9891.9890.0000.0000.0000.000
11A12SER00.006-0.02812.3711.9521.9520.0000.0000.0000.000
12A13ALA00.0080.00814.4071.4541.4540.0000.0000.0000.000
13A14THR0-0.063-0.03716.3741.2591.2590.0000.0000.0000.000
14A15ALA0-0.027-0.02517.6231.0231.0230.0000.0000.0000.000
15A16ILE00.014-0.01216.9860.8790.8790.0000.0000.0000.000
16A17ALA00.0020.00120.3270.7860.7860.0000.0000.0000.000
17A18GLN0-0.034-0.00522.2240.4980.4980.0000.0000.0000.000
18A19ARG10.8590.93821.65214.48814.4880.0000.0000.0000.000
19A20GLY00.0420.05124.3610.4890.4890.0000.0000.0000.000
20A21ILE0-0.010-0.03320.108-0.482-0.4820.0000.0000.0000.000
21A22ARG10.8980.94823.56710.17410.1740.0000.0000.0000.000
22A23GLY00.0000.00226.3100.2360.2360.0000.0000.0000.000
23A24LEU00.0030.04119.272-0.109-0.1090.0000.0000.0000.000
24A25ARG10.8880.91919.89113.79913.7990.0000.0000.0000.000
25A26VAL00.024-0.00715.107-0.250-0.2500.0000.0000.0000.000
26A27ASN0-0.010-0.01916.440-1.195-1.1950.0000.0000.0000.000
27A28ASP-1-0.778-0.87618.282-13.869-13.8690.0000.0000.0000.000
28A29VAL0-0.011-0.00813.791-0.219-0.2190.0000.0000.0000.000
29A30ALA0-0.050-0.03113.585-0.986-0.9860.0000.0000.0000.000
30A31GLU-1-0.921-0.95214.498-15.191-15.1910.0000.0000.0000.000
31A32VAL0-0.042-0.02016.191-0.264-0.2640.0000.0000.0000.000
32A33ALA0-0.020-0.01311.036-0.739-0.7390.0000.0000.0000.000
33A34GLY0-0.0070.01911.529-1.635-1.6350.0000.0000.0000.000
34A35VAL0-0.079-0.0418.653-1.096-1.0960.0000.0000.0000.000
35A36SER00.0500.02112.0770.9620.9620.0000.0000.0000.000
36A37PRO00.0690.01412.762-1.199-1.1990.0000.0000.0000.000
37A38GLY0-0.0130.00413.837-0.527-0.5270.0000.0000.0000.000
38A39LEU00.0200.0117.467-0.815-0.8150.0000.0000.0000.000
39A40LEU00.0370.0388.971-2.600-2.6000.0000.0000.0000.000
40A41TYR00.0370.00210.557-0.686-0.6860.0000.0000.0000.000
41A42TYR0-0.039-0.0106.235-0.847-0.8470.0000.0000.0000.000
43A44PHE0-0.014-0.0207.514-1.785-1.7850.0000.0000.0000.000
44A45LYS10.9170.98511.14518.28618.2860.0000.0000.0000.000
45A46ASP-1-0.856-0.94714.162-15.462-15.4620.0000.0000.0000.000
46A47ARG10.7750.85115.66012.85312.8530.0000.0000.0000.000
47A48ILE00.0250.01917.500-0.235-0.2350.0000.0000.0000.000
48A49GLY00.0390.02414.534-0.380-0.3800.0000.0000.0000.000
49A50LEU0-0.035-0.02111.984-1.429-1.4290.0000.0000.0000.000
50A51LEU00.0170.00713.409-0.829-0.8290.0000.0000.0000.000
51A52GLU-1-0.836-0.92314.802-17.855-17.8550.0000.0000.0000.000
52A53ALA0-0.065-0.0249.647-0.830-0.8300.0000.0000.0000.000
53A54ALA00.007-0.00411.349-1.239-1.2390.0000.0000.0000.000
54A55LEU0-0.0020.00813.1720.0060.0060.0000.0000.0000.000
55A56ASN0-0.035-0.03412.2251.0821.0820.0000.0000.0000.000
56A57TYR00.0670.0318.7621.2871.2870.0000.0000.0000.000
57A58ILE0-0.010-0.00711.7690.4130.4130.0000.0000.0000.000
58A59ASN00.0180.01115.2842.0362.0360.0000.0000.0000.000
59A60ASP-1-0.920-0.96311.445-23.262-23.2620.0000.0000.0000.000
60A61ARG10.7270.84812.75921.47121.4710.0000.0000.0000.000
61A62ALA00.0320.02215.2970.8380.8380.0000.0000.0000.000
62A63ARG10.9030.95116.47417.25517.2550.0000.0000.0000.000
63A64ALA00.0100.03315.8510.6300.6300.0000.0000.0000.000
64A65TYR00.004-0.01317.1050.5310.5310.0000.0000.0000.000
65A66ARG10.8410.92120.92214.68914.6890.0000.0000.0000.000
66A67SER0-0.043-0.02919.9710.3270.3270.0000.0000.0000.000
67A68GLU-1-0.810-0.88021.017-14.348-14.3480.0000.0000.0000.000
68A69GLY0-0.024-0.01223.1060.5390.5390.0000.0000.0000.000
69A70GLU-1-0.967-0.98622.415-13.293-13.2930.0000.0000.0000.000
70A71GLY00.0010.00026.042-0.095-0.0950.0000.0000.0000.000
71A72SER0-0.092-0.05028.869-0.026-0.0260.0000.0000.0000.000
72A73GLY0-0.015-0.01230.6460.2910.2910.0000.0000.0000.000
73A74ASP-1-0.784-0.86729.265-10.430-10.4300.0000.0000.0000.000
74A75SER0-0.035-0.03132.7410.0970.0970.0000.0000.0000.000
75A76ALA00.0310.00733.578-0.318-0.3180.0000.0000.0000.000
76A77ARG10.8680.90134.0147.8877.8870.0000.0000.0000.000
77A78ASP-1-0.839-0.87831.654-9.421-9.4210.0000.0000.0000.000
78A79ARG10.7490.83328.19010.35110.3510.0000.0000.0000.000
79A80LEU00.008-0.00429.300-0.363-0.3630.0000.0000.0000.000
80A81THR0-0.016-0.03030.924-0.079-0.0790.0000.0000.0000.000
81A82ARG10.8140.90625.88111.38111.3810.0000.0000.0000.000
82A83SER00.019-0.00225.865-0.507-0.5070.0000.0000.0000.000
83A84LEU0-0.003-0.00226.798-0.230-0.2300.0000.0000.0000.000
84A85LEU0-0.004-0.00429.029-0.046-0.0460.0000.0000.0000.000
85A86GLY00.0280.03024.806-0.063-0.0630.0000.0000.0000.000
86A87GLU-1-0.852-0.92522.090-14.296-14.2960.0000.0000.0000.000
87A88ILE0-0.0070.01724.544-0.053-0.0530.0000.0000.0000.000
88A89GLN0-0.006-0.00624.0400.5240.5240.0000.0000.0000.000
89A90ASP-1-0.825-0.87926.364-10.703-10.7030.0000.0000.0000.000
90A91ARG10.7480.83020.99613.84513.8450.0000.0000.0000.000
91A92PRO00.0450.01722.481-0.366-0.3660.0000.0000.0000.000
92A93GLU-1-0.809-0.89215.983-20.045-20.0450.0000.0000.0000.000
93A94VAL0-0.0040.01619.034-0.743-0.7430.0000.0000.0000.000
94A95VAL00.0220.01721.478-0.046-0.0460.0000.0000.0000.000
95A96GLU-1-0.913-0.96618.897-16.536-16.5360.0000.0000.0000.000
96A97ASN0-0.052-0.02416.756-1.445-1.4450.0000.0000.0000.000
97A98SER00.021-0.01119.467-0.237-0.2370.0000.0000.0000.000
98A99LEU0-0.014-0.00222.7930.3330.3330.0000.0000.0000.000
99A100ALA0-0.011-0.00618.8200.2410.2410.0000.0000.0000.000
100A101TRP00.0160.00418.218-0.334-0.3340.0000.0000.0000.000
101A102ASN00.0140.01221.7540.6110.6110.0000.0000.0000.000
102A103GLU-1-0.838-0.90923.061-11.840-11.8400.0000.0000.0000.000
103A104LEU0-0.022-0.01417.8090.1280.1280.0000.0000.0000.000
104A105ARG10.7990.86022.45711.97211.9720.0000.0000.0000.000
105A106ALA00.0020.00325.6150.4000.4000.0000.0000.0000.000
106A107SER0-0.052-0.03723.4070.1370.1370.0000.0000.0000.000
107A108ALA00.0450.02424.2220.2570.2570.0000.0000.0000.000
108A109VAL0-0.0020.01025.9120.3350.3350.0000.0000.0000.000
109A110TYR0-0.029-0.02326.1060.4560.4560.0000.0000.0000.000
110A111GLU-1-0.808-0.88023.531-12.871-12.8710.0000.0000.0000.000
111A112GLU-1-0.861-0.92924.925-10.606-10.6060.0000.0000.0000.000
112A113ALA0-0.016-0.01422.206-0.060-0.0600.0000.0000.0000.000
113A114LEU00.005-0.00318.998-0.530-0.5300.0000.0000.0000.000
114A115ARG10.7920.87522.01310.50210.5020.0000.0000.0000.000
115A116ASP-1-0.812-0.87921.639-13.991-13.9910.0000.0000.0000.000
116A117PRO0-0.0020.01018.2050.0400.0400.0000.0000.0000.000
117A118LEU00.0350.04020.116-0.144-0.1440.0000.0000.0000.000
118A119ALA0-0.0020.01922.2790.2820.2820.0000.0000.0000.000
119A120ARG10.8160.88917.67616.04716.0470.0000.0000.0000.000
120A121THR0-0.030-0.03218.0890.2300.2300.0000.0000.0000.000
121A122THR00.014-0.00321.0030.2320.2320.0000.0000.0000.000
122A123ALA0-0.0020.00124.5470.3470.3470.0000.0000.0000.000
123A124ALA0-0.037-0.02621.4670.2820.2820.0000.0000.0000.000
124A125TRP0-0.082-0.03723.354-0.166-0.1660.0000.0000.0000.000
125A126VAL00.019-0.00424.6540.3120.3120.0000.0000.0000.000
126A127SER0-0.017-0.01526.0470.4950.4950.0000.0000.0000.000
127A128GLU-1-0.800-0.86025.541-11.256-11.2560.0000.0000.0000.000
128A129ILE0-0.003-0.00127.6060.3290.3290.0000.0000.0000.000
129A130ALA00.0140.00030.7830.3630.3630.0000.0000.0000.000
130A131ASP-1-0.803-0.88330.062-9.794-9.7940.0000.0000.0000.000
131A132ALA0-0.0030.00631.3290.3000.3000.0000.0000.0000.000
132A133ILE00.0090.00333.0430.3050.3050.0000.0000.0000.000
133A134VAL0-0.007-0.00435.1890.2840.2840.0000.0000.0000.000
134A135GLN0-0.054-0.04433.3930.5010.5010.0000.0000.0000.000
135A136ALA00.0500.02536.8500.2300.2300.0000.0000.0000.000
136A137GLN0-0.056-0.03639.0340.2000.2000.0000.0000.0000.000
137A138ALA0-0.0130.00540.0180.2650.2650.0000.0000.0000.000
138A139THR0-0.022-0.01840.3840.2390.2390.0000.0000.0000.000
139A140GLY0-0.066-0.03742.8450.2220.2220.0000.0000.0000.000
140A141GLU-1-0.924-0.95238.446-8.170-8.1700.0000.0000.0000.000
141A142ILE00.0410.01737.765-0.041-0.0410.0000.0000.0000.000
142A143SER00.0420.02941.9840.1310.1310.0000.0000.0000.000
143A144ARG10.8550.90143.3226.8596.8590.0000.0000.0000.000
144A145SER0-0.062-0.02144.9890.0470.0470.0000.0000.0000.000
145A146LEU00.0000.01940.4540.0250.0250.0000.0000.0000.000
146A147ASP-1-0.837-0.92239.662-8.057-8.0570.0000.0000.0000.000
147A148PRO00.0300.02036.346-0.156-0.1560.0000.0000.0000.000
148A149GLN00.0500.03230.791-0.242-0.2420.0000.0000.0000.000
149A150PRO0-0.006-0.01134.670-0.226-0.2260.0000.0000.0000.000
150A151THR00.0070.01136.691-0.008-0.0080.0000.0000.0000.000
151A152ALA00.0240.01231.600-0.098-0.0980.0000.0000.0000.000
152A153VAL0-0.020-0.00631.828-0.290-0.2900.0000.0000.0000.000
153A154THR0-0.059-0.03632.998-0.058-0.0580.0000.0000.0000.000
154A155MET0-0.0130.00133.326-0.058-0.0580.0000.0000.0000.000
155A156THR00.001-0.00428.318-0.112-0.1120.0000.0000.0000.000
156A157ALA00.0170.00630.235-0.183-0.1830.0000.0000.0000.000
157A158LEU0-0.027-0.00532.1920.0330.0330.0000.0000.0000.000
158A159VAL00.0240.02228.0000.0230.0230.0000.0000.0000.000
159A160GLU-1-0.807-0.86927.108-11.696-11.6960.0000.0000.0000.000
160A161GLY0-0.022-0.00929.703-0.014-0.0140.0000.0000.0000.000
161A162LEU0-0.037-0.01832.9850.2080.2080.0000.0000.0000.000
162A163SER00.0240.00926.7970.0310.0310.0000.0000.0000.000
163A164GLY00.0550.02430.021-0.058-0.0580.0000.0000.0000.000
164A165ARG10.8920.93930.9668.4298.4290.0000.0000.0000.000
165A166TRP0-0.009-0.01026.071-0.089-0.0890.0000.0000.0000.000
166A167LEU0-0.060-0.02226.315-0.064-0.0640.0000.0000.0000.000
167A168CYS0-0.089-0.05430.030-0.016-0.0160.0000.0000.0000.000
168A169LYS10.8700.93930.66110.43710.4370.0000.0000.0000.000
169A170GLU-1-0.916-0.93934.870-8.100-8.1000.0000.0000.0000.000
170A171ILE0-0.042-0.01434.9370.2460.2460.0000.0000.0000.000
171A172SER0-0.003-0.02035.207-0.255-0.2550.0000.0000.0000.000
172A173THR00.014-0.03030.422-0.060-0.0600.0000.0000.0000.000
173A174GLU-1-0.855-0.92233.156-8.951-8.9510.0000.0000.0000.000
174A175ASP-1-0.885-0.94336.009-7.895-7.8950.0000.0000.0000.000
175A176ALA0-0.034-0.01833.1540.0540.0540.0000.0000.0000.000
176A177ARG10.8780.93128.92410.35110.3510.0000.0000.0000.000
177A178SER0-0.0040.00934.2450.0850.0850.0000.0000.0000.000
178A179HIS00.025-0.00137.4390.1560.1560.0000.0000.0000.000
179A180LEU0-0.020-0.00231.5350.0680.0680.0000.0000.0000.000
180A181LEU0-0.0040.00035.1740.0020.0020.0000.0000.0000.000
181A182GLY00.0320.02437.4480.1320.1320.0000.0000.0000.000
182A183ALA0-0.026-0.02237.0890.1420.1420.0000.0000.0000.000
183A184ILE0-0.023-0.02033.4120.0290.0290.0000.0000.0000.000
184A185ASP-1-0.844-0.90537.838-7.697-7.6970.0000.0000.0000.000
185A186VAL0-0.033-0.01241.3880.1350.1350.0000.0000.0000.000
186A187VAL0-0.042-0.02337.8220.0880.0880.0000.0000.0000.000
187A188MET0-0.095-0.04436.834-0.016-0.0160.0000.0000.0000.000
188A189SER-1-0.970-0.95942.279-6.733-6.7330.0000.0000.0000.000