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: 9RZV2

Calculation Name: 3TQL-A-Xray547

Preferred Name:

Target Type:

Ligand Name: imidazole

Ligand 3-letter code: IMD

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 3TQL

Chain ID: A

ChEMBL ID:

UniProt ID: Q83E49

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 226
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2640735.458599
FMO2-HF: Nuclear repulsion 2554523.06624
FMO2-HF: Total energy -86212.392359
FMO2-MP2: Total energy -86465.497931


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:40:THR)


Summations of interaction energy for fragment #1(A:40:THR)
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.
92.351100.3814.585-4.646-7.969-0.022
Interaction energy analysis for fragmet #1(A:40:THR)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.804 / q_NPA : 0.877
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].
3A42THR00.0100.0243.65610.26412.333-0.007-0.972-1.090-0.006
4A43ILE0-0.028-0.0112.043-7.232-6.1651.807-0.850-2.023-0.006
39A78MET0-0.106-0.0542.938-4.206-3.3640.178-0.328-0.693-0.003
40A79GLN0-0.030-0.0122.959-18.189-16.6160.079-0.907-0.745-0.009
41A80ALA0-0.039-0.0092.366-5.913-5.3860.542-0.418-0.650-0.006
42A81VAL00.0220.0174.3839.2239.401-0.001-0.033-0.1450.000
201A241LEU0-0.017-0.0023.360-5.477-4.9920.010-0.097-0.399-0.001
202A242LEU00.0360.0264.618-0.976-0.960-0.001-0.002-0.0120.000
204A244LYS10.8550.9252.45945.69146.9641.978-1.039-2.2120.009
5A44LYS10.8740.9275.42228.82528.8250.0000.0000.0000.000
6A45PHE00.0320.0007.0150.6900.6900.0000.0000.0000.000
7A46ALA0-0.017-0.00411.1391.2731.2730.0000.0000.0000.000
8A47THR0-0.012-0.03714.8060.0300.0300.0000.0000.0000.000
9A48GLU-1-0.756-0.85517.938-12.013-12.0130.0000.0000.0000.000
10A49ALA0-0.032-0.01021.3030.0360.0360.0000.0000.0000.000
11A50THR0-0.051-0.07122.7300.2990.2990.0000.0000.0000.000
12A51TYR0-0.0200.02123.8400.3360.3360.0000.0000.0000.000
13A52PRO00.0420.04424.826-0.513-0.5130.0000.0000.0000.000
14A53PRO00.0670.02425.4700.3040.3040.0000.0000.0000.000
15A54TYR0-0.024-0.02421.295-0.562-0.5620.0000.0000.0000.000
16A55VAL0-0.046-0.02618.821-1.042-1.0420.0000.0000.0000.000
17A56TYR0-0.065-0.03621.7190.5960.5960.0000.0000.0000.000
18A57MET00.0060.01122.808-0.867-0.8670.0000.0000.0000.000
19A58GLY00.0360.02524.0320.5330.5330.0000.0000.0000.000
20A59PRO00.021-0.00525.5820.1460.1460.0000.0000.0000.000
21A60SER0-0.023-0.01925.265-0.401-0.4010.0000.0000.0000.000
22A61GLY00.0050.02425.240-0.156-0.1560.0000.0000.0000.000
23A62GLN0-0.074-0.02920.737-1.290-1.2900.0000.0000.0000.000
24A63VAL0-0.018-0.01318.1430.4320.4320.0000.0000.0000.000
25A64GLU-1-0.851-0.92718.901-14.098-14.0980.0000.0000.0000.000
26A65GLY00.0810.03520.7290.0330.0330.0000.0000.0000.000
27A66PHE00.0190.01519.344-1.058-1.0580.0000.0000.0000.000
28A67GLY0-0.026-0.03216.946-0.894-0.8940.0000.0000.0000.000
29A68ALA00.0030.00315.191-1.542-1.5420.0000.0000.0000.000
30A69ASP-1-0.792-0.87214.621-17.865-17.8650.0000.0000.0000.000
31A70ILE0-0.0040.00613.356-1.367-1.3670.0000.0000.0000.000
32A71VAL0-0.0020.0039.960-2.036-2.0360.0000.0000.0000.000
33A72LYS10.9500.9759.71715.68115.6810.0000.0000.0000.000
34A73ALA0-0.0050.01110.504-1.793-1.7930.0000.0000.0000.000
35A74VAL00.003-0.0127.978-1.733-1.7330.0000.0000.0000.000
36A75CYS0-0.056-0.0415.606-10.763-10.7630.0000.0000.0000.000
37A76LYS11.0181.0146.00617.11017.1100.0000.0000.0000.000
38A77GLN0-0.035-0.0108.0500.9570.9570.0000.0000.0000.000
43A83THR0-0.0030.0078.5593.6433.6430.0000.0000.0000.000
44A84ILE00.0050.00211.506-1.120-1.1200.0000.0000.0000.000
45A85SER0-0.022-0.00714.2591.3551.3550.0000.0000.0000.000
46A86ASN00.0600.02516.480-0.127-0.1270.0000.0000.0000.000
47A87GLN0-0.040-0.03618.2040.0860.0860.0000.0000.0000.000
48A88PRO00.0690.03921.036-0.010-0.0100.0000.0000.0000.000
49A89TRP00.0220.01521.637-0.437-0.4370.0000.0000.0000.000
50A90ASP-1-0.840-0.91622.399-11.732-11.7320.0000.0000.0000.000
51A91SER0-0.064-0.04522.001-0.196-0.1960.0000.0000.0000.000
52A92LEU00.0040.02117.689-0.734-0.7340.0000.0000.0000.000
53A93ILE00.0560.01717.470-0.850-0.8500.0000.0000.0000.000
54A94PRO00.0080.00318.062-0.575-0.5750.0000.0000.0000.000
55A95SER0-0.005-0.00916.674-0.290-0.2900.0000.0000.0000.000
56A96LEU0-0.048-0.00111.750-0.727-0.7270.0000.0000.0000.000
57A97LYS10.8310.89213.61713.26913.2690.0000.0000.0000.000
58A98LEU00.0030.00315.698-0.110-0.1100.0000.0000.0000.000
59A99GLY00.0060.02211.829-0.092-0.0920.0000.0000.0000.000
60A100LYS10.8980.97111.89315.33815.3380.0000.0000.0000.000
61A101PHE0-0.037-0.03911.143-0.125-0.1250.0000.0000.0000.000
62A102ASP-1-0.796-0.8856.506-36.604-36.6040.0000.0000.0000.000
63A103ALA0-0.015-0.0268.5450.2910.2910.0000.0000.0000.000
64A104LEU0-0.052-0.01210.2681.1971.1970.0000.0000.0000.000
65A105PHE00.0440.00813.707-0.576-0.5760.0000.0000.0000.000
66A106GLY00.0460.03915.6180.6430.6430.0000.0000.0000.000
67A107GLY00.0450.01618.9940.5960.5960.0000.0000.0000.000
68A108MET0-0.067-0.01617.3080.4370.4370.0000.0000.0000.000
69A109ASN00.0220.00720.181-0.751-0.7510.0000.0000.0000.000
70A110ILE0-0.0010.02118.3760.0590.0590.0000.0000.0000.000
71A111THR00.025-0.00121.4590.4950.4950.0000.0000.0000.000
72A112THR00.0470.00223.079-0.479-0.4790.0000.0000.0000.000
73A113ALA00.0270.02924.8590.0140.0140.0000.0000.0000.000
74A114ARG10.9610.97320.64512.94212.9420.0000.0000.0000.000
75A115GLN00.0330.00419.3900.0190.0190.0000.0000.0000.000
76A116LYS10.8990.95420.18711.34211.3420.0000.0000.0000.000
77A117GLU-1-0.860-0.91220.268-13.029-13.0290.0000.0000.0000.000
78A118VAL0-0.056-0.03115.382-0.543-0.5430.0000.0000.0000.000
79A119ASP-1-0.798-0.87813.039-17.260-17.2600.0000.0000.0000.000
80A120PHE0-0.004-0.03413.919-0.562-0.5620.0000.0000.0000.000
81A121THR0-0.024-0.01310.839-0.067-0.0670.0000.0000.0000.000
82A122ASP-1-0.887-0.94213.463-17.988-17.9880.0000.0000.0000.000
83A123PRO0-0.0130.00515.849-0.951-0.9510.0000.0000.0000.000
84A124TYR00.000-0.01015.788-0.199-0.1990.0000.0000.0000.000
85A125TYR00.0530.04017.9130.0410.0410.0000.0000.0000.000
86A126THR00.0240.02021.506-0.254-0.2540.0000.0000.0000.000
87A127ASN00.0080.01224.421-0.499-0.4990.0000.0000.0000.000
88A128SER00.000-0.01025.8130.4320.4320.0000.0000.0000.000
89A129VAL00.0190.01327.4650.0020.0020.0000.0000.0000.000
90A130SER0-0.035-0.02929.488-0.191-0.1910.0000.0000.0000.000
91A131PHE00.0360.02831.1840.2900.2900.0000.0000.0000.000
92A132ILE0-0.034-0.01732.642-0.343-0.3430.0000.0000.0000.000
93A133ALA00.0910.03635.1070.3040.3040.0000.0000.0000.000
94A134ASP-1-0.783-0.89636.152-8.285-8.2850.0000.0000.0000.000
95A135LYS10.9000.95233.0789.3839.3830.0000.0000.0000.000
96A136ASN0-0.092-0.03235.879-0.127-0.1270.0000.0000.0000.000
97A137THR0-0.008-0.00838.2820.1360.1360.0000.0000.0000.000
98A138PRO0-0.031-0.00233.749-0.091-0.0910.0000.0000.0000.000
99A139LEU00.0310.01235.1540.1840.1840.0000.0000.0000.000
100A140THR00.0160.00734.204-0.360-0.3600.0000.0000.0000.000
101A141LEU00.0000.01131.7250.2700.2700.0000.0000.0000.000
102A142SER00.0420.00034.809-0.025-0.0250.0000.0000.0000.000
103A143LYS10.8960.92836.9307.6507.6500.0000.0000.0000.000
104A144GLN0-0.016-0.01039.8780.2770.2770.0000.0000.0000.000
105A145GLY0-0.008-0.00538.2290.1310.1310.0000.0000.0000.000
106A146LEU0-0.0030.00337.5410.0060.0060.0000.0000.0000.000
107A147LYS10.9550.98040.9807.0217.0210.0000.0000.0000.000
108A148GLY0-0.025-0.01144.4490.0320.0320.0000.0000.0000.000
109A149LYS10.8520.95241.4817.5667.5660.0000.0000.0000.000
110A150ILE00.0190.01144.6200.0310.0310.0000.0000.0000.000
111A151ILE0-0.031-0.01939.811-0.188-0.1880.0000.0000.0000.000
112A152GLY00.0380.02342.2720.1650.1650.0000.0000.0000.000
113A153VAL0-0.026-0.01740.171-0.264-0.2640.0000.0000.0000.000
114A154GLN00.0290.01041.5640.0240.0240.0000.0000.0000.000
115A155GLY00.0040.00143.280-0.101-0.1010.0000.0000.0000.000
116A156GLY00.002-0.00545.5980.0140.0140.0000.0000.0000.000
117A157THR0-0.022-0.00940.078-0.142-0.1420.0000.0000.0000.000
118A158THR00.0440.00536.1670.1100.1100.0000.0000.0000.000
119A159PHE00.0200.01333.503-0.124-0.1240.0000.0000.0000.000
120A160ASP-1-0.733-0.84338.401-7.124-7.1240.0000.0000.0000.000
121A161SER0-0.0130.00840.6700.1440.1440.0000.0000.0000.000
122A162TYR00.0750.04132.979-0.057-0.0570.0000.0000.0000.000
123A163LEU0-0.0330.00238.578-0.078-0.0780.0000.0000.0000.000
124A164GLN0-0.037-0.03740.5010.2220.2220.0000.0000.0000.000
125A165ASP-1-0.818-0.87739.946-7.631-7.6310.0000.0000.0000.000
126A166SER0-0.105-0.07136.701-0.089-0.0890.0000.0000.0000.000
127A167PHE0-0.028-0.02935.902-0.113-0.1130.0000.0000.0000.000
128A168GLY00.0530.03941.0490.1410.1410.0000.0000.0000.000
129A169ASN0-0.021-0.03044.614-0.046-0.0460.0000.0000.0000.000
130A170SER0-0.062-0.01543.2520.0900.0900.0000.0000.0000.000
131A171ILE0-0.021-0.00141.254-0.041-0.0410.0000.0000.0000.000
132A172THR00.0090.01245.0390.1640.1640.0000.0000.0000.000
133A173ILE0-0.027-0.00943.846-0.101-0.1010.0000.0000.0000.000
134A174GLN00.001-0.00345.9770.2380.2380.0000.0000.0000.000
135A175ARG10.8300.88345.7676.6906.6900.0000.0000.0000.000
136A176TYR0-0.059-0.04745.3040.1000.1000.0000.0000.0000.000
137A177PRO00.0290.01046.608-0.104-0.1040.0000.0000.0000.000
138A178SER0-0.038-0.03044.328-0.150-0.1500.0000.0000.0000.000
139A179GLU-1-0.802-0.91737.800-8.491-8.4910.0000.0000.0000.000
140A180GLU-1-0.855-0.90341.732-7.181-7.1810.0000.0000.0000.000
141A181ASP-1-0.813-0.89643.396-6.668-6.6680.0000.0000.0000.000
142A182ALA00.0150.00342.3400.0450.0450.0000.0000.0000.000
143A183LEU0-0.020-0.00538.258-0.095-0.0950.0000.0000.0000.000
144A184MET00.0190.02642.291-0.043-0.0430.0000.0000.0000.000
145A185ASP-1-0.795-0.85345.711-6.515-6.5150.0000.0000.0000.000
146A186LEU0-0.036-0.00438.6390.0000.0000.0000.0000.0000.000
147A187THR0-0.101-0.06540.6700.0310.0310.0000.0000.0000.000
148A188SER0-0.050-0.05043.3620.1320.1320.0000.0000.0000.000
149A189GLY00.0080.01245.5470.1430.1430.0000.0000.0000.000
150A190ARG10.8860.94646.7676.4026.4020.0000.0000.0000.000
151A191VAL0-0.038-0.01642.9310.0510.0510.0000.0000.0000.000
152A192ASP-1-0.824-0.90841.776-7.386-7.3860.0000.0000.0000.000
153A193ALA0-0.036-0.03737.876-0.238-0.2380.0000.0000.0000.000
154A194VAL0-0.0040.01638.2380.2000.2000.0000.0000.0000.000
155A195VAL0-0.032-0.01835.270-0.325-0.3250.0000.0000.0000.000
156A196GLY00.0560.01335.4580.2830.2830.0000.0000.0000.000
157A197ASP-1-0.863-0.94532.314-10.110-10.1100.0000.0000.0000.000
158A198THR0-0.022-0.00828.440-0.115-0.1150.0000.0000.0000.000
159A199PRO0-0.084-0.05228.683-0.082-0.0820.0000.0000.0000.000
160A200LEU00.0510.03631.0160.0560.0560.0000.0000.0000.000
161A201ILE00.0560.04334.2310.1240.1240.0000.0000.0000.000
162A202LYS10.9000.95226.23911.67711.6770.0000.0000.0000.000
163A203GLN0-0.066-0.02632.7290.2300.2300.0000.0000.0000.000
164A204TRP00.039-0.00534.533-0.029-0.0290.0000.0000.0000.000
165A205LEU00.0140.00434.5780.1660.1660.0000.0000.0000.000
166A206LYS10.8030.89329.79610.24210.2420.0000.0000.0000.000
167A207GLN0-0.044-0.03035.7420.1420.1420.0000.0000.0000.000
168A208ASN0-0.0050.00638.8740.3100.3100.0000.0000.0000.000
169A209GLY0-0.0120.00538.7050.1120.1120.0000.0000.0000.000
170A210ARG10.7940.86838.7007.5087.5080.0000.0000.0000.000
171A211ARG10.9310.94534.4108.7428.7420.0000.0000.0000.000
172A212GLU-1-0.811-0.86335.058-7.972-7.9720.0000.0000.0000.000
173A213TYR00.006-0.00736.005-0.107-0.1070.0000.0000.0000.000
174A214VAL0-0.036-0.01831.169-0.300-0.3000.0000.0000.0000.000
175A215LEU0-0.015-0.01127.8500.1470.1470.0000.0000.0000.000
176A216ILE00.0150.01129.668-0.279-0.2790.0000.0000.0000.000
177A217GLY0-0.002-0.00827.4570.1610.1610.0000.0000.0000.000
178A218LYS10.8770.94428.5439.5829.5820.0000.0000.0000.000
179A219PRO0-0.0110.00026.6200.0340.0340.0000.0000.0000.000
180A220VAL0-0.0140.00528.6190.4670.4670.0000.0000.0000.000
181A221ASN0-0.011-0.01429.660-0.551-0.5510.0000.0000.0000.000
182A222ASP-1-0.809-0.89531.542-8.577-8.5770.0000.0000.0000.000
183A223PRO00.023-0.00932.496-0.151-0.1510.0000.0000.0000.000
184A224ASN0-0.047-0.01833.531-0.069-0.0690.0000.0000.0000.000
185A225TYR0-0.047-0.05533.645-0.008-0.0080.0000.0000.0000.000
186A226PHE0-0.059-0.01028.940-0.366-0.3660.0000.0000.0000.000
187A227GLY00.0160.00827.5450.1780.1780.0000.0000.0000.000
188A228LYS10.8580.91622.50012.14412.1440.0000.0000.0000.000
189A229GLY00.0730.04622.238-0.586-0.5860.0000.0000.0000.000
190A230VAL0-0.051-0.02319.4300.0930.0930.0000.0000.0000.000
191A231GLY00.0180.00316.731-0.361-0.3610.0000.0000.0000.000
192A232ILE0-0.032-0.01510.5990.2830.2830.0000.0000.0000.000
193A233ALA0-0.0180.00113.3870.1100.1100.0000.0000.0000.000
194A234VAL00.0290.0008.337-1.848-1.8480.0000.0000.0000.000
195A235LYS10.9160.95010.90520.75620.7560.0000.0000.0000.000
196A236LYS10.8400.91611.78814.60914.6090.0000.0000.0000.000
197A237GLY00.0450.02913.1590.2290.2290.0000.0000.0000.000
198A238ASN0-0.0110.0066.098-1.809-1.8090.0000.0000.0000.000
199A239GLN00.042-0.0048.083-2.438-2.4380.0000.0000.0000.000
200A240ALA00.0190.0155.513-0.924-0.9240.0000.0000.0000.000
203A243LEU00.0340.0167.9540.2320.2320.0000.0000.0000.000
205A245LEU00.0530.0196.3000.4690.4690.0000.0000.0000.000
206A246ASN00.0710.0428.2201.0121.0120.0000.0000.0000.000
207A247LYS10.9510.9778.21431.15331.1530.0000.0000.0000.000
208A248ALA00.0000.0157.2411.3811.3810.0000.0000.0000.000
209A249LEU00.016-0.0079.3412.0592.0590.0000.0000.0000.000
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218A258TYR0-0.059-0.06316.6910.3830.3830.0000.0000.0000.000
219A259ALA00.0340.01718.0700.4220.4220.0000.0000.0000.000
220A260ALA00.0190.01320.4680.5410.5410.0000.0000.0000.000
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