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: 7N2GK

Calculation Name: 3CNC-A-Xray547

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 3CNC

Chain ID: A

ChEMBL ID:

UniProt ID: Q67711

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 196
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2154727.554629
FMO2-HF: Nuclear repulsion 2077363.983363
FMO2-HF: Total energy -77363.571266
FMO2-MP2: Total energy -77585.81318


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:158:ILE)


Summations of interaction energy for fragment #1(A:158:ILE)
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.
-129.493-121.70518.778-12.181-14.387-0.128
Interaction energy analysis for fragmet #1(A:158:ILE)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.789 / q_NPA : 0.873
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].
3A160ASN00.017-0.0043.4692.8064.5900.029-0.561-1.253-0.001
4A161ASN00.0620.0354.2941.3751.5010.000-0.023-0.1030.000
89A246PHE00.0400.0102.567-0.786-0.0610.852-0.344-1.233-0.001
90A247LYS10.8770.9644.13240.28740.8380.001-0.179-0.374-0.001
91A248ASP-1-0.829-0.9231.845-138.182-134.57716.473-10.669-9.409-0.122
92A249ASN0-0.012-0.0043.32714.51614.6160.0330.093-0.226-0.001
96A253ALA0-0.013-0.0072.520-1.857-1.2501.390-0.454-1.543-0.002
97A254THR0-0.0060.0013.9826.6736.8380.001-0.038-0.1280.000
98A255GLY00.015-0.0064.741-1.849-1.724-0.001-0.006-0.1180.000
5A162THR0-0.024-0.0126.4114.5324.5320.0000.0000.0000.000
6A163LEU00.0050.0146.342-4.265-4.2650.0000.0000.0000.000
7A164TRP0-0.043-0.0386.8982.8592.8590.0000.0000.0000.000
8A165THR00.0540.0159.690-0.580-0.5800.0000.0000.0000.000
9A166GLY0-0.0230.0089.6450.0660.0660.0000.0000.0000.000
10A167ALA00.017-0.00110.6182.2762.2760.0000.0000.0000.000
11A168LYS10.8880.93512.89715.85215.8520.0000.0000.0000.000
12A169PRO00.0350.04614.4250.0740.0740.0000.0000.0000.000
13A170SER0-0.005-0.01815.8331.3141.3140.0000.0000.0000.000
14A171ALA0-0.033-0.02018.391-0.248-0.2480.0000.0000.0000.000
15A172ASN0-0.0020.00015.8050.6630.6630.0000.0000.0000.000
16A173CYS0-0.060-0.01519.361-0.080-0.0800.0000.0000.0000.000
17A174VAL00.0100.00721.6880.1950.1950.0000.0000.0000.000
18A175ILE0-0.009-0.02724.864-0.031-0.0310.0000.0000.0000.000
19A176LYS10.8090.89227.9449.3369.3360.0000.0000.0000.000
20A177GLU-1-0.903-0.95030.613-9.304-9.3040.0000.0000.0000.000
21A178GLY0-0.037-0.02732.0670.1800.1800.0000.0000.0000.000
22A179GLU-1-0.851-0.90729.092-9.559-9.5590.0000.0000.0000.000
23A180ASP-1-0.855-0.93426.922-10.866-10.8660.0000.0000.0000.000
24A181SER0-0.098-0.04125.521-0.501-0.5010.0000.0000.0000.000
25A182PRO0-0.026-0.02721.8810.1480.1480.0000.0000.0000.000
26A183ASP-1-0.736-0.84424.426-10.991-10.9910.0000.0000.0000.000
27A184CYS0-0.058-0.02224.4810.1460.1460.0000.0000.0000.000
28A185LYS10.9690.97719.85713.42613.4260.0000.0000.0000.000
29A186LEU00.0300.01917.6360.3440.3440.0000.0000.0000.000
30A187THR0-0.054-0.02615.027-1.164-1.1640.0000.0000.0000.000
31A188LEU00.0440.01014.8350.8920.8920.0000.0000.0000.000
32A189VAL0-0.041-0.02811.056-1.846-1.8460.0000.0000.0000.000
33A190LEU00.0370.03011.7721.5271.5270.0000.0000.0000.000
34A191VAL0-0.007-0.00910.923-2.118-2.1180.0000.0000.0000.000
35A192LYS10.8530.92710.16224.48424.4840.0000.0000.0000.000
36A193ASN0-0.046-0.02713.104-1.068-1.0680.0000.0000.0000.000
37A194GLY00.0310.01716.1461.0731.0730.0000.0000.0000.000
38A195GLY00.0300.01617.362-0.409-0.4090.0000.0000.0000.000
39A196LEU0-0.0070.00518.9560.4790.4790.0000.0000.0000.000
40A197ILE0-0.0370.00413.954-1.234-1.2340.0000.0000.0000.000
41A198ASN0-0.003-0.00915.8831.7141.7140.0000.0000.0000.000
42A199GLY00.0230.01115.653-1.354-1.3540.0000.0000.0000.000
43A200TYR0-0.031-0.01916.0420.6830.6830.0000.0000.0000.000
44A201ILE0-0.011-0.00417.015-0.841-0.8410.0000.0000.0000.000
45A202THR0-0.048-0.03419.1480.4520.4520.0000.0000.0000.000
46A203LEU00.0490.02820.543-0.588-0.5880.0000.0000.0000.000
47A204MET0-0.047-0.02522.5400.0980.0980.0000.0000.0000.000
48A205GLY00.0310.02324.180-0.268-0.2680.0000.0000.0000.000
49A206ALA0-0.090-0.04924.686-0.313-0.3130.0000.0000.0000.000
50A207SER00.016-0.00226.8460.2180.2180.0000.0000.0000.000
51A208GLU-1-0.884-0.92330.337-8.375-8.3750.0000.0000.0000.000
52A209TYR00.000-0.00131.5780.2770.2770.0000.0000.0000.000
53A210THR00.013-0.01228.1410.0230.0230.0000.0000.0000.000
54A211ASN0-0.021-0.02630.159-0.247-0.2470.0000.0000.0000.000
55A212THR00.0130.00132.7620.3330.3330.0000.0000.0000.000
56A213LEU0-0.0230.00731.3510.2370.2370.0000.0000.0000.000
57A214PHE00.014-0.00331.6730.1580.1580.0000.0000.0000.000
58A215LYS10.9180.97636.5237.9207.9200.0000.0000.0000.000
59A216ASN0-0.066-0.03038.4020.4140.4140.0000.0000.0000.000
60A217ASN00.003-0.00539.440-0.247-0.2470.0000.0000.0000.000
61A218GLN0-0.051-0.01539.6440.0190.0190.0000.0000.0000.000
62A219VAL0-0.002-0.00234.0650.0090.0090.0000.0000.0000.000
63A220THR0-0.054-0.03332.792-0.007-0.0070.0000.0000.0000.000
64A221ILE0-0.0040.01327.9410.0370.0370.0000.0000.0000.000
65A222ASP-1-0.850-0.93227.991-10.121-10.1210.0000.0000.0000.000
66A223VAL0-0.033-0.02521.404-0.227-0.2270.0000.0000.0000.000
67A224ASN00.0180.00923.792-0.159-0.1590.0000.0000.0000.000
68A225LEU00.0080.00117.355-0.392-0.3920.0000.0000.0000.000
69A226ALA00.0390.02321.0830.2280.2280.0000.0000.0000.000
70A227PHE0-0.001-0.01315.267-0.624-0.6240.0000.0000.0000.000
71A228ASP-1-0.711-0.85017.176-15.101-15.1010.0000.0000.0000.000
72A229ASN0-0.004-0.02019.015-0.707-0.7070.0000.0000.0000.000
73A230THR0-0.062-0.03014.797-0.532-0.5320.0000.0000.0000.000
74A231GLY00.0650.00914.301-1.178-1.1780.0000.0000.0000.000
75A232GLN0-0.065-0.03111.647-1.987-1.9870.0000.0000.0000.000
76A233ILE0-0.011-0.01114.8920.9410.9410.0000.0000.0000.000
77A234ILE00.0090.00616.9370.0140.0140.0000.0000.0000.000
78A235THR0-0.0050.00218.3160.6130.6130.0000.0000.0000.000
79A236TYR0-0.006-0.01220.9130.2020.2020.0000.0000.0000.000
80A237LEU0-0.038-0.01623.7380.4740.4740.0000.0000.0000.000
81A238SER0-0.024-0.00421.0290.0730.0730.0000.0000.0000.000
82A239SER00.0350.02322.9930.1090.1090.0000.0000.0000.000
83A240LEU0-0.026-0.01215.2530.0020.0020.0000.0000.0000.000
84A241LYS10.8850.94919.66711.75311.7530.0000.0000.0000.000
85A242SER0-0.053-0.03214.876-0.343-0.3430.0000.0000.0000.000
86A243ASN00.0310.01112.1490.5570.5570.0000.0000.0000.000
87A244LEU00.0320.02510.670-0.933-0.9330.0000.0000.0000.000
88A245ASN00.0170.0005.665-3.478-3.4780.0000.0000.0000.000
93A250GLN00.0220.0035.9763.0483.0480.0000.0000.0000.000
94A251ASN00.0080.0166.8695.8935.8930.0000.0000.0000.000
95A252MET00.0060.0276.362-3.898-3.8980.0000.0000.0000.000
99A256THR0-0.024-0.0056.4820.8910.8910.0000.0000.0000.000
100A257ILE0-0.0090.0106.413-1.275-1.2750.0000.0000.0000.000
101A258THR0-0.039-0.0208.5302.4442.4440.0000.0000.0000.000
102A259SER0-0.004-0.00110.615-0.264-0.2640.0000.0000.0000.000
103A260ALA0-0.0010.00010.438-1.874-1.8740.0000.0000.0000.000
104A261LYS10.8630.92411.75214.95714.9570.0000.0000.0000.000
105A262GLY00.0160.02813.9560.4510.4510.0000.0000.0000.000
106A263PHE0-0.044-0.0507.884-0.720-0.7200.0000.0000.0000.000
107A264MET0-0.0300.03313.8900.5520.5520.0000.0000.0000.000
108A265PRO00.0300.00817.3590.0180.0180.0000.0000.0000.000
109A266SER00.0090.01420.6870.4140.4140.0000.0000.0000.000
110A267THR0-0.004-0.02622.5190.5210.5210.0000.0000.0000.000
111A268THR0-0.075-0.02625.2260.5240.5240.0000.0000.0000.000
112A269ALA0-0.043-0.03025.4080.3380.3380.0000.0000.0000.000
113A270TYR0-0.0040.01023.230-0.073-0.0730.0000.0000.0000.000
114A271PRO00.0460.02126.822-0.278-0.2780.0000.0000.0000.000
115A272PHE00.0100.01224.888-0.077-0.0770.0000.0000.0000.000
116A273ILE0-0.088-0.04130.4580.2480.2480.0000.0000.0000.000
117A274THR0-0.046-0.02334.021-0.004-0.0040.0000.0000.0000.000
118A275TYR0-0.041-0.02436.2960.3190.3190.0000.0000.0000.000
119A276ALA0-0.005-0.01939.270-0.083-0.0830.0000.0000.0000.000
120A277THR0-0.055-0.03341.1720.0410.0410.0000.0000.0000.000
121A278GLU-1-0.799-0.87836.479-8.229-8.2290.0000.0000.0000.000
122A279THR0-0.046-0.02537.763-0.125-0.1250.0000.0000.0000.000
123A280LEU00.0120.02432.210-0.113-0.1130.0000.0000.0000.000
124A281ASN00.008-0.01333.329-0.181-0.1810.0000.0000.0000.000
125A282GLU-1-0.873-0.94831.252-8.985-8.9850.0000.0000.0000.000
126A283ASP-1-0.818-0.91628.461-10.399-10.3990.0000.0000.0000.000
127A284TYR0-0.085-0.02927.953-0.328-0.3280.0000.0000.0000.000
128A285ILE0-0.024-0.00424.056-0.004-0.0040.0000.0000.0000.000
129A286TYR00.0060.00328.191-0.054-0.0540.0000.0000.0000.000
130A287GLY0-0.001-0.01029.224-0.150-0.1500.0000.0000.0000.000
131A288GLU-1-0.918-0.94229.752-8.800-8.8000.0000.0000.0000.000
132A289CYS0-0.081-0.00227.291-0.445-0.4450.0000.0000.0000.000
133A290TYR00.002-0.03029.0340.3110.3110.0000.0000.0000.000
134A291TYR0-0.012-0.01429.476-0.494-0.4940.0000.0000.0000.000
135A292LYS10.8900.94631.4359.8489.8480.0000.0000.0000.000
136A293SER00.0320.01733.036-0.134-0.1340.0000.0000.0000.000
137A294THR0-0.038-0.05235.873-0.114-0.1140.0000.0000.0000.000
138A295ASN0-0.0250.01237.301-0.093-0.0930.0000.0000.0000.000
139A296GLY0-0.037-0.02236.2560.0940.0940.0000.0000.0000.000
140A297THR0-0.014-0.02936.752-0.147-0.1470.0000.0000.0000.000
141A298LEU0-0.024-0.01732.683-0.225-0.2250.0000.0000.0000.000
142A299PHE00.0450.02434.9460.2110.2110.0000.0000.0000.000
143A300PRO0-0.013-0.00734.059-0.328-0.3280.0000.0000.0000.000
144A301LEU0-0.033-0.01929.6880.1270.1270.0000.0000.0000.000
145A302LYS10.9780.98031.1577.9887.9880.0000.0000.0000.000
146A303VAL00.000-0.00126.076-0.001-0.0010.0000.0000.0000.000
147A304THR0-0.007-0.00929.2270.3020.3020.0000.0000.0000.000
148A305VAL0-0.0010.00323.093-0.164-0.1640.0000.0000.0000.000
149A306THR0-0.025-0.01826.0010.5310.5310.0000.0000.0000.000
150A307LEU0-0.025-0.01222.183-0.517-0.5170.0000.0000.0000.000
151A308ASN00.006-0.02623.1040.0850.0850.0000.0000.0000.000
152A309ARG10.9450.98825.8639.2069.2060.0000.0000.0000.000
153A310ARG10.9070.93728.5299.1219.1210.0000.0000.0000.000
154A311MET0-0.0060.01026.868-0.291-0.2910.0000.0000.0000.000
155A312LEU0-0.023-0.03126.5560.3220.3220.0000.0000.0000.000
156A313ALA00.000-0.00527.2280.2390.2390.0000.0000.0000.000
157A314SER00.001-0.00627.863-0.257-0.2570.0000.0000.0000.000
158A315GLY0-0.0030.00624.892-0.038-0.0380.0000.0000.0000.000
159A316MET0-0.0510.00923.124-0.403-0.4030.0000.0000.0000.000
160A317ALA0-0.022-0.00721.4710.3980.3980.0000.0000.0000.000
161A318TYR0-0.045-0.04119.535-0.090-0.0900.0000.0000.0000.000
162A319ALA00.002-0.00422.061-0.038-0.0380.0000.0000.0000.000
163A320MET0-0.0180.00017.130-0.132-0.1320.0000.0000.0000.000
164A321ASN00.0140.01421.828-0.647-0.6470.0000.0000.0000.000
165A322PHE00.022-0.00319.5280.0430.0430.0000.0000.0000.000
166A323SER00.0230.02625.0750.1800.1800.0000.0000.0000.000
167A324TRP00.006-0.02322.916-0.149-0.1490.0000.0000.0000.000
168A325SER0-0.017-0.01229.9420.2430.2430.0000.0000.0000.000
169A326LEU00.0010.00833.776-0.050-0.0500.0000.0000.0000.000
170A327ASN0-0.010-0.02435.9130.2060.2060.0000.0000.0000.000
171A328ALA0-0.029-0.00639.6060.0310.0310.0000.0000.0000.000
172A329GLU-1-0.881-0.93741.707-6.661-6.6610.0000.0000.0000.000
173A330GLU-1-0.968-0.99144.237-6.741-6.7410.0000.0000.0000.000
174A331ALA0-0.024-0.01741.210-0.173-0.1730.0000.0000.0000.000
175A332PRO0-0.042-0.01136.9000.0430.0430.0000.0000.0000.000
176A333GLU-1-0.709-0.80236.216-8.648-8.6480.0000.0000.0000.000
177A334THR0-0.032-0.03039.6150.2570.2570.0000.0000.0000.000
178A335THR0-0.045-0.03238.8960.1810.1810.0000.0000.0000.000
179A336GLU-1-0.847-0.91633.698-9.289-9.2890.0000.0000.0000.000
180A337VAL0-0.028-0.02733.1970.0020.0020.0000.0000.0000.000
181A338THR0-0.059-0.02727.424-0.001-0.0010.0000.0000.0000.000
182A339LEU00.0520.05028.128-0.078-0.0780.0000.0000.0000.000
183A340ILE0-0.017-0.02324.958-0.542-0.5420.0000.0000.0000.000
184A341THR00.0330.03025.2630.2550.2550.0000.0000.0000.000
185A342SER00.0130.01524.755-0.414-0.4140.0000.0000.0000.000
186A343PRO0-0.069-0.04120.9650.0440.0440.0000.0000.0000.000
187A344PHE00.0410.03822.3750.4120.4120.0000.0000.0000.000
188A345PHE0-0.026-0.02920.403-0.838-0.8380.0000.0000.0000.000
189A346PHE0-0.0030.01018.6800.5850.5850.0000.0000.0000.000
190A347SER00.025-0.00220.243-0.738-0.7380.0000.0000.0000.000
191A348TYR0-0.054-0.02416.5990.6730.6730.0000.0000.0000.000
192A349ILE00.0130.00320.401-0.656-0.6560.0000.0000.0000.000
193A350ARG10.7700.87515.45317.26217.2620.0000.0000.0000.000
194A351GLU-1-0.754-0.85118.190-12.268-12.2680.0000.0000.0000.000
195A352ASP-1-0.911-0.95117.560-14.165-14.1650.0000.0000.0000.000
196A353ASP-2-1.662-1.81313.125-35.590-35.5900.0000.0000.0000.000