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: N6K2Q

Calculation Name: 4V6W-A-Other549

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 4V6W

Chain ID: A

ChEMBL ID:

UniProt ID: P13060

Base Structure: ElectronMicroscopy

Registration Date: 2025-10-11

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 OptH
Protonation MOE:Protonate 3D
Complement ac.sh, 23 2024 Oct
Water No
Procedure Manual calculation
Remarks
Original chain id is "AB", which converted from A;
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 220
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2581725.170537
FMO2-HF: Nuclear repulsion 2492175.184649
FMO2-HF: Total energy -89549.985887
FMO2-MP2: Total energy -89811.08848


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:17:GLY)


Summations of interaction energy for fragment #1(A:17:GLY)
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.
174.655175.945-0.01-0.564-0.715-0.003
Interaction energy analysis for fragmet #1(A:17:GLY)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.909 / q_NPA : 0.940
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].
3A19LYS11.0351.0163.82940.10241.392-0.010-0.564-0.715-0.003
4A20LYS10.9500.9776.45224.91324.9130.0000.0000.0000.000
5A21VAL0-0.005-0.0119.6360.7900.7900.0000.0000.0000.000
6A22VAL00.1010.05412.677-0.439-0.4390.0000.0000.0000.000
7A23ASP-1-0.847-0.90914.849-15.614-15.6140.0000.0000.0000.000
8A24PRO0-0.075-0.04014.508-0.054-0.0540.0000.0000.0000.000
9A25PHE00.0930.02316.4620.0160.0160.0000.0000.0000.000
10A26SER00.0710.05319.9800.6350.6350.0000.0000.0000.000
11A27ARG10.8170.89713.27220.79220.7920.0000.0000.0000.000
12A28LYS10.7850.89215.68018.00018.0000.0000.0000.0000.000
13A29ASP-1-0.797-0.90521.312-12.270-12.2700.0000.0000.0000.000
14A30TRP00.0280.02124.2950.2270.2270.0000.0000.0000.000
15A31TYR00.0170.00827.3770.0180.0180.0000.0000.0000.000
16A32ASP-1-0.774-0.84329.683-8.846-8.8460.0000.0000.0000.000
17A33VAL0-0.047-0.01931.162-0.115-0.1150.0000.0000.0000.000
18A34LYS10.8900.93333.9189.0359.0350.0000.0000.0000.000
19A35ALA00.0380.02936.847-0.197-0.1970.0000.0000.0000.000
20A36PRO00.0230.00539.5760.0530.0530.0000.0000.0000.000
21A37ASN00.016-0.00142.0170.0530.0530.0000.0000.0000.000
22A38MET0-0.061-0.01945.3340.0840.0840.0000.0000.0000.000
23A39PHE0-0.019-0.02044.9720.0210.0210.0000.0000.0000.000
24A40GLN00.0310.02246.2370.1010.1010.0000.0000.0000.000
25A41THR0-0.0340.00942.185-0.021-0.0210.0000.0000.0000.000
26A42ARG10.8800.92940.6677.5417.5410.0000.0000.0000.000
27A43GLN0-0.072-0.03237.947-0.048-0.0480.0000.0000.0000.000
28A44ILE00.014-0.01135.8970.1630.1630.0000.0000.0000.000
29A45GLY00.0140.01434.612-0.102-0.1020.0000.0000.0000.000
30A46LYS10.8940.94131.8089.0429.0420.0000.0000.0000.000
31A47THR0-0.023-0.00827.509-0.187-0.1870.0000.0000.0000.000
32A48LEU00.0180.01424.249-0.063-0.0630.0000.0000.0000.000
33A49VAL00.0420.03022.807-0.574-0.5740.0000.0000.0000.000
34A50ASN0-0.071-0.06017.514-1.332-1.3320.0000.0000.0000.000
35A51ARG10.9570.98819.57014.65614.6560.0000.0000.0000.000
36A52THR00.0400.02218.710-0.894-0.8940.0000.0000.0000.000
37A53GLN0-0.030-0.01312.652-0.336-0.3360.0000.0000.0000.000
38A54GLY00.0970.05117.4510.3440.3440.0000.0000.0000.000
39A55GLN00.0180.0069.9601.1981.1980.0000.0000.0000.000
40A56ARG10.8270.91112.59320.74120.7410.0000.0000.0000.000
41A57ILE00.1220.07416.4280.5200.5200.0000.0000.0000.000
42A58ALA0-0.025-0.02719.9600.1620.1620.0000.0000.0000.000
43A59SER00.0580.03221.3580.1910.1910.0000.0000.0000.000
44A60ASP-1-0.790-0.89121.847-12.902-12.9020.0000.0000.0000.000
45A61TYR0-0.148-0.09216.069-0.439-0.4390.0000.0000.0000.000
46A62LEU00.0040.00421.9710.0050.0050.0000.0000.0000.000
47A63LYS10.9130.96025.69710.98110.9810.0000.0000.0000.000
48A64GLY0-0.055-0.01625.8980.3380.3380.0000.0000.0000.000
49A65ARG10.8520.94720.95013.80413.8040.0000.0000.0000.000
50A66VAL00.006-0.00727.9080.3370.3370.0000.0000.0000.000
51A67PHE00.0050.00730.342-0.296-0.2960.0000.0000.0000.000
52A68GLU-1-0.847-0.91432.650-8.508-8.5080.0000.0000.0000.000
53A69VAL00.0220.01935.755-0.138-0.1380.0000.0000.0000.000
54A70SER00.0000.00038.5000.1210.1210.0000.0000.0000.000
55A71LEU0-0.008-0.01242.234-0.031-0.0310.0000.0000.0000.000
56A72ALA00.0240.01444.3700.0930.0930.0000.0000.0000.000
57A73ASP-1-0.865-0.93342.476-7.255-7.2550.0000.0000.0000.000
58A74LEU0-0.056-0.02940.5780.0030.0030.0000.0000.0000.000
59A75GLN0-0.040-0.03843.8280.1050.1050.0000.0000.0000.000
60A76LYS10.9420.97345.7317.0077.0070.0000.0000.0000.000
61A77ASP-1-0.825-0.91148.105-6.022-6.0220.0000.0000.0000.000
62A78ILE0-0.007-0.01050.365-0.075-0.0750.0000.0000.0000.000
63A79ASP-1-0.906-0.94252.272-5.811-5.8110.0000.0000.0000.000
64A80PRO0-0.0230.00149.1200.0210.0210.0000.0000.0000.000
65A81GLU-1-0.822-0.91051.321-5.799-5.7990.0000.0000.0000.000
66A82ARG10.7820.87248.5986.0526.0520.0000.0000.0000.000
67A83SER0-0.008-0.00347.244-0.161-0.1610.0000.0000.0000.000
68A84PHE0-0.001-0.00145.690-0.232-0.2320.0000.0000.0000.000
69A85ARG10.8240.89945.1176.2406.2400.0000.0000.0000.000
70A86LYS10.8790.93637.3838.2328.2320.0000.0000.0000.000
71A87PHE00.0240.00040.9320.0620.0620.0000.0000.0000.000
72A88ARG10.8600.93432.9078.8938.8930.0000.0000.0000.000
73A89LEU00.0100.01435.4290.1480.1480.0000.0000.0000.000
74A90ILE0-0.027-0.02831.743-0.316-0.3160.0000.0000.0000.000
75A91ALA00.0120.01329.8870.2640.2640.0000.0000.0000.000
76A92GLU-1-0.844-0.90830.768-9.108-9.1080.0000.0000.0000.000
77A93ASP-1-0.812-0.92931.282-10.106-10.1060.0000.0000.0000.000
78A94VAL0-0.066-0.03427.367-0.030-0.0300.0000.0000.0000.000
79A95GLN00.0100.00930.677-0.171-0.1710.0000.0000.0000.000
80A96ASP-1-0.864-0.93631.409-9.766-9.7660.0000.0000.0000.000
81A97ARG10.8370.90626.82211.66511.6650.0000.0000.0000.000
82A98ASN0-0.002-0.00332.1000.3200.3200.0000.0000.0000.000
83A99VAL0-0.012-0.01029.792-0.264-0.2640.0000.0000.0000.000
84A100LEU0-0.0050.01233.1160.1220.1220.0000.0000.0000.000
85A101CYS0-0.066-0.02634.6010.0480.0480.0000.0000.0000.000
86A102ASN00.0590.03936.1320.4500.4500.0000.0000.0000.000
87A103PHE00.022-0.00337.646-0.178-0.1780.0000.0000.0000.000
88A104HIS0-0.016-0.01433.864-0.011-0.0110.0000.0000.0000.000
89A105GLY00.020-0.01137.9290.0010.0010.0000.0000.0000.000
90A106MET0-0.037-0.00140.4050.0070.0070.0000.0000.0000.000
91A107ASP-1-0.906-0.95339.283-7.937-7.9370.0000.0000.0000.000
92A108LEU0-0.019-0.01542.7670.1320.1320.0000.0000.0000.000
93A109THR0-0.047-0.02442.947-0.202-0.2020.0000.0000.0000.000
94A110THR0-0.015-0.01642.3270.2280.2280.0000.0000.0000.000
95A111ASP-1-0.781-0.88544.519-7.013-7.0130.0000.0000.0000.000
96A112LYS10.8350.94147.0966.2596.2590.0000.0000.0000.000
97A113TYR00.0210.01047.6710.1470.1470.0000.0000.0000.000
98A114ARG10.9640.96444.9736.9316.9310.0000.0000.0000.000
99A115SER0-0.049-0.04049.9240.1390.1390.0000.0000.0000.000
100A116MET00.0830.04752.4840.1740.1740.0000.0000.0000.000
101A117VAL0-0.0410.01551.4140.1290.1290.0000.0000.0000.000
102A118LYS10.9090.94254.0825.7615.7610.0000.0000.0000.000
103A119LYS10.9080.94357.1105.3945.3940.0000.0000.0000.000
104A120TRP00.0410.03058.8990.0040.0040.0000.0000.0000.000
105A121GLN00.0880.04358.5320.0610.0610.0000.0000.0000.000
106A122THR00.0170.01960.397-0.032-0.0320.0000.0000.0000.000
107A123LEU00.0050.03252.943-0.001-0.0010.0000.0000.0000.000
108A124ILE0-0.012-0.01256.7720.0340.0340.0000.0000.0000.000
109A125GLU-1-0.817-0.88249.911-6.517-6.5170.0000.0000.0000.000
110A126ALA0-0.031-0.03252.9730.1080.1080.0000.0000.0000.000
111A127ILE0-0.028-0.01047.823-0.134-0.1340.0000.0000.0000.000
112A128VAL00.0610.03749.9780.1360.1360.0000.0000.0000.000
113A129GLU-1-0.851-0.91545.258-7.309-7.3090.0000.0000.0000.000
114A130ALA00.0450.02248.3210.1450.1450.0000.0000.0000.000
115A131LYS10.8680.94046.2996.6236.6230.0000.0000.0000.000
116A132THR00.007-0.00246.3590.1100.1100.0000.0000.0000.000
117A133VAL00.0370.01248.7580.0100.0100.0000.0000.0000.000
118A134ASP-1-0.768-0.85244.603-6.958-6.9580.0000.0000.0000.000
119A135GLY0-0.044-0.05343.5270.0410.0410.0000.0000.0000.000
120A136TYR00.0260.01039.118-0.292-0.2920.0000.0000.0000.000
121A137LEU0-0.016-0.00442.7320.1780.1780.0000.0000.0000.000
122A138LEU0-0.028-0.01242.946-0.225-0.2250.0000.0000.0000.000
123A139ARG10.8380.90441.5677.5717.5710.0000.0000.0000.000
124A140VAL00.0160.00445.093-0.146-0.1460.0000.0000.0000.000
125A141PHE0-0.047-0.02843.7310.0690.0690.0000.0000.0000.000
126A142CYS00.0380.02948.720-0.002-0.0020.0000.0000.0000.000
127A143ILE0-0.060-0.03051.190-0.023-0.0230.0000.0000.0000.000
128A144GLY00.0550.02153.3090.0360.0360.0000.0000.0000.000
129A145PHE0-0.022-0.00852.366-0.026-0.0260.0000.0000.0000.000
130A146THR0-0.030-0.04258.0190.0900.0900.0000.0000.0000.000
131A147ALA0-0.013-0.00161.837-0.028-0.0280.0000.0000.0000.000
132A148LYS10.8380.92563.6225.0465.0460.0000.0000.0000.000
133A149ASP-1-0.834-0.92467.779-4.454-4.4540.0000.0000.0000.000
134A150GLN00.003-0.00671.0230.0310.0310.0000.0000.0000.000
135A151GLN00.0000.00272.8270.0620.0620.0000.0000.0000.000
136A152SER0-0.027-0.00271.1390.0610.0610.0000.0000.0000.000
137A153GLN00.0250.01172.334-0.045-0.0450.0000.0000.0000.000
138A154ARG10.8160.89369.2944.6114.6110.0000.0000.0000.000
139A155LYS10.9870.98367.4084.6224.6220.0000.0000.0000.000
140A156THR0-0.077-0.06965.722-0.085-0.0850.0000.0000.0000.000
141A157CYS-1-0.790-0.81665.725-4.784-4.7840.0000.0000.0000.000
142A158TYR0-0.003-0.01360.932-0.108-0.1080.0000.0000.0000.000
143A159ALA00.0280.02564.4980.0940.0940.0000.0000.0000.000
144A160GLN00.0460.01866.211-0.066-0.0660.0000.0000.0000.000
145A161GLN00.009-0.00361.751-0.045-0.0450.0000.0000.0000.000
146A162SER00.0110.00264.536-0.078-0.0780.0000.0000.0000.000
147A163GLN00.0670.03366.156-0.031-0.0310.0000.0000.0000.000
148A164VAL00.0730.03460.115-0.035-0.0350.0000.0000.0000.000
149A165ARG10.8770.95261.1394.9544.9540.0000.0000.0000.000
150A166LYS11.0031.00762.1494.5934.5930.0000.0000.0000.000
151A167ILE00.0230.01260.321-0.015-0.0150.0000.0000.0000.000
152A168ARG10.9140.94656.7835.4895.4890.0000.0000.0000.000
153A169ALA00.0060.00858.481-0.081-0.0810.0000.0000.0000.000
154A170ARG10.9370.96360.3924.8774.8770.0000.0000.0000.000
155A171MET0-0.056-0.01956.440-0.045-0.0450.0000.0000.0000.000
156A172THR0-0.018-0.01754.520-0.063-0.0630.0000.0000.0000.000
157A173ASP-1-0.890-0.93156.599-5.292-5.2920.0000.0000.0000.000
158A174ILE00.0120.01557.885-0.026-0.0260.0000.0000.0000.000
159A175ILE0-0.014-0.01551.575-0.060-0.0600.0000.0000.0000.000
160A176THR0-0.039-0.04154.065-0.083-0.0830.0000.0000.0000.000
161A177ASN0-0.035-0.00855.319-0.031-0.0310.0000.0000.0000.000
162A178GLU-1-0.870-0.92354.790-5.731-5.7310.0000.0000.0000.000
163A179VAL0-0.041-0.03049.546-0.092-0.0920.0000.0000.0000.000
164A180SER0-0.0180.00251.582-0.124-0.1240.0000.0000.0000.000
165A181GLY00.0090.01453.3240.1220.1220.0000.0000.0000.000
166A182ALA0-0.019-0.02952.215-0.009-0.0090.0000.0000.0000.000
167A183ASP-1-0.795-0.88845.397-7.152-7.1520.0000.0000.0000.000
168A184LEU00.010-0.00842.1020.0950.0950.0000.0000.0000.000
169A185LYS10.8570.91546.2336.6476.6470.0000.0000.0000.000
170A186GLN00.0290.02547.7100.0990.0990.0000.0000.0000.000
171A187LEU00.0240.01946.8210.0720.0720.0000.0000.0000.000
172A188VAL00.005-0.01645.2950.0510.0510.0000.0000.0000.000
173A189ASN00.001-0.00748.2420.0280.0280.0000.0000.0000.000
174A190LYS10.8580.91351.4335.8595.8590.0000.0000.0000.000
175A191LEU0-0.052-0.03647.0230.0670.0670.0000.0000.0000.000
176A192ALA0-0.019-0.00149.8000.0010.0010.0000.0000.0000.000
177A193LEU0-0.0120.00151.1930.0330.0330.0000.0000.0000.000
178A194ASP-1-0.816-0.89652.700-6.030-6.0300.0000.0000.0000.000
179A195SER00.0540.02054.9630.1230.1230.0000.0000.0000.000
180A196ILE0-0.0020.00152.6100.0830.0830.0000.0000.0000.000
181A197ALA00.0140.01855.3980.0770.0770.0000.0000.0000.000
182A198LYS10.9880.98557.2295.3395.3390.0000.0000.0000.000
183A199ASP-1-0.862-0.91059.851-5.063-5.0630.0000.0000.0000.000
184A200ILE00.013-0.00956.8700.0860.0860.0000.0000.0000.000
185A201GLU-1-0.909-0.96660.349-5.097-5.0970.0000.0000.0000.000
186A202LYS10.8590.91462.6205.1645.1640.0000.0000.0000.000
187A203SER0-0.038-0.00663.1800.1270.1270.0000.0000.0000.000
188A204CYS0-0.024-0.00362.3660.0410.0410.0000.0000.0000.000
189A205GLN00.0400.02464.4880.0450.0450.0000.0000.0000.000
190A206ARG10.9250.97167.0824.7954.7950.0000.0000.0000.000
191A207ILE0-0.124-0.04966.5650.0600.0600.0000.0000.0000.000
192A208TYR00.000-0.06163.9520.0040.0040.0000.0000.0000.000
193A209PRO00.0500.05066.018-0.063-0.0630.0000.0000.0000.000
194A210LEU0-0.012-0.02059.771-0.045-0.0450.0000.0000.0000.000
195A211HIS0-0.006-0.00758.3870.0980.0980.0000.0000.0000.000
196A212ASP-1-0.789-0.89854.107-5.976-5.9760.0000.0000.0000.000
197A213VAL00.0150.01056.017-0.045-0.0450.0000.0000.0000.000
198A214TYR00.003-0.00450.968-0.053-0.0530.0000.0000.0000.000
199A215ILE00.0450.00549.065-0.008-0.0080.0000.0000.0000.000
200A216ARG10.7470.86646.8256.4156.4150.0000.0000.0000.000
201A217LYS10.9120.95241.6097.1897.1890.0000.0000.0000.000
202A218VAL00.0280.03343.6220.1290.1290.0000.0000.0000.000
203A219LYS10.9490.97536.5608.2948.2940.0000.0000.0000.000
204A220VAL00.0650.01438.8780.1470.1470.0000.0000.0000.000
205A221LEU0-0.021-0.00836.8940.0120.0120.0000.0000.0000.000
206A222LYS10.9380.98737.0087.4577.4570.0000.0000.0000.000
207A223LYS10.8670.92534.3088.9928.9920.0000.0000.0000.000
208A224PRO0-0.0100.02937.052-0.194-0.1940.0000.0000.0000.000
209A225ARG10.9410.95735.3138.6588.6580.0000.0000.0000.000
210A226PHE00.010-0.00630.445-0.024-0.0240.0000.0000.0000.000
211A227ASP-1-0.912-0.96336.007-7.599-7.5990.0000.0000.0000.000
212A228VAL00.0540.02035.5600.1640.1640.0000.0000.0000.000
213A229SER00.0080.01238.6310.0660.0660.0000.0000.0000.000
214A230LYS10.8800.92542.3206.9826.9820.0000.0000.0000.000
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