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: RQ2G8

Calculation Name: 1V58-A-Xray547

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1V58

Chain ID: A

ChEMBL ID:

UniProt ID: P77202

Base Structure: X-ray

Registration Date: 2025-10-03

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 229
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2546163.564455
FMO2-HF: Nuclear repulsion 2456165.841592
FMO2-HF: Total energy -89997.722862
FMO2-MP2: Total energy -90256.956617


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:GLU)


Summations of interaction energy for fragment #1(A:2:GLU)
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.
-4.721-5.84510.221-4.201-4.8970.03
Interaction energy analysis for fragmet #1(A:2:GLU)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.027 / q_NPA : -0.020
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].
3A4PRO00.0300.0083.231-6.296-4.1600.082-1.112-1.1070.000
7A8LYS10.9310.9771.734-15.461-18.72110.139-3.089-3.7900.030
4A5ALA00.0290.0115.8753.2333.2330.0000.0000.0000.000
5A6PRO0-0.002-0.0026.6521.3581.3580.0000.0000.0000.000
6A7VAL00.0360.0247.1330.3550.3550.0000.0000.0000.000
8A9ALA0-0.071-0.0336.4810.3140.3140.0000.0000.0000.000
9A10ILE0-0.001-0.0039.986-0.156-0.1560.0000.0000.0000.000
10A11GLU-1-0.858-0.9395.95715.00315.0030.0000.0000.0000.000
11A12LYS10.9150.9518.224-4.771-4.7710.0000.0000.0000.000
12A13GLN0-0.0240.00611.777-0.378-0.3780.0000.0000.0000.000
13A14GLY00.0010.00813.597-0.378-0.3780.0000.0000.0000.000
14A15ILE0-0.074-0.03812.257-0.314-0.3140.0000.0000.0000.000
15A16THR00.0060.00810.7991.0981.0980.0000.0000.0000.000
16A17ILE0-0.031-0.0277.858-1.219-1.2190.0000.0000.0000.000
17A18ILE0-0.008-0.00111.0130.4500.4500.0000.0000.0000.000
18A19LYS10.8770.91811.784-1.422-1.4220.0000.0000.0000.000
19A20THR0-0.032-0.0129.665-0.085-0.0850.0000.0000.0000.000
20A21PHE0-0.044-0.02712.368-0.061-0.0610.0000.0000.0000.000
21A22ASP-1-0.877-0.93115.652-0.591-0.5910.0000.0000.0000.000
22A23ALA0-0.024-0.01717.8310.2030.2030.0000.0000.0000.000
23A24PRO00.0450.01219.711-0.180-0.1800.0000.0000.0000.000
24A25GLY00.0110.00120.894-0.033-0.0330.0000.0000.0000.000
25A26GLY00.0030.00918.491-0.101-0.1010.0000.0000.0000.000
26A27MET0-0.051-0.01316.546-0.230-0.2300.0000.0000.0000.000
27A28LYS10.9110.9579.9431.3691.3690.0000.0000.0000.000
28A29GLY00.0520.03314.0860.1310.1310.0000.0000.0000.000
29A30TYR0-0.027-0.0268.226-0.286-0.2860.0000.0000.0000.000
30A31LEU00.0330.02612.997-0.119-0.1190.0000.0000.0000.000
31A32GLY00.0490.01313.8590.6330.6330.0000.0000.0000.000
32A33LYS10.8840.96014.799-2.780-2.7800.0000.0000.0000.000
33A34TYR00.0010.02015.4680.4160.4160.0000.0000.0000.000
34A35GLN0-0.006-0.01117.762-0.385-0.3850.0000.0000.0000.000
35A36ASP-1-0.836-0.93219.2922.0342.0340.0000.0000.0000.000
36A37MET0-0.039-0.00521.186-0.141-0.1410.0000.0000.0000.000
37A38GLY00.0400.00319.5160.2570.2570.0000.0000.0000.000
38A39VAL0-0.029-0.02115.992-0.183-0.1830.0000.0000.0000.000
39A40THR00.0230.02716.7170.1310.1310.0000.0000.0000.000
40A41ILE0-0.008-0.00811.601-0.133-0.1330.0000.0000.0000.000
41A42TYR00.003-0.02114.528-0.040-0.0400.0000.0000.0000.000
42A43LEU0-0.046-0.02110.036-0.068-0.0680.0000.0000.0000.000
43A44THR00.002-0.04513.546-0.040-0.0400.0000.0000.0000.000
44A45PRO00.0640.02515.046-0.388-0.3880.0000.0000.0000.000
45A46ASP-1-0.798-0.84515.953-1.896-1.8960.0000.0000.0000.000
46A47GLY0-0.015-0.01311.961-0.463-0.4630.0000.0000.0000.000
47A48LYS10.8900.93911.0273.0793.0790.0000.0000.0000.000
48A49HIS10.8640.90713.1941.5161.5160.0000.0000.0000.000
49A50ALA00.0120.01011.849-0.233-0.2330.0000.0000.0000.000
50A51ILE00.0130.01613.9180.1290.1290.0000.0000.0000.000
51A52SER00.0150.01015.4300.1050.1050.0000.0000.0000.000
52A53GLY00.0190.00616.880-0.122-0.1220.0000.0000.0000.000
53A54TYR0-0.011-0.01020.2730.0390.0390.0000.0000.0000.000
54A55MET0-0.0090.00520.711-0.110-0.1100.0000.0000.0000.000
55A56TYR00.010-0.01023.7760.0630.0630.0000.0000.0000.000
56A57ASN0-0.016-0.01127.442-0.070-0.0700.0000.0000.0000.000
57A58GLU-1-0.903-0.96329.729-0.089-0.0890.0000.0000.0000.000
58A59LYS10.9050.95633.157-0.075-0.0750.0000.0000.0000.000
59A60GLY00.0230.02132.9580.0170.0170.0000.0000.0000.000
60A61GLU-1-0.848-0.90029.4830.3770.3770.0000.0000.0000.000
61A62ASN00.0210.00326.0410.0060.0060.0000.0000.0000.000
62A63LEU00.0460.02224.8220.0520.0520.0000.0000.0000.000
63A64SER0-0.006-0.00520.954-0.002-0.0020.0000.0000.0000.000
64A65ASN0-0.062-0.03323.3330.1790.1790.0000.0000.0000.000
65A66THR0-0.001-0.01326.0310.0800.0800.0000.0000.0000.000
66A67LEU0-0.020-0.01119.0460.0430.0430.0000.0000.0000.000
67A68ILE0-0.030-0.01420.8470.1200.1200.0000.0000.0000.000
68A69GLU-1-0.791-0.88823.0160.8030.8030.0000.0000.0000.000
69A70LYS10.9410.96624.837-0.723-0.7230.0000.0000.0000.000
70A71GLU-1-0.873-0.93020.6881.1151.1150.0000.0000.0000.000
71A72ILE0-0.078-0.02718.6730.1840.1840.0000.0000.0000.000
72A73TYR0-0.018-0.00822.3750.0770.0770.0000.0000.0000.000
73A74ALA00.0450.04025.937-0.012-0.0120.0000.0000.0000.000
74A75PRO0-0.059-0.03223.871-0.042-0.0420.0000.0000.0000.000
75A76ALA00.003-0.00226.139-0.051-0.0510.0000.0000.0000.000
76A77GLY00.0510.03427.897-0.044-0.0440.0000.0000.0000.000
77A78ARG10.9160.95330.010-0.740-0.7400.0000.0000.0000.000
78A79GLU-1-0.925-0.96931.5940.6920.6920.0000.0000.0000.000
79A80MET00.0940.04233.398-0.058-0.0580.0000.0000.0000.000
80A81TRP0-0.011-0.00335.283-0.042-0.0420.0000.0000.0000.000
81A82GLN0-0.021-0.01233.961-0.034-0.0340.0000.0000.0000.000
82A83ARG10.8720.93336.258-0.717-0.7170.0000.0000.0000.000
83A84MET0-0.0090.01938.401-0.033-0.0330.0000.0000.0000.000
84A85GLU-1-0.980-0.98741.0040.3630.3630.0000.0000.0000.000
85A86GLN0-0.016-0.00739.521-0.009-0.0090.0000.0000.0000.000
86A87SER0-0.0090.00243.248-0.005-0.0050.0000.0000.0000.000
87A88HIS0-0.019-0.01345.711-0.013-0.0130.0000.0000.0000.000
88A89TRP0-0.037-0.03646.105-0.014-0.0140.0000.0000.0000.000
89A90LEU0-0.062-0.03049.579-0.019-0.0190.0000.0000.0000.000
90A91LEU0-0.011-0.01151.0280.0080.0080.0000.0000.0000.000
91A92ASP-1-0.766-0.87352.4360.2680.2680.0000.0000.0000.000
92A93GLY00.0870.04952.5940.0110.0110.0000.0000.0000.000
93A94LYS10.8330.90153.672-0.206-0.2060.0000.0000.0000.000
94A95LYS10.9540.96651.642-0.236-0.2360.0000.0000.0000.000
95A96ASP-1-0.850-0.91049.9930.2220.2220.0000.0000.0000.000
96A97ALA00.0050.02049.634-0.003-0.0030.0000.0000.0000.000
97A98PRO0-0.0180.00045.1700.0140.0140.0000.0000.0000.000
98A99VAL00.0040.00843.5030.0210.0210.0000.0000.0000.000
99A100ILE0-0.008-0.00342.799-0.007-0.0070.0000.0000.0000.000
100A101VAL0-0.007-0.00542.9860.0250.0250.0000.0000.0000.000
101A102TYR00.0470.02641.447-0.030-0.0300.0000.0000.0000.000
102A103VAL0-0.036-0.02244.3000.0130.0130.0000.0000.0000.000
103A104PHE00.0380.04041.814-0.018-0.0180.0000.0000.0000.000
104A105ALA00.016-0.02846.7790.0020.0020.0000.0000.0000.000
105A106ASP-1-0.658-0.79050.3120.3690.3690.0000.0000.0000.000
106A107PRO00.0350.01352.876-0.007-0.0070.0000.0000.0000.000
107A108PHE0-0.026-0.00256.096-0.014-0.0140.0000.0000.0000.000
108A109CYS00.0080.04651.6390.0050.0050.0000.0000.0000.000
109A110PRO0-0.008-0.01854.445-0.009-0.0090.0000.0000.0000.000
110A111TYR00.0400.00150.305-0.012-0.0120.0000.0000.0000.000
111A112CYS0-0.0240.01851.3060.0080.0080.0000.0000.0000.000
112A113LYS10.7920.90052.564-0.320-0.3200.0000.0000.0000.000
113A114GLN0-0.018-0.01154.005-0.001-0.0010.0000.0000.0000.000
114A115PHE00.0640.02747.257-0.006-0.0060.0000.0000.0000.000
115A116TRP00.0120.00151.816-0.009-0.0090.0000.0000.0000.000
116A117GLN0-0.017-0.01653.972-0.014-0.0140.0000.0000.0000.000
117A118GLN0-0.017-0.03050.381-0.003-0.0030.0000.0000.0000.000
118A119ALA00.0370.01151.114-0.008-0.0080.0000.0000.0000.000
119A120ARG10.7500.87152.503-0.279-0.2790.0000.0000.0000.000
120A121PRO00.0190.01854.274-0.008-0.0080.0000.0000.0000.000
121A122TRP00.0030.02049.468-0.011-0.0110.0000.0000.0000.000
122A123VAL0-0.0010.01751.778-0.003-0.0030.0000.0000.0000.000
123A124ASP-1-0.873-0.94753.6160.2280.2280.0000.0000.0000.000
124A125SER0-0.124-0.08654.300-0.009-0.0090.0000.0000.0000.000
125A126GLY0-0.023-0.01653.633-0.007-0.0070.0000.0000.0000.000
126A127LYS10.9420.97549.331-0.239-0.2390.0000.0000.0000.000
127A128VAL00.0330.00247.2740.0110.0110.0000.0000.0000.000
128A129GLN0-0.078-0.02947.595-0.008-0.0080.0000.0000.0000.000
129A130LEU00.0050.00047.8190.0210.0210.0000.0000.0000.000
130A131ARG10.8450.92144.937-0.379-0.3790.0000.0000.0000.000
131A132THR0-0.013-0.01747.3670.0230.0230.0000.0000.0000.000
132A133LEU0-0.0020.01344.182-0.015-0.0150.0000.0000.0000.000
133A134LEU0-0.019-0.01748.2740.0110.0110.0000.0000.0000.000
134A135VAL00.0190.01347.2410.0080.0080.0000.0000.0000.000
135A136GLY0-0.055-0.05150.686-0.019-0.0190.0000.0000.0000.000
136A137VAL00.0350.00748.2790.0010.0010.0000.0000.0000.000
137A138ILE0-0.064-0.02351.5660.0010.0010.0000.0000.0000.000
138A139LYS10.8880.93953.584-0.352-0.3520.0000.0000.0000.000
139A140PRO00.0310.00456.9180.0030.0030.0000.0000.0000.000
140A141GLU-1-0.865-0.92958.9290.2770.2770.0000.0000.0000.000
141A142SER0-0.082-0.05255.211-0.009-0.0090.0000.0000.0000.000
142A143PRO00.0560.02254.776-0.004-0.0040.0000.0000.0000.000
143A144ALA00.0260.03056.573-0.004-0.0040.0000.0000.0000.000
144A145THR00.024-0.00259.597-0.011-0.0110.0000.0000.0000.000
145A146ALA00.0190.00455.185-0.007-0.0070.0000.0000.0000.000
146A147ALA00.0070.00457.314-0.004-0.0040.0000.0000.0000.000
147A148ALA0-0.012-0.01158.823-0.009-0.0090.0000.0000.0000.000
148A149ILE0-0.030-0.01257.904-0.010-0.0100.0000.0000.0000.000
149A150LEU00.0020.00254.268-0.009-0.0090.0000.0000.0000.000
150A151ALA0-0.0270.00158.678-0.004-0.0040.0000.0000.0000.000
151A152SER0-0.079-0.02261.668-0.014-0.0140.0000.0000.0000.000
152A153LYS10.9320.94462.945-0.193-0.1930.0000.0000.0000.000
153A154ASP-1-0.794-0.88461.0920.2200.2200.0000.0000.0000.000
154A155PRO00.0300.02357.7660.0010.0010.0000.0000.0000.000
155A156ALA00.0470.04456.8300.0080.0080.0000.0000.0000.000
156A157LYS10.8820.92557.974-0.202-0.2020.0000.0000.0000.000
157A158THR0-0.017-0.02861.244-0.004-0.0040.0000.0000.0000.000
158A159TRP00.0360.01653.400-0.003-0.0030.0000.0000.0000.000
159A160GLN0-0.0030.00557.2860.0020.0020.0000.0000.0000.000
160A161GLN0-0.015-0.01759.105-0.001-0.0010.0000.0000.0000.000
161A162TYR0-0.053-0.02358.456-0.007-0.0070.0000.0000.0000.000
162A163GLU-1-0.762-0.88255.1910.3180.3180.0000.0000.0000.000
163A164ALA00.0240.02458.904-0.001-0.0010.0000.0000.0000.000
164A165SER0-0.089-0.04561.329-0.006-0.0060.0000.0000.0000.000
165A166GLY0-0.002-0.01560.550-0.004-0.0040.0000.0000.0000.000
166A167GLY0-0.007-0.01161.4190.0050.0050.0000.0000.0000.000
167A168LYS10.8430.91161.975-0.238-0.2380.0000.0000.0000.000
168A169LEU0-0.037-0.00263.680-0.009-0.0090.0000.0000.0000.000
169A170LYS10.9560.97365.679-0.190-0.1900.0000.0000.0000.000
170A171LEU00.0270.01462.442-0.003-0.0030.0000.0000.0000.000
171A172ASN0-0.029-0.01766.958-0.004-0.0040.0000.0000.0000.000
172A173VAL00.0310.01364.0980.0030.0030.0000.0000.0000.000
173A174PRO0-0.032-0.01363.640-0.007-0.0070.0000.0000.0000.000
174A175ALA00.0020.00265.9090.0040.0040.0000.0000.0000.000
175A176ASN0-0.044-0.02962.593-0.004-0.0040.0000.0000.0000.000
176A177VAL00.0310.02857.391-0.004-0.0040.0000.0000.0000.000
177A178SER00.0090.00859.2450.0020.0020.0000.0000.0000.000
178A179THR00.0430.00156.6590.0080.0080.0000.0000.0000.000
179A180GLU-1-0.867-0.93053.3110.3410.3410.0000.0000.0000.000
180A181GLN0-0.0030.00054.1270.0120.0120.0000.0000.0000.000
181A182MET00.0320.00853.6340.0130.0130.0000.0000.0000.000
182A183LYS10.9360.99748.804-0.363-0.3630.0000.0000.0000.000
183A184VAL00.0090.00549.7660.0180.0180.0000.0000.0000.000
184A185LEU0-0.059-0.01549.4690.0130.0130.0000.0000.0000.000
185A186SER00.017-0.00448.3640.0190.0190.0000.0000.0000.000
186A187ASP-1-0.905-0.96245.3840.4730.4730.0000.0000.0000.000
187A188ASN0-0.048-0.03544.3350.0360.0360.0000.0000.0000.000
188A189GLU-1-0.834-0.93544.5510.4540.4540.0000.0000.0000.000
189A190LYS10.8220.91038.233-0.657-0.6570.0000.0000.0000.000
190A191LEU0-0.016-0.00938.8730.0400.0400.0000.0000.0000.000
191A192MET0-0.031-0.01339.8250.0190.0190.0000.0000.0000.000
192A193ASP-1-0.899-0.94840.3700.7030.7030.0000.0000.0000.000
193A194ASP-1-0.789-0.87836.4440.7670.7670.0000.0000.0000.000
194A195LEU0-0.067-0.04235.4470.0550.0550.0000.0000.0000.000
195A196GLY0-0.0190.01136.2760.0240.0240.0000.0000.0000.000
196A197ALA0-0.056-0.02637.253-0.003-0.0030.0000.0000.0000.000
197A198ASN0-0.006-0.01240.442-0.032-0.0320.0000.0000.0000.000
198A199VAL0-0.040-0.01643.587-0.028-0.0280.0000.0000.0000.000
199A200THR00.0140.02245.2550.0010.0010.0000.0000.0000.000
200A201PRO0-0.055-0.06047.594-0.013-0.0130.0000.0000.0000.000
201A202ALA00.0450.03442.2760.0120.0120.0000.0000.0000.000
202A203ILE0-0.036-0.02142.892-0.015-0.0150.0000.0000.0000.000
203A204TYR00.0620.00237.5030.0120.0120.0000.0000.0000.000
204A205TYR00.0240.00938.990-0.030-0.0300.0000.0000.0000.000
205A206MET0-0.0020.02734.1600.0500.0500.0000.0000.0000.000
206A207SER0-0.004-0.01035.404-0.025-0.0250.0000.0000.0000.000
207A208LYS10.8970.94030.882-0.618-0.6180.0000.0000.0000.000
208A209GLU-1-0.901-0.94328.4560.6160.6160.0000.0000.0000.000
209A210ASN0-0.050-0.03130.3280.0170.0170.0000.0000.0000.000
210A211THR00.011-0.00229.8520.0680.0680.0000.0000.0000.000
211A212LEU0-0.037-0.01431.661-0.052-0.0520.0000.0000.0000.000
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