FMODB

FMODB: The database of quantum mechanical data based on the FMO method

Last updated: 2024-07-23

All entries: 37450

Number of unique PDB entries: 7783

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FMODB ID: ZVZRN

Calculation Name: 2F4Q-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2F4Q

Chain ID: A

ChEMBL ID:

UniProt ID: Q9RWH8

Base Structure: X-ray

Registration Date: 2023-09-23

Reference: C. Watanabe, N. Tani, K. Kamisaka, T. Honma et al., Interaction energy analysis of Apo structure dataset on FMODB, To be published.

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
Protonation MOE:Protonate 3D
Complement MOE:Structure Preparation
Water No
Procedure Auto-FMO protocol ver. 2.20220422
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 312
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -4553139.154695
FMO2-HF: Nuclear repulsion 4430967.487945
FMO2-HF: Total energy -122171.66675
FMO2-MP2: Total energy -122533.083143


3D Structure
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:PRO)


Summations of interaction energy for fragment #1(A:2:PRO)
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.
-18.143-9.4784.656-4.84-8.482-0.007
Interaction energy analysis for fragmet #1(A:2:PRO)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.021 / q_NPA : 0.022
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].
3A4ARG10.8880.9202.897-4.087-0.9880.256-1.761-1.5940.001
4A5THR0-0.010-0.0175.623-0.060-0.0600.0000.0000.0000.000
5A6GLU-1-0.892-0.9432.422-3.950-1.5671.095-1.498-1.980-0.010
6A7LEU00.0150.0112.295-1.362-0.4242.081-0.675-2.344-0.004
7A8LEU0-0.002-0.0023.8910.3710.5640.012-0.031-0.1730.000
8A9ALA0-0.025-0.0076.3970.2760.2760.0000.0000.0000.000
9A10GLU-1-0.973-0.9684.812-2.939-2.789-0.001-0.006-0.1440.000
10A11GLU-1-0.954-0.9738.550-0.470-0.4700.0000.0000.0000.000
11A12TYR0-0.127-0.09210.7140.1660.1660.0000.0000.0000.000
12A13LEU0-0.030-0.00912.7150.0000.0000.0000.0000.0000.000
13A14ARG10.9310.97414.3570.4330.4330.0000.0000.0000.000
14A15ARG10.7610.86315.9210.2600.2600.0000.0000.0000.000
15A16GLU-1-0.877-0.94218.544-0.334-0.3340.0000.0000.0000.000
16A17GLY0-0.042-0.02621.3560.0180.0180.0000.0000.0000.000
17A18HIS0-0.017-0.01224.451-0.005-0.0050.0000.0000.0000.000
18A19ASP-1-0.849-0.92827.463-0.141-0.1410.0000.0000.0000.000
19A20PRO0-0.078-0.04525.371-0.014-0.0140.0000.0000.0000.000
20A21GLN00.0160.03523.789-0.010-0.0100.0000.0000.0000.000
21A22LYS10.8870.93420.4080.2090.2090.0000.0000.0000.000
22A23PHE00.0560.03518.6990.0210.0210.0000.0000.0000.000
23A24ARG11.0151.02115.4660.2230.2230.0000.0000.0000.000
24A39LEU00.0570.02425.4600.0000.0000.0000.0000.0000.000
25A40ALA00.0560.01226.413-0.003-0.0030.0000.0000.0000.000
26A41ARG10.8690.93320.5890.2250.2250.0000.0000.0000.000
27A42ILE00.0360.01321.0440.0010.0010.0000.0000.0000.000
28A43ALA00.0140.00523.364-0.001-0.0010.0000.0000.0000.000
29A44ARG10.9470.97226.4280.1120.1120.0000.0000.0000.000
30A45LEU0-0.0220.00320.0510.0070.0070.0000.0000.0000.000
31A46ALA0-0.0050.01224.0840.0030.0030.0000.0000.0000.000
32A47VAL0-0.008-0.00619.2610.0050.0050.0000.0000.0000.000
33A48PRO00.0220.01621.869-0.001-0.0010.0000.0000.0000.000
34A49PRO00.0500.02422.628-0.017-0.0170.0000.0000.0000.000
35A50ALA00.005-0.00123.571-0.010-0.0100.0000.0000.0000.000
36A51TYR0-0.034-0.01618.8550.0040.0040.0000.0000.0000.000
37A52GLN00.0610.01917.791-0.012-0.0120.0000.0000.0000.000
38A53ASP-1-0.845-0.92712.319-0.525-0.5250.0000.0000.0000.000
39A54VAL0-0.064-0.02913.689-0.037-0.0370.0000.0000.0000.000
40A55TYR00.0430.03711.146-0.023-0.0230.0000.0000.0000.000
41A56VAL0-0.074-0.06813.9490.0460.0460.0000.0000.0000.000
42A57SER00.0370.00315.251-0.047-0.0470.0000.0000.0000.000
43A58PRO0-0.010-0.00715.2530.0510.0510.0000.0000.0000.000
44A59ASP-1-0.805-0.89716.834-0.185-0.1850.0000.0000.0000.000
45A60ALA0-0.107-0.05718.624-0.005-0.0050.0000.0000.0000.000
46A61GLU-1-0.861-0.93419.543-0.102-0.1020.0000.0000.0000.000
47A62ASN00.0280.04314.1800.0470.0470.0000.0000.0000.000
48A63GLU-1-0.839-0.91715.842-0.116-0.1160.0000.0000.0000.000
49A64LEU0-0.047-0.01711.3640.0290.0290.0000.0000.0000.000
50A65GLN0-0.017-0.02514.973-0.046-0.0460.0000.0000.0000.000
51A66ALA0-0.002-0.00615.730-0.020-0.0200.0000.0000.0000.000
52A67PHE00.0110.0059.1810.0690.0690.0000.0000.0000.000
53A68GLY00.0530.03414.230-0.030-0.0300.0000.0000.0000.000
54A69ARG10.8800.94110.2360.3400.3400.0000.0000.0000.000
55A70ASP-1-0.769-0.87616.197-0.101-0.1010.0000.0000.0000.000
56A71ALA00.0360.00219.727-0.007-0.0070.0000.0000.0000.000
57A72ALA0-0.0080.00621.2430.0080.0080.0000.0000.0000.000
58A73GLY00.0190.01017.4770.0110.0110.0000.0000.0000.000
59A74ARG10.8460.93316.0010.0460.0460.0000.0000.0000.000
60A75LEU00.0340.02610.061-0.009-0.0090.0000.0000.0000.000
61A76GLN0-0.081-0.04314.5910.0520.0520.0000.0000.0000.000
62A77TYR00.0240.00111.441-0.002-0.0020.0000.0000.0000.000
63A78ARG10.9150.96716.8750.1610.1610.0000.0000.0000.000
64A79TYR00.0270.00016.020-0.012-0.0120.0000.0000.0000.000
65A80HIS00.0720.04519.6890.0110.0110.0000.0000.0000.000
66A81PRO00.011-0.00921.6570.0130.0130.0000.0000.0000.000
67A82ASP-1-0.801-0.90824.035-0.060-0.0600.0000.0000.0000.000
68A83PHE0-0.093-0.06420.3850.0150.0150.0000.0000.0000.000
69A84VAL0-0.102-0.04023.8810.0080.0080.0000.0000.0000.000
70A85GLN0-0.0130.00426.2920.0080.0080.0000.0000.0000.000
71A86ALA0-0.005-0.00929.2610.0040.0040.0000.0000.0000.000
72A87GLY0-0.037-0.01430.7100.0010.0010.0000.0000.0000.000
73A88ALA00.0330.02828.2980.0010.0010.0000.0000.0000.000
74A89LEU0-0.038-0.00123.7570.0000.0000.0000.0000.0000.000
75A90LYS10.9490.97028.2070.0170.0170.0000.0000.0000.000
76A91LYS10.9400.95027.686-0.027-0.0270.0000.0000.0000.000
77A92TRP00.1390.05326.4080.0040.0040.0000.0000.0000.000
78A93GLN00.0580.06025.5310.0040.0040.0000.0000.0000.000
79A94ARG10.8120.88921.846-0.020-0.0200.0000.0000.0000.000
80A95LEU0-0.017-0.01721.5730.0030.0030.0000.0000.0000.000
81A96THR00.0060.00621.0880.0120.0120.0000.0000.0000.000
82A97ARG10.8500.91819.0030.0930.0930.0000.0000.0000.000
83A98PHE0-0.033-0.01816.995-0.002-0.0020.0000.0000.0000.000
84A99ALA00.0200.00516.2620.0180.0180.0000.0000.0000.000
85A100GLY00.004-0.00215.5180.0180.0180.0000.0000.0000.000
86A101ALA00.0140.01112.498-0.034-0.0340.0000.0000.0000.000
87A102LEU0-0.039-0.02011.5460.0540.0540.0000.0000.0000.000
88A103PRO00.0450.03410.4070.1430.1430.0000.0000.0000.000
89A104THR00.0660.0256.3370.1600.1600.0000.0000.0000.000
90A105LEU0-0.0050.0066.9000.2440.2440.0000.0000.0000.000
91A106LYS10.8390.9228.820-0.077-0.0770.0000.0000.0000.000
92A107VAL00.0330.0322.577-0.3630.2170.878-0.297-1.1620.000
93A108ALA00.0350.0214.4932.0042.147-0.001-0.035-0.1070.000
94A109THR0-0.010-0.0166.1260.3420.3420.0000.0000.0000.000
95A110THR0-0.041-0.0375.889-0.463-0.4630.0000.0000.0000.000
96A111ALA00.0040.0193.065-2.329-1.2550.337-0.524-0.8870.006
97A112ASP-1-0.747-0.8514.922-0.186-0.081-0.001-0.013-0.0910.000
98A113LEU0-0.082-0.0588.288-0.450-0.4500.0000.0000.0000.000
99A114ARG10.9260.9705.692-2.227-2.2270.0000.0000.0000.000
100A115ALA00.0250.0449.375-0.217-0.2170.0000.0000.0000.000
101A116SER00.0220.00510.947-0.059-0.0590.0000.0000.0000.000
102A117GLY00.0380.02014.524-0.017-0.0170.0000.0000.0000.000
103A118LEU00.0420.01616.7120.0630.0630.0000.0000.0000.000
104A119PRO00.1090.08313.461-0.046-0.0460.0000.0000.0000.000
105A120PRO00.0550.00315.5070.0520.0520.0000.0000.0000.000
106A121ARG10.7840.8367.930-0.549-0.5490.0000.0000.0000.000
107A122LYS10.8330.95612.328-0.592-0.5920.0000.0000.0000.000
108A123VAL0-0.011-0.00113.2290.0070.0070.0000.0000.0000.000
109A124MET0-0.008-0.00314.524-0.038-0.0380.0000.0000.0000.000
110A125ALA00.0270.03911.207-0.041-0.0410.0000.0000.0000.000
111A126LEU0-0.007-0.00513.051-0.019-0.0190.0000.0000.0000.000
112A127MET0-0.047-0.01815.874-0.052-0.0520.0000.0000.0000.000
113A128THR00.015-0.01213.886-0.065-0.0650.0000.0000.0000.000
114A129ARG10.8780.9359.418-1.202-1.2020.0000.0000.0000.000
115A130LEU0-0.0010.01115.853-0.051-0.0510.0000.0000.0000.000
116A131LEU0-0.079-0.04018.659-0.043-0.0430.0000.0000.0000.000
117A132HIS0-0.021-0.00815.180-0.052-0.0520.0000.0000.0000.000
118A133VAL00.0270.01817.515-0.030-0.0300.0000.0000.0000.000
119A134ALA0-0.014-0.00320.123-0.027-0.0270.0000.0000.0000.000
120A135ARG10.8450.91922.419-0.188-0.1880.0000.0000.0000.000
121A136PHE00.0270.01623.191-0.025-0.0250.0000.0000.0000.000
122A137ARG10.8620.93024.473-0.097-0.0970.0000.0000.0000.000
123A138VAL00.0500.03522.3420.0100.0100.0000.0000.0000.000
124A149THR0-0.050-0.01535.734-0.002-0.0020.0000.0000.0000.000
125A150TYR0-0.068-0.05031.145-0.002-0.0020.0000.0000.0000.000
126A151GLY00.0320.00528.633-0.006-0.0060.0000.0000.0000.000
127A152LEU00.0570.02921.036-0.002-0.0020.0000.0000.0000.000
128A153SER0-0.010-0.01523.9390.0030.0030.0000.0000.0000.000
129A154THR0-0.046-0.02725.138-0.003-0.0030.0000.0000.0000.000
130A155LEU00.0260.03126.111-0.012-0.0120.0000.0000.0000.000
131A156ARG10.9100.94828.693-0.107-0.1070.0000.0000.0000.000
132A157GLN00.033-0.01028.240-0.005-0.0050.0000.0000.0000.000
133A158ARG10.9540.98630.637-0.104-0.1040.0000.0000.0000.000
134A159HIS0-0.082-0.03130.3550.0000.0000.0000.0000.0000.000
135A160VAL0-0.0080.00126.2890.0040.0040.0000.0000.0000.000
136A161VAL00.0370.03029.668-0.005-0.0050.0000.0000.0000.000
137A162VAL0-0.027-0.02026.2140.0090.0090.0000.0000.0000.000
138A163ASP-1-0.902-0.95228.9400.1530.1530.0000.0000.0000.000
139A164GLY00.0610.04128.7170.0030.0030.0000.0000.0000.000
140A165ASN00.003-0.02923.9810.0270.0270.0000.0000.0000.000
141A166THR0-0.0230.00424.3890.0220.0220.0000.0000.0000.000
142A167VAL0-0.0080.01023.379-0.004-0.0040.0000.0000.0000.000
143A168THR00.0290.00626.338-0.002-0.0020.0000.0000.0000.000
144A169PHE0-0.012-0.02323.587-0.005-0.0050.0000.0000.0000.000
145A170ARG10.9370.95529.334-0.121-0.1210.0000.0000.0000.000
146A171PHE0-0.044-0.02428.655-0.003-0.0030.0000.0000.0000.000
147A172LYS10.9160.97733.772-0.086-0.0860.0000.0000.0000.000
148A173GLY00.0900.03333.2920.0040.0040.0000.0000.0000.000
149A174LYS10.9660.96533.260-0.074-0.0740.0000.0000.0000.000
150A175HIS00.0300.00135.1360.0010.0010.0000.0000.0000.000
151A176GLY00.0290.02237.908-0.003-0.0030.0000.0000.0000.000
152A177VAL0-0.0360.01134.7670.0000.0000.0000.0000.0000.000
153A178SER00.0180.00735.8160.0070.0070.0000.0000.0000.000
154A179GLN0-0.045-0.02529.8660.0100.0100.0000.0000.0000.000
155A180HIS00.0850.04831.9300.0000.0000.0000.0000.0000.000
156A181LYS10.7990.89626.710-0.151-0.1510.0000.0000.0000.000
157A182ALA00.0270.02527.4700.0030.0030.0000.0000.0000.000
158A183THR0-0.029-0.00721.164-0.001-0.0010.0000.0000.0000.000
159A184SER00.0640.02823.457-0.009-0.0090.0000.0000.0000.000
160A185ASP-1-0.800-0.90517.4110.5130.5130.0000.0000.0000.000
161A186ARG11.0121.01819.592-0.344-0.3440.0000.0000.0000.000
162A187THR0-0.057-0.03515.0460.0090.0090.0000.0000.0000.000
163A188LEU0-0.019-0.00217.8360.0140.0140.0000.0000.0000.000
164A189ALA00.0400.01719.212-0.015-0.0150.0000.0000.0000.000
165A190ALA00.0040.00219.470-0.015-0.0150.0000.0000.0000.000
166A191ASN0-0.055-0.03915.392-0.025-0.0250.0000.0000.0000.000
167A192MET0-0.031-0.00719.693-0.008-0.0080.0000.0000.0000.000
168A193GLN00.0370.00722.851-0.026-0.0260.0000.0000.0000.000
169A194LYS10.9740.99617.875-0.425-0.4250.0000.0000.0000.000
170A195LEU0-0.069-0.04020.870-0.013-0.0130.0000.0000.0000.000
171A196LEU0-0.063-0.04023.945-0.019-0.0190.0000.0000.0000.000
172A197ASP-1-0.856-0.90226.0860.1960.1960.0000.0000.0000.000
173A198LEU0-0.094-0.03523.514-0.013-0.0130.0000.0000.0000.000
174A199PRO00.0420.02728.027-0.005-0.0050.0000.0000.0000.000
175A200GLY00.0390.05330.1560.0070.0070.0000.0000.0000.000
176A201PRO0-0.036-0.04231.987-0.006-0.0060.0000.0000.0000.000
177A202TRP0-0.044-0.03928.1870.0030.0030.0000.0000.0000.000
178A203LEU00.0320.02424.8180.0020.0020.0000.0000.0000.000
179A204PHE00.0400.00221.1410.0130.0130.0000.0000.0000.000
180A205GLN0-0.015-0.00623.021-0.031-0.0310.0000.0000.0000.000
181A206THR0-0.068-0.04718.7070.0270.0270.0000.0000.0000.000
182A207VAL00.007-0.00820.493-0.028-0.0280.0000.0000.0000.000
183A208ASP-1-0.838-0.91220.4290.1960.1960.0000.0000.0000.000
184A209ALA0-0.034-0.03421.1820.0020.0020.0000.0000.0000.000
185A210GLY00.0110.01522.689-0.004-0.0040.0000.0000.0000.000
186A211GLY00.0030.00925.457-0.007-0.0070.0000.0000.0000.000
187A212GLY0-0.051-0.02326.964-0.004-0.0040.0000.0000.0000.000
188A213GLU-1-0.939-0.95824.3160.1070.1070.0000.0000.0000.000
189A214ARG10.9360.95124.324-0.128-0.1280.0000.0000.0000.000
190A215ARG10.8230.88819.464-0.196-0.1960.0000.0000.0000.000
191A216ARG10.8990.94523.811-0.122-0.1220.0000.0000.0000.000
192A217ILE00.0090.02218.735-0.005-0.0050.0000.0000.0000.000
193A218HIS00.011-0.00122.149-0.005-0.0050.0000.0000.0000.000
194A219SER00.018-0.00722.2650.0110.0110.0000.0000.0000.000
195A220THR00.0180.00822.3610.0050.0050.0000.0000.0000.000
196A221GLU-1-0.757-0.84718.2320.1920.1920.0000.0000.0000.000
197A222LEU00.0460.01117.0610.0060.0060.0000.0000.0000.000
198A223ASN0-0.014-0.02717.6610.0190.0190.0000.0000.0000.000
199A224ALA0-0.0120.00617.832-0.018-0.0180.0000.0000.0000.000
200A225TYR0-0.023-0.0329.550-0.081-0.0810.0000.0000.0000.000
201A226LEU0-0.005-0.00813.4330.0010.0010.0000.0000.0000.000
202A227ARG10.9230.97214.9060.0330.0330.0000.0000.0000.000
203A228GLU-1-0.846-0.8908.876-0.007-0.0070.0000.0000.0000.000
204A229VAL0-0.016-0.0179.120-0.098-0.0980.0000.0000.0000.000
205A230ILE0-0.020-0.00910.849-0.017-0.0170.0000.0000.0000.000
206A231GLY00.0160.04413.618-0.024-0.0240.0000.0000.0000.000
207A232PRO0-0.012-0.00414.809-0.044-0.0440.0000.0000.0000.000
208A233PHE0-0.033-0.01415.8350.0180.0180.0000.0000.0000.000
209A234THR0-0.008-0.01718.1540.0090.0090.0000.0000.0000.000
210A235ALA00.0790.01320.1380.0110.0110.0000.0000.0000.000
211A236LYS10.9160.96721.133-0.044-0.0440.0000.0000.0000.000
212A237ASP-1-0.723-0.83920.0730.0490.0490.0000.0000.0000.000
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