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

tag_button

FMODB ID: X6Y7Z

Calculation Name: 4F3J-A-Xray17

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4F3J

Chain ID: A

ChEMBL ID:

UniProt ID: Q9BXJ0

Base Structure: X-ray

Registration Date: 2018-06-01

Reference:

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
Protonation MOE:Protonate 3D
Complement Missing residues were capped by ACE, NME. Missing atoms were corrected by Structure prepareation by MOE.
Water Apo structure with with a 3 angstrom solvent shell.
Procedure Auto-FMO protocol ver. 1.20180227
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 200
LigandCharge
Software MIZUHO/ABINIT-MP 3.0
Total energy (hartree)
FMO2-HF: Electronic energy -1389544.717919
FMO2-HF: Nuclear repulsion 1330941.342692
FMO2-HF: Total energy -58603.375227
FMO2-MP2: Total energy -58775.984442


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:102:ALA)


Summations of interaction energy for fragment #1(A:102:ALA)
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.
-97.868-96.0648.909-4.357-6.356-0.052
Interaction energy analysis for fragmet #1(A:102:ALA)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.829 / q_NPA : 0.914
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].
3A104SER00.1030.0533.8065.0166.589-0.017-0.688-0.868-0.002
4A105ALA0-0.0260.0016.0030.2240.2240.0000.0000.0000.000
5A106PHE00.0300.0259.6160.4900.4900.0000.0000.0000.000
6A107SER0-0.003-0.00913.1730.5500.5500.0000.0000.0000.000
7A108ALA00.0150.01716.7380.1800.1800.0000.0000.0000.000
8A109LYS10.8940.95319.95312.61512.6150.0000.0000.0000.000
9A110ARG10.8660.92723.60110.93310.9330.0000.0000.0000.000
10A111SER0-0.034-0.07026.6340.1050.1050.0000.0000.0000.000
11A112GLU-1-0.961-0.96729.363-9.630-9.6300.0000.0000.0000.000
12A113SER0-0.004-0.00932.7080.0830.0830.0000.0000.0000.000
13A114ARG10.9070.94534.6547.6347.6340.0000.0000.0000.000
14A115VAL0-0.0240.00334.8400.2430.2430.0000.0000.0000.000
15A116PRO00.0340.00735.379-0.188-0.1880.0000.0000.0000.000
16A117PRO0-0.0160.00830.458-0.085-0.0850.0000.0000.0000.000
17A118PRO00.0200.00528.6320.1610.1610.0000.0000.0000.000
18A119SER0-0.0030.00329.560-0.271-0.2710.0000.0000.0000.000
19A120ASP-1-0.935-0.96430.269-9.306-9.3060.0000.0000.0000.000
20A121ALA0-0.0040.00527.361-0.001-0.0010.0000.0000.0000.000
21A122PRO00.0070.00022.429-0.001-0.0010.0000.0000.0000.000
22A123LEU00.0090.01724.3260.4340.4340.0000.0000.0000.000
23A124PRO00.0070.00323.258-0.579-0.5790.0000.0000.0000.000
24A125PHE0-0.025-0.00721.2440.4740.4740.0000.0000.0000.000
25A126ASP-1-0.733-0.79821.884-12.134-12.1340.0000.0000.0000.000
26A127ARG11.0001.01223.88111.45211.4520.0000.0000.0000.000
27A128VAL00.0330.00817.688-0.358-0.3580.0000.0000.0000.000
28A129LEU0-0.105-0.02418.9300.6470.6470.0000.0000.0000.000
29A130VAL00.0290.00613.8370.1140.1140.0000.0000.0000.000
30A131ASN00.006-0.00413.127-1.915-1.9150.0000.0000.0000.000
31A132GLU-1-0.928-0.96810.607-25.828-25.8280.0000.0000.0000.000
32A133GLN0-0.018-0.0016.6280.0780.0780.0000.0000.0000.000
33A134GLY00.0360.03310.0830.7100.7100.0000.0000.0000.000
34A135HIS00.013-0.0145.8560.9990.9990.0000.0000.0000.000
35A136TYR0-0.037-0.00511.4540.9220.9220.0000.0000.0000.000
36A137ASP-1-0.811-0.89914.559-14.523-14.5230.0000.0000.0000.000
37A138ALA0-0.022-0.03017.9210.4680.4680.0000.0000.0000.000
38A139VAL0-0.042-0.01320.6530.6850.6850.0000.0000.0000.000
39A140THR0-0.034-0.02620.0480.4120.4120.0000.0000.0000.000
40A141GLY00.0070.00420.7470.3870.3870.0000.0000.0000.000
41A142LYS10.8890.97717.95813.17013.1700.0000.0000.0000.000
42A143PHE0-0.038-0.0138.616-0.625-0.6250.0000.0000.0000.000
43A144THR00.0280.00012.8680.9510.9510.0000.0000.0000.000
44A145CYS0-0.071-0.0098.233-1.894-1.8940.0000.0000.0000.000
45A146GLN00.0280.0037.2731.1961.1960.0000.0000.0000.000
46A147VAL0-0.0290.0012.272-3.670-3.8482.132-0.662-1.293-0.007
47A148PRO00.0570.0565.3120.9940.987-0.001-0.0020.0100.000
48A149GLY00.0200.0025.942-5.334-5.3340.0000.0000.0000.000
49A150VAL00.0030.0247.3073.5303.5300.0000.0000.0000.000
50A151TYR0-0.001-0.0216.231-4.699-4.6990.0000.0000.0000.000
51A152TYR0-0.025-0.00310.1712.4392.4390.0000.0000.0000.000
52A153PHE00.0330.00512.413-1.094-1.0940.0000.0000.0000.000
53A154ALA00.0120.00315.6400.7830.7830.0000.0000.0000.000
54A155VAL00.0030.00718.827-0.306-0.3060.0000.0000.0000.000
55A156HIS00.0030.03320.7690.8340.8340.0000.0000.0000.000
56A157ALA00.0150.00524.6900.0100.0100.0000.0000.0000.000
57A158THR0-0.020-0.02027.7500.3220.3220.0000.0000.0000.000
58A159VAL0-0.0050.00431.252-0.032-0.0320.0000.0000.0000.000
59A160TYR0-0.064-0.04333.9340.2500.2500.0000.0000.0000.000
60A161ARG10.9170.93637.2087.8547.8540.0000.0000.0000.000
61A162ALA00.0660.04437.8420.2000.2000.0000.0000.0000.000
62A163SER0-0.004-0.00336.727-0.180-0.1800.0000.0000.0000.000
63A164LEU0-0.054-0.01129.208-0.005-0.0050.0000.0000.0000.000
64A165GLN00.0210.00229.3020.0150.0150.0000.0000.0000.000
65A166PHE0-0.030-0.01823.712-0.036-0.0360.0000.0000.0000.000
66A167ASP-1-0.715-0.82325.283-10.987-10.9870.0000.0000.0000.000
67A168LEU0-0.035-0.02318.894-0.294-0.2940.0000.0000.0000.000
68A169VAL00.0190.01820.9950.1600.1600.0000.0000.0000.000
69A170LYS10.8800.92215.49516.70416.7040.0000.0000.0000.000
70A171ASN0-0.045-0.03017.3990.3000.3000.0000.0000.0000.000
71A172GLY00.004-0.00120.4110.4390.4390.0000.0000.0000.000
72A173GLU-1-0.884-0.91722.759-10.713-10.7130.0000.0000.0000.000
73A174SER0-0.037-0.01322.653-0.830-0.8300.0000.0000.0000.000
74A175ILE0-0.056-0.02717.573-0.144-0.1440.0000.0000.0000.000
75A176ALA0-0.003-0.01221.8200.1460.1460.0000.0000.0000.000
76A177SER0-0.019-0.02223.978-0.153-0.1530.0000.0000.0000.000
77A178PHE0-0.020-0.01323.1620.0500.0500.0000.0000.0000.000
78A179PHE00.006-0.02028.4400.2170.2170.0000.0000.0000.000
79A180GLN0-0.034-0.00231.859-0.172-0.1720.0000.0000.0000.000
80A181PHE00.0130.00833.9880.0950.0950.0000.0000.0000.000
81A182PHE00.0510.02537.780-0.067-0.0670.0000.0000.0000.000
82A183GLY00.0270.02239.3300.1640.1640.0000.0000.0000.000
83A184GLY0-0.016-0.00842.6800.1820.1820.0000.0000.0000.000
84A185TRP00.0300.02738.4860.0850.0850.0000.0000.0000.000
85A186PRO00.0400.01843.457-0.069-0.0690.0000.0000.0000.000
86A187LYS10.8900.93040.3517.4247.4240.0000.0000.0000.000
87A188PRO00.010-0.00135.7630.0700.0700.0000.0000.0000.000
88A189ALA00.0200.02635.7700.0910.0910.0000.0000.0000.000
89A190SER0-0.037-0.00130.594-0.251-0.2510.0000.0000.0000.000
90A191LEU00.0160.00928.1460.2450.2450.0000.0000.0000.000
91A192SER00.005-0.02124.531-0.106-0.1060.0000.0000.0000.000
92A193GLY0-0.0130.00023.7640.4200.4200.0000.0000.0000.000
93A194GLY0-0.007-0.00619.816-0.542-0.5420.0000.0000.0000.000
94A195ALA00.0030.00918.0740.7050.7050.0000.0000.0000.000
95A196MET0-0.038-0.02512.134-0.720-0.7200.0000.0000.0000.000
96A197VAL0-0.0120.00813.4871.1831.1830.0000.0000.0000.000
97A198ARG10.9080.95811.44220.24620.2460.0000.0000.0000.000
98A199LEU0-0.040-0.01710.2371.6511.6510.0000.0000.0000.000
99A200GLU-1-0.872-0.94610.296-21.331-21.3310.0000.0000.0000.000
100A201PRO0-0.023-0.0308.9180.3900.3900.0000.0000.0000.000
101A202GLU-1-0.908-0.95111.128-15.459-15.4590.0000.0000.0000.000
102A203ASP-1-0.718-0.82113.269-17.396-17.3960.0000.0000.0000.000
103A204GLN0-0.039-0.04213.753-0.324-0.3240.0000.0000.0000.000
104A205VAL0-0.023-0.01114.7700.5110.5110.0000.0000.0000.000
105A206TRP0-0.057-0.03616.791-0.554-0.5540.0000.0000.0000.000
106A207VAL00.0150.01719.6090.1100.1100.0000.0000.0000.000
107A208GLN00.0520.02822.612-0.186-0.1860.0000.0000.0000.000
108A209VAL0-0.017-0.00626.055-0.038-0.0380.0000.0000.0000.000
109A210GLY00.0470.03729.5950.1050.1050.0000.0000.0000.000
110A211VAL0-0.035-0.02730.8130.2860.2860.0000.0000.0000.000
111A212GLY00.0200.00134.534-0.045-0.0450.0000.0000.0000.000
112A213ASP-1-0.920-0.96536.905-7.643-7.6430.0000.0000.0000.000
113A214TYR0-0.060-0.01434.9530.0600.0600.0000.0000.0000.000
114A215ILE00.0740.02932.969-0.371-0.3710.0000.0000.0000.000
115A216GLY00.0100.00934.2880.0510.0510.0000.0000.0000.000
116A217ILE0-0.0080.00826.979-0.029-0.0290.0000.0000.0000.000
117A218TYR0-0.035-0.02831.3240.3320.3320.0000.0000.0000.000
118A219ALA0-0.0100.00329.800-0.383-0.3830.0000.0000.0000.000
119A220SER0-0.050-0.03931.8650.4190.4190.0000.0000.0000.000
120A221ILE00.1240.04033.091-0.214-0.2140.0000.0000.0000.000
121A222LYS10.9030.95133.5649.3819.3810.0000.0000.0000.000
122A223THR00.0380.03431.9010.1130.1130.0000.0000.0000.000
123A224ASP-1-0.785-0.83926.817-11.280-11.2800.0000.0000.0000.000
124A225SER00.0100.01126.6360.1950.1950.0000.0000.0000.000
125A226THR0-0.007-0.00621.442-0.165-0.1650.0000.0000.0000.000
126A227PHE00.0370.02617.3880.0390.0390.0000.0000.0000.000
127A228SER00.013-0.01015.859-0.378-0.3780.0000.0000.0000.000
128A229GLY00.0280.01213.2100.7740.7740.0000.0000.0000.000
129A230PHE0-0.041-0.0219.016-0.762-0.7620.0000.0000.0000.000
130A231LEU0-0.0130.0142.200-0.463-0.8582.327-0.669-1.263-0.010
131A232VAL0-0.003-0.0056.567-3.082-3.0820.0000.0000.0000.000
132A233TYR00.003-0.0105.205-2.753-2.7530.0000.0000.0000.000
133A234SER0-0.0220.0022.4022.0022.4100.697-0.389-0.715-0.003
134A235ASP-1-0.811-0.9344.376-25.020-24.9810.000-0.029-0.0090.000
135A236TRP0-0.048-0.0274.0081.8421.963-0.001-0.023-0.0980.000
136A237HIS0-0.021-0.0156.823-4.471-4.4710.0000.0000.0000.000
137A238SER00.012-0.0108.9040.3670.3670.0000.0000.0000.000
138A239SER0-0.0140.01210.6021.6311.6310.0000.0000.0000.000
139A240PRO0-0.042-0.00611.9321.2111.2110.0000.0000.0000.000
140A241VAL00.0130.00613.8180.7050.7050.0000.0000.0000.000
141A242PHE0-0.022-0.00817.4530.6070.6070.0000.0000.0000.000
142A243ALA00.0160.01316.7130.7490.7490.0000.0000.0000.000
143A244HIS00.0140.04113.984-0.969-0.9690.0000.0000.0000.000
144A0NME00.0560.04316.7640.7440.7440.0000.0000.0000.000
145A303HOH0-0.014-0.00419.926-0.302-0.3020.0000.0000.0000.000
146A305HOH0-0.025-0.04627.472-0.117-0.1170.0000.0000.0000.000
147A307HOH0-0.021-0.01930.2060.1050.1050.0000.0000.0000.000
148A308HOH00.0150.0095.320-1.351-1.3510.0000.0000.0000.000
149A310HOH00.0030.00110.8100.9810.9810.0000.0000.0000.000
150A311HOH0-0.006-0.01110.437-0.353-0.3530.0000.0000.0000.000
151A312HOH00.0200.0056.3610.5160.5160.0000.0000.0000.000
152A313HOH0-0.031-0.03020.756-0.013-0.0130.0000.0000.0000.000
153A315HOH0-0.047-0.05629.8710.0480.0480.0000.0000.0000.000
154A317HOH00.0300.01740.939-0.080-0.0800.0000.0000.0000.000
155A318HOH0-0.066-0.0405.7812.1302.1300.0000.0000.0000.000
156A319HOH00.0280.01528.637-0.077-0.0770.0000.0000.0000.000
157A321HOH00.0040.01415.5580.1770.1770.0000.0000.0000.000
158A323HOH00.0120.00710.743-0.274-0.2740.0000.0000.0000.000
159A324HOH0-0.0030.00311.553-0.164-0.1640.0000.0000.0000.000
160A325HOH0-0.017-0.02832.1100.0790.0790.0000.0000.0000.000
161A327HOH00.0080.00416.426-0.482-0.4820.0000.0000.0000.000
162A328HOH00.0220.01518.191-0.009-0.0090.0000.0000.0000.000
163A329HOH0-0.034-0.02346.8370.0060.0060.0000.0000.0000.000
164A332HOH0-0.020-0.01622.850-0.208-0.2080.0000.0000.0000.000
165A333HOH0-0.015-0.03327.545-0.017-0.0170.0000.0000.0000.000
166A335HOH0-0.008-0.00315.3620.0690.0690.0000.0000.0000.000
167A337HOH0-0.032-0.03714.3540.4730.4730.0000.0000.0000.000
168A339HOH0-0.029-0.0204.497-1.816-1.776-0.001-0.004-0.0360.000
169A340HOH00.0160.00714.448-0.052-0.0520.0000.0000.0000.000
170A341HOH0-0.021-0.01527.375-0.118-0.1180.0000.0000.0000.000
171A343HOH0-0.018-0.01920.981-0.232-0.2320.0000.0000.0000.000
172A344HOH00.0100.02137.2670.0920.0920.0000.0000.0000.000
173A345HOH0-0.068-0.03230.2480.0840.0840.0000.0000.0000.000
174A347HOH0-0.026-0.02126.0190.0310.0310.0000.0000.0000.000
175A348HOH00.0360.03530.694-0.112-0.1120.0000.0000.0000.000
176A349HOH0-0.026-0.01616.0620.3670.3670.0000.0000.0000.000
177A350HOH0-0.0050.00017.9290.2710.2710.0000.0000.0000.000
178A351HOH0-0.005-0.0059.358-0.673-0.6730.0000.0000.0000.000
179A352HOH0-0.015-0.00834.9110.0870.0870.0000.0000.0000.000
180A353HOH0-0.023-0.02310.1530.5200.5200.0000.0000.0000.000
181A354HOH00.0550.03017.948-0.411-0.4110.0000.0000.0000.000
182A355HOH00.004-0.01622.3720.1010.1010.0000.0000.0000.000
183A357HOH0-0.031-0.06613.281-0.601-0.6010.0000.0000.0000.000
184A358HOH0-0.036-0.03441.918-0.024-0.0240.0000.0000.0000.000
185A361HOH00.0260.00624.5270.1130.1130.0000.0000.0000.000
186A362HOH0-0.029-0.01816.9130.1480.1480.0000.0000.0000.000
187A363HOH00.0310.0229.856-0.537-0.5370.0000.0000.0000.000
188A364HOH00.0290.0142.095-18.630-18.8283.760-1.651-1.910-0.028
189A366HOH00.0420.0283.561-3.846-3.4570.014-0.237-0.166-0.002
190A367HOH0-0.040-0.02927.587-0.061-0.0610.0000.0000.0000.000
191A369HOH0-0.0040.0068.2950.0670.0670.0000.0000.0000.000
192A370HOH0-0.027-0.01446.3110.0120.0120.0000.0000.0000.000
193A372HOH0-0.082-0.05320.5090.1830.1830.0000.0000.0000.000
194A374HOH0-0.052-0.0419.373-0.305-0.3050.0000.0000.0000.000
195A375HOH0-0.035-0.0288.4950.3940.3940.0000.0000.0000.000
196A376HOH0-0.015-0.0114.749-4.795-4.783-0.001-0.003-0.0080.000
197A378HOH0-0.042-0.03315.0220.4130.4130.0000.0000.0000.000
198A385HOH00.0320.01918.536-0.316-0.3160.0000.0000.0000.000
199A387HOH0-0.046-0.02317.488-0.374-0.3740.0000.0000.0000.000
200A390HOH0-0.042-0.03016.8290.3080.3080.0000.0000.0000.000