FMODB

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

Last updated: 2024-07-23

All entries: 37478

Number of unique PDB entries: 7783

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FMODB ID: LJKZ9

Calculation Name: 3P0S-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3P0S

Chain ID: A

ChEMBL ID:

UniProt ID: Q8V0M6

Base Structure: X-ray

Registration Date: 2023-06-20

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 OptAll
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 412
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -6972402.570004
FMO2-HF: Nuclear repulsion 6809193.762932
FMO2-HF: Total energy -163208.807071
FMO2-MP2: Total energy -163686.445065


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:43:ALA)


Summations of interaction energy for fragment #1(A:43: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.
-8.901-6.3955.962-4.053-4.413-0.027
Interaction energy analysis for fragmet #1(A:43:ALA)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.006 / q_NPA : 0.001
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].
3A45ASP-1-0.795-0.8712.040-10.319-8.2755.964-3.987-4.020-0.027
4A46GLY0-0.018-0.0134.3101.0161.200-0.001-0.023-0.1600.000
5A47ARG10.8300.9053.9710.8400.974-0.001-0.012-0.1210.000
6A48GLN0-0.0140.0044.152-0.241-0.0970.000-0.031-0.1120.000
7A49ASP-1-0.911-0.9566.2420.0660.0660.0000.0000.0000.000
8A50ILE0-0.026-0.0189.295-0.129-0.1290.0000.0000.0000.000
9A51PHE0-0.018-0.02111.9910.0370.0370.0000.0000.0000.000
10A52SER00.0220.01613.7670.0200.0200.0000.0000.0000.000
11A53GLY00.0070.00715.708-0.017-0.0170.0000.0000.0000.000
12A54ALA0-0.021-0.01119.2860.0260.0260.0000.0000.0000.000
13A55PRO0-0.017-0.00722.003-0.014-0.0140.0000.0000.0000.000
14A56GLN0-0.0060.00225.6440.0020.0020.0000.0000.0000.000
15A57PRO00.0490.00627.6610.0060.0060.0000.0000.0000.000
16A58ASN00.0400.04329.463-0.012-0.0120.0000.0000.0000.000
17A59GLN0-0.031-0.01332.6990.0020.0020.0000.0000.0000.000
18A60HIS00.015-0.00233.0310.0040.0040.0000.0000.0000.000
19A61HIS00.0200.01136.574-0.001-0.0010.0000.0000.0000.000
20A62THR0-0.024-0.01639.7230.0020.0020.0000.0000.0000.000
21A63LEU0-0.010-0.00442.296-0.003-0.0030.0000.0000.0000.000
22A64VAL0-0.005-0.01345.9910.0020.0020.0000.0000.0000.000
23A65TYR00.0180.02148.793-0.003-0.0030.0000.0000.0000.000
24A66GLY00.033-0.00452.4800.0020.0020.0000.0000.0000.000
25A67LYS10.8020.91555.901-0.025-0.0250.0000.0000.0000.000
26A68SER0-0.023-0.01759.6470.0010.0010.0000.0000.0000.000
27A69TYR0-0.018-0.01861.029-0.001-0.0010.0000.0000.0000.000
28A70HIS0-0.027-0.02866.1990.0010.0010.0000.0000.0000.000
29A71PHE00.0060.00266.1720.0000.0000.0000.0000.0000.000
30A72THR0-0.020-0.01471.3700.0000.0000.0000.0000.0000.000
31A73ILE00.0080.02672.4400.0000.0000.0000.0000.0000.000
32A74THR00.029-0.00575.7580.0000.0000.0000.0000.0000.000
33A75ASN0-0.023-0.01378.5100.0000.0000.0000.0000.0000.000
34A76GLY00.0680.02280.8800.0000.0000.0000.0000.0000.000
35A77LEU00.0120.01381.5640.0010.0010.0000.0000.0000.000
36A78PRO00.001-0.00880.6370.0000.0000.0000.0000.0000.000
37A79GLU-1-0.792-0.84881.2710.0180.0180.0000.0000.0000.000
38A80PHE00.0220.00581.1030.0010.0010.0000.0000.0000.000
39A81ARG10.8600.93478.133-0.020-0.0200.0000.0000.0000.000
40A82HIS00.0750.04480.9970.0010.0010.0000.0000.0000.000
41A83LEU0-0.068-0.02575.736-0.001-0.0010.0000.0000.0000.000
42A84ALA00.0550.03879.0000.0010.0010.0000.0000.0000.000
43A85THR0-0.031-0.02574.6400.0000.0000.0000.0000.0000.000
44A86THR00.0290.00273.9790.0000.0000.0000.0000.0000.000
45A87ASN0-0.021-0.03072.1960.0000.0000.0000.0000.0000.000
46A88SER00.0090.01475.7790.0000.0000.0000.0000.0000.000
47A89GLY00.0250.04475.2380.0000.0000.0000.0000.0000.000
48A90TYR0-0.004-0.02476.110-0.001-0.0010.0000.0000.0000.000
49A91TYR0-0.018-0.01371.2250.0000.0000.0000.0000.0000.000
50A92ALA00.0370.03577.241-0.001-0.0010.0000.0000.0000.000
51A93GLN0-0.034-0.04374.2650.0000.0000.0000.0000.0000.000
52A94GLN0-0.018-0.01576.8350.0000.0000.0000.0000.0000.000
53A95ARG10.8390.91176.382-0.019-0.0190.0000.0000.0000.000
54A96PHE00.0740.02375.380-0.001-0.0010.0000.0000.0000.000
55A97LYS10.7890.88076.367-0.018-0.0180.0000.0000.0000.000
56A98HIS0-0.027-0.01377.874-0.001-0.0010.0000.0000.0000.000
57A99ILE0-0.0190.00171.9130.0000.0000.0000.0000.0000.000
58A100HIS00.0370.01572.0170.0000.0000.0000.0000.0000.000
59A101GLY00.0130.00868.0790.0010.0010.0000.0000.0000.000
60A102ILE00.0230.01363.545-0.001-0.0010.0000.0000.0000.000
61A103PRO00.0410.02863.8670.0010.0010.0000.0000.0000.000
62A104TRP0-0.067-0.04956.5880.0000.0000.0000.0000.0000.000
63A105GLU-1-0.740-0.87157.9030.0310.0310.0000.0000.0000.000
64A106ARG10.8560.94557.486-0.026-0.0260.0000.0000.0000.000
65A107LEU00.0380.00752.7460.0000.0000.0000.0000.0000.000
66A108LEU00.033-0.00156.5040.0000.0000.0000.0000.0000.000
67A109MET0-0.0210.02359.372-0.001-0.0010.0000.0000.0000.000
68A110TYR0-0.088-0.04655.2320.0000.0000.0000.0000.0000.000
69A111VAL0-0.039-0.01653.2120.0000.0000.0000.0000.0000.000
70A112SER00.026-0.01456.2820.0000.0000.0000.0000.0000.000
71A113GLU-1-0.727-0.85457.2950.0190.0190.0000.0000.0000.000
72A114GLY0-0.009-0.01657.4670.0000.0000.0000.0000.0000.000
73A115GLU-1-0.853-0.92253.8230.0240.0240.0000.0000.0000.000
74A116LEU00.0020.00652.7250.0010.0010.0000.0000.0000.000
75A117LEU00.000-0.01852.8990.0010.0010.0000.0000.0000.000
76A118ARG10.8870.96449.315-0.022-0.0220.0000.0000.0000.000
77A119MET00.0320.03748.3520.0010.0010.0000.0000.0000.000
78A120PHE00.0530.01848.3100.0020.0020.0000.0000.0000.000
79A121ARG10.8340.91549.058-0.018-0.0180.0000.0000.0000.000
80A122ASP-1-0.844-0.90845.1980.0230.0230.0000.0000.0000.000
81A123TYR0-0.0100.00941.7100.0010.0010.0000.0000.0000.000
82A124THR00.021-0.01239.674-0.002-0.0020.0000.0000.0000.000
83A125SER0-0.029-0.03541.4210.0000.0000.0000.0000.0000.000
84A126LEU0-0.0010.00843.1830.0000.0000.0000.0000.0000.000
85A127LYS10.8240.90442.649-0.061-0.0610.0000.0000.0000.000
86A128VAL00.0170.01345.6690.0000.0000.0000.0000.0000.000
87A129GLU-1-0.823-0.87442.6450.0640.0640.0000.0000.0000.000
88A130GLU-1-0.865-0.94046.1600.0520.0520.0000.0000.0000.000
89A131VAL00.0020.02549.236-0.002-0.0020.0000.0000.0000.000
90A132VAL0-0.029-0.02152.6960.0010.0010.0000.0000.0000.000
91A133CYS0-0.0060.01755.325-0.002-0.0020.0000.0000.0000.000
92A134GLU-1-0.771-0.84458.4120.0310.0310.0000.0000.0000.000
93A135VAL00.0550.02961.531-0.001-0.0010.0000.0000.0000.000
94A136TYR0-0.027-0.04760.9560.0000.0000.0000.0000.0000.000
95A137SER00.0230.02567.323-0.001-0.0010.0000.0000.0000.000
96A138LEU00.0300.00471.0840.0000.0000.0000.0000.0000.000
97A139GLY00.0350.02173.670-0.001-0.0010.0000.0000.0000.000
98A140VAL0-0.054-0.02576.3930.0000.0000.0000.0000.0000.000
99A141ARG10.8100.88976.889-0.017-0.0170.0000.0000.0000.000
100A142LEU00.0280.01082.2960.0000.0000.0000.0000.0000.000
101A143PRO00.003-0.00885.6610.0000.0000.0000.0000.0000.000
102A144PHE00.0070.00388.5560.0000.0000.0000.0000.0000.000
103A145VAL00.0420.02291.5160.0000.0000.0000.0000.0000.000
104A146THR0-0.0100.00091.8330.0000.0000.0000.0000.0000.000
105A147SER0-0.019-0.00993.8930.0000.0000.0000.0000.0000.000
106A148ALA00.008-0.00693.9170.0000.0000.0000.0000.0000.000
107A149THR00.0160.00794.5230.0000.0000.0000.0000.0000.000
108A150THR00.0180.02593.0550.0000.0000.0000.0000.0000.000
109A151SER0-0.035-0.01289.9490.0000.0000.0000.0000.0000.000
110A152SER00.0530.01588.5610.0000.0000.0000.0000.0000.000
111A153VAL0-0.032-0.00783.4230.0000.0000.0000.0000.0000.000
112A154ALA00.0340.00484.5920.0000.0000.0000.0000.0000.000
113A155ASN00.0220.01985.9820.0000.0000.0000.0000.0000.000
114A156ALA00.021-0.00481.1930.0000.0000.0000.0000.0000.000
115A157ASN0-0.032-0.01181.8980.0010.0010.0000.0000.0000.000
116A158ALA00.0210.00883.6300.0000.0000.0000.0000.0000.000
117A159GLN0-0.0030.00281.2860.0010.0010.0000.0000.0000.000
118A160TYR00.005-0.00380.2480.0010.0010.0000.0000.0000.000
119A161PRO00.0050.02378.2920.0000.0000.0000.0000.0000.000
120A162ILE00.0040.00373.1630.0000.0000.0000.0000.0000.000
121A163GLY00.0310.00071.8560.0000.0000.0000.0000.0000.000
122A164CYS0-0.064-0.01566.2450.0000.0000.0000.0000.0000.000
123A165PHE00.0250.00568.8200.0000.0000.0000.0000.0000.000
124A166HIS0-0.040-0.04065.2600.0010.0010.0000.0000.0000.000
125A167PHE00.0870.04266.4520.0010.0010.0000.0000.0000.000
126A168ASP-1-0.791-0.89163.8580.0340.0340.0000.0000.0000.000
127A169GLU-1-0.841-0.89260.9100.0410.0410.0000.0000.0000.000
128A170ALA0-0.052-0.03564.3740.0010.0010.0000.0000.0000.000
129A171TYR00.0160.01867.289-0.001-0.0010.0000.0000.0000.000
130A172GLU-1-0.816-0.87967.9250.0290.0290.0000.0000.0000.000
131A173THR00.0350.01667.283-0.001-0.0010.0000.0000.0000.000
132A174ASN0-0.100-0.06767.3130.0000.0000.0000.0000.0000.000
133A175TYR0-0.022-0.02664.2220.0000.0000.0000.0000.0000.000
134A176GLY00.0690.04069.7460.0000.0000.0000.0000.0000.000
135A177ILE00.024-0.00268.2460.0000.0000.0000.0000.0000.000
136A178ASN00.026-0.00269.6530.0010.0010.0000.0000.0000.000
137A179ASN0-0.027-0.01072.0870.0000.0000.0000.0000.0000.000
138A180VAL00.0240.00865.3500.0000.0000.0000.0000.0000.000
139A181ALA0-0.028-0.00767.5020.0000.0000.0000.0000.0000.000
140A182ASP-1-0.821-0.89968.7840.0180.0180.0000.0000.0000.000
141A183ILE00.0220.00566.3940.0000.0000.0000.0000.0000.000
142A184ILE0-0.011-0.00963.5180.0000.0000.0000.0000.0000.000
143A185ASN0-0.036-0.02666.0300.0000.0000.0000.0000.0000.000
144A186LYS10.8060.90468.474-0.018-0.0180.0000.0000.0000.000
145A187ALA0-0.0050.00564.2950.0000.0000.0000.0000.0000.000
146A188LEU0-0.025-0.00561.5710.0000.0000.0000.0000.0000.000
147A189GLY00.0130.01465.191-0.001-0.0010.0000.0000.0000.000
148A190THR0-0.061-0.04167.8450.0000.0000.0000.0000.0000.000
149A191GLU-1-0.789-0.86666.9800.0110.0110.0000.0000.0000.000
150A192TRP0-0.006-0.01769.1500.0000.0000.0000.0000.0000.000
151A193LYS10.8130.89667.191-0.012-0.0120.0000.0000.0000.000
152A194ASN00.0090.00170.5590.0000.0000.0000.0000.0000.000
153A195ALA0-0.023-0.01766.354-0.001-0.0010.0000.0000.0000.000
154A196THR00.0010.00967.679-0.001-0.0010.0000.0000.0000.000
155A197ARG10.9590.97469.950-0.003-0.0030.0000.0000.0000.000
156A198PRO00.0430.02073.1980.0000.0000.0000.0000.0000.000
157A199THR00.011-0.00576.5560.0000.0000.0000.0000.0000.000
158A200ALA00.0240.01678.4740.0000.0000.0000.0000.0000.000
159A201ALA0-0.062-0.01176.3740.0000.0000.0000.0000.0000.000
160A202VAL0-0.007-0.00578.3360.0000.0000.0000.0000.0000.000
161A203THR0-0.0010.00179.9990.0000.0000.0000.0000.0000.000
162A204THR0-0.014-0.00980.2210.0000.0000.0000.0000.0000.000
163A205ALA00.0050.00282.2980.0000.0000.0000.0000.0000.000
164A206TRP00.0210.00377.2080.0000.0000.0000.0000.0000.000
165A207SER0-0.006-0.01880.7470.0000.0000.0000.0000.0000.000
166A208GLU-1-0.888-0.93479.8810.0100.0100.0000.0000.0000.000
167A209GLN0-0.031-0.00679.5200.0010.0010.0000.0000.0000.000
168A210PHE0-0.019-0.01774.7140.0000.0000.0000.0000.0000.000
169A211PRO0-0.022-0.00674.8460.0000.0000.0000.0000.0000.000
170A212ASN0-0.009-0.03570.2190.0010.0010.0000.0000.0000.000
171A213ILE00.0240.03571.4570.0000.0000.0000.0000.0000.000
172A214SER00.0240.01666.3990.0010.0010.0000.0000.0000.000
173A215ALA00.0650.01867.9760.0000.0000.0000.0000.0000.000
174A216SER0-0.070-0.03564.6300.0010.0010.0000.0000.0000.000
175A217SER0-0.092-0.04666.5780.0000.0000.0000.0000.0000.000
176A218THR00.0030.00769.593-0.001-0.0010.0000.0000.0000.000
177A219SER0-0.028-0.00972.0420.0010.0010.0000.0000.0000.000
178A220ARG10.9130.96271.635-0.016-0.0160.0000.0000.0000.000
179A221ASP-1-0.876-0.93073.8520.0170.0170.0000.0000.0000.000
180A222ILE00.0100.00869.8630.0000.0000.0000.0000.0000.000
181A223ASN00.0300.00573.8270.0000.0000.0000.0000.0000.000
182A224ASN0-0.024-0.02268.679-0.001-0.0010.0000.0000.0000.000
183A225PRO00.0030.01671.9140.0010.0010.0000.0000.0000.000
184A226VAL0-0.0070.00569.9460.0000.0000.0000.0000.0000.000
185A227ILE0-0.057-0.03171.878-0.001-0.0010.0000.0000.0000.000
186A228VAL0-0.0060.00071.6320.0010.0010.0000.0000.0000.000
187A229ASP-1-0.835-0.90571.1440.0240.0240.0000.0000.0000.000
188A230TYR00.007-0.01673.2490.0010.0010.0000.0000.0000.000
189A231SER0-0.017-0.03771.662-0.001-0.0010.0000.0000.0000.000
190A232LEU0-0.080-0.03274.3870.0000.0000.0000.0000.0000.000
191A233PRO0-0.0100.00873.313-0.001-0.0010.0000.0000.0000.000
192A234TYR0-0.040-0.02472.7490.0000.0000.0000.0000.0000.000
193A235PHE0-0.021-0.02178.5470.0000.0000.0000.0000.0000.000
194A236GLU-1-0.883-0.92781.4340.0210.0210.0000.0000.0000.000
195A237ASN0-0.060-0.04978.0650.0010.0010.0000.0000.0000.000
196A238ASN00.0180.01575.353-0.001-0.0010.0000.0000.0000.000
197A239VAL00.002-0.00777.0680.0000.0000.0000.0000.0000.000
198A240PRO0-0.043-0.00574.6700.0000.0000.0000.0000.0000.000
199A241LYS10.9700.97577.603-0.025-0.0250.0000.0000.0000.000
200A242ASP-1-0.834-0.90577.7040.0230.0230.0000.0000.0000.000
201A243VAL0-0.021-0.00972.9380.0000.0000.0000.0000.0000.000
202A244GLY00.0150.02075.632-0.001-0.0010.0000.0000.0000.000
203A245ILE0-0.043-0.03574.0860.0010.0010.0000.0000.0000.000
204A246TYR0-0.025-0.03473.9410.0000.0000.0000.0000.0000.000
205A247ASP-1-0.895-0.93573.1650.0270.0270.0000.0000.0000.000
206A248TYR0-0.051-0.02867.9380.0010.0010.0000.0000.0000.000
207A249VAL0-0.013-0.01270.3340.0000.0000.0000.0000.0000.000
208A250ASP-1-0.864-0.90167.2810.0320.0320.0000.0000.0000.000
209A251ILE0-0.011-0.02570.254-0.001-0.0010.0000.0000.0000.000
210A252LYS10.8620.93867.354-0.027-0.0270.0000.0000.0000.000
211A253ASN00.0640.01874.034-0.001-0.0010.0000.0000.0000.000
212A254GLY00.0440.00876.2280.0000.0000.0000.0000.0000.000
213A255THR0-0.041-0.02177.2960.0000.0000.0000.0000.0000.000
214A256THR00.000-0.00976.4300.0000.0000.0000.0000.0000.000
215A257ALA0-0.0120.00672.2840.0010.0010.0000.0000.0000.000
216A258TYR0-0.0050.00772.9740.0000.0000.0000.0000.0000.000
217A259GLY00.0670.02769.0640.0000.0000.0000.0000.0000.000
218A260LYS10.7500.86259.639-0.031-0.0310.0000.0000.0000.000
219A261CYS0-0.061-0.02165.9360.0000.0000.0000.0000.0000.000
220A262TRP00.0460.00864.0090.0000.0000.0000.0000.0000.000
221A263GLU-1-0.778-0.88156.2850.0360.0360.0000.0000.0000.000
222A264LYS10.8990.98458.632-0.033-0.0330.0000.0000.0000.000
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