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: 3Q19L

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 OptHSide
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 -6964857.709033
FMO2-HF: Nuclear repulsion 6801649.749447
FMO2-HF: Total energy -163207.959587
FMO2-MP2: Total energy -163685.580952


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.
-4.051-0.5880.048-1.639-1.870
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 : 0.013 / q_NPA : 0.005
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-1-0.801-0.8813.227-5.834-2.6070.050-1.615-1.6610.000
4A46GLY0-0.0010.0034.8010.8971.034-0.001-0.010-0.1260.000
5A47ARG10.8340.9034.9851.2041.2040.0000.0000.0000.000
6A48GLN0-0.0170.0034.439-0.190-0.091-0.001-0.014-0.0830.000
7A49ASP-1-0.914-0.9546.6170.0390.0390.0000.0000.0000.000
8A50ILE0-0.038-0.0229.995-0.060-0.0600.0000.0000.0000.000
9A51PHE0-0.018-0.02112.5210.0390.0390.0000.0000.0000.000
10A52SER00.0220.01214.0670.0140.0140.0000.0000.0000.000
11A53GLY0-0.0040.01116.1170.0040.0040.0000.0000.0000.000
12A54ALA00.007-0.01219.6980.0270.0270.0000.0000.0000.000
13A55PRO0-0.047-0.01622.143-0.012-0.0120.0000.0000.0000.000
14A56GLN0-0.0030.01525.6760.0020.0020.0000.0000.0000.000
15A57PRO00.044-0.00227.6510.0050.0050.0000.0000.0000.000
16A58ASN00.0240.02329.603-0.012-0.0120.0000.0000.0000.000
17A59GLN0-0.022-0.01933.0250.0020.0020.0000.0000.0000.000
18A60HIS00.021-0.00733.4830.0040.0040.0000.0000.0000.000
19A61HIS00.0050.00837.037-0.001-0.0010.0000.0000.0000.000
20A62THR0-0.0060.00840.2070.0010.0010.0000.0000.0000.000
21A63LEU0-0.016-0.00542.548-0.003-0.0030.0000.0000.0000.000
22A64VAL00.009-0.01046.2650.0020.0020.0000.0000.0000.000
23A65TYR00.0080.01548.871-0.003-0.0030.0000.0000.0000.000
24A66GLY00.018-0.01952.5790.0020.0020.0000.0000.0000.000
25A67LYS10.8280.92755.860-0.025-0.0250.0000.0000.0000.000
26A68SER0-0.011-0.01059.6400.0010.0010.0000.0000.0000.000
27A69TYR0-0.052-0.03461.054-0.001-0.0010.0000.0000.0000.000
28A70HIS00.002-0.00566.1470.0010.0010.0000.0000.0000.000
29A71PHE00.0030.00566.2650.0000.0000.0000.0000.0000.000
30A72THR0-0.010-0.00871.5740.0000.0000.0000.0000.0000.000
31A73ILE00.0020.01872.4350.0000.0000.0000.0000.0000.000
32A74THR00.026-0.00675.9670.0000.0000.0000.0000.0000.000
33A75ASN0-0.020-0.01078.7860.0000.0000.0000.0000.0000.000
34A76GLY00.0560.01381.1570.0000.0000.0000.0000.0000.000
35A77LEU0-0.0100.00581.5590.0010.0010.0000.0000.0000.000
36A78PRO00.003-0.00780.9520.0000.0000.0000.0000.0000.000
37A79GLU-1-0.807-0.86781.4530.0170.0170.0000.0000.0000.000
38A80PHE00.0230.00581.3630.0010.0010.0000.0000.0000.000
39A81ARG10.8860.94878.420-0.019-0.0190.0000.0000.0000.000
40A82HIS00.0550.03681.4580.0010.0010.0000.0000.0000.000
41A83LEU0-0.089-0.04276.159-0.001-0.0010.0000.0000.0000.000
42A84ALA00.0620.03979.3680.0000.0000.0000.0000.0000.000
43A85THR0-0.015-0.02275.1080.0000.0000.0000.0000.0000.000
44A86THR00.009-0.00674.4960.0000.0000.0000.0000.0000.000
45A87ASN0-0.030-0.03372.9180.0000.0000.0000.0000.0000.000
46A88SER00.0070.00676.2970.0000.0000.0000.0000.0000.000
47A89GLY00.0210.04776.0030.0000.0000.0000.0000.0000.000
48A90TYR00.015-0.01276.806-0.001-0.0010.0000.0000.0000.000
49A91TYR0-0.030-0.01271.7220.0000.0000.0000.0000.0000.000
50A92ALA00.0340.03877.678-0.001-0.0010.0000.0000.0000.000
51A93GLN0-0.026-0.03474.7180.0000.0000.0000.0000.0000.000
52A94GLN0-0.011-0.01377.1890.0000.0000.0000.0000.0000.000
53A95ARG10.8370.91376.648-0.018-0.0180.0000.0000.0000.000
54A96PHE00.0730.02275.660-0.001-0.0010.0000.0000.0000.000
55A97LYS10.8250.90876.472-0.017-0.0170.0000.0000.0000.000
56A98HIS0-0.024-0.00277.8000.0000.0000.0000.0000.0000.000
57A99ILE0-0.034-0.01171.9730.0000.0000.0000.0000.0000.000
58A100HIS00.0480.01971.9960.0000.0000.0000.0000.0000.000
59A101GLY00.0220.01868.1080.0010.0010.0000.0000.0000.000
60A102ILE00.0040.00163.387-0.001-0.0010.0000.0000.0000.000
61A103PRO00.0540.03463.8560.0010.0010.0000.0000.0000.000
62A104TRP0-0.061-0.04556.5440.0000.0000.0000.0000.0000.000
63A105GLU-1-0.776-0.90658.1530.0310.0310.0000.0000.0000.000
64A106ARG10.8680.94357.901-0.025-0.0250.0000.0000.0000.000
65A107LEU00.0620.02553.0070.0000.0000.0000.0000.0000.000
66A108LEU00.021-0.00656.7860.0000.0000.0000.0000.0000.000
67A109MET0-0.0160.02859.411-0.001-0.0010.0000.0000.0000.000
68A110TYR0-0.088-0.05255.2380.0000.0000.0000.0000.0000.000
69A111VAL0-0.059-0.02653.3640.0000.0000.0000.0000.0000.000
70A112SER00.0680.02956.4720.0000.0000.0000.0000.0000.000
71A113GLU-1-0.772-0.91657.4900.0190.0190.0000.0000.0000.000
72A114GLY00.0050.00357.7600.0000.0000.0000.0000.0000.000
73A115GLU-1-0.849-0.91653.6990.0230.0230.0000.0000.0000.000
74A116LEU00.0030.01152.8900.0010.0010.0000.0000.0000.000
75A117LEU00.018-0.00653.2950.0010.0010.0000.0000.0000.000
76A118ARG10.9020.96649.563-0.021-0.0210.0000.0000.0000.000
77A119MET00.0380.04248.5930.0010.0010.0000.0000.0000.000
78A120PHE00.0520.01948.5550.0020.0020.0000.0000.0000.000
79A121ARG10.8220.90649.236-0.017-0.0170.0000.0000.0000.000
80A122ASP-1-0.856-0.91045.3640.0220.0220.0000.0000.0000.000
81A123TYR0-0.0250.00742.1370.0010.0010.0000.0000.0000.000
82A124THR00.017-0.00739.939-0.002-0.0020.0000.0000.0000.000
83A125SER0-0.006-0.02441.5040.0000.0000.0000.0000.0000.000
84A126LEU0-0.0270.01643.1400.0010.0010.0000.0000.0000.000
85A127LYS10.8510.93142.749-0.059-0.0590.0000.0000.0000.000
86A128VAL00.0220.01345.7300.0000.0000.0000.0000.0000.000
87A129GLU-1-0.837-0.89742.3740.0630.0630.0000.0000.0000.000
88A130GLU-1-0.861-0.94546.3190.0520.0520.0000.0000.0000.000
89A131VAL00.0080.02549.446-0.002-0.0020.0000.0000.0000.000
90A132VAL0-0.052-0.03352.7690.0010.0010.0000.0000.0000.000
91A133CYS00.0010.01055.437-0.002-0.0020.0000.0000.0000.000
92A134GLU-1-0.791-0.85258.3990.0320.0320.0000.0000.0000.000
93A135VAL00.0500.02061.403-0.001-0.0010.0000.0000.0000.000
94A136TYR0-0.044-0.06161.1600.0000.0000.0000.0000.0000.000
95A137SER00.0330.03467.452-0.001-0.0010.0000.0000.0000.000
96A138LEU00.0420.00470.8660.0000.0000.0000.0000.0000.000
97A139GLY00.0300.02073.671-0.001-0.0010.0000.0000.0000.000
98A140VAL0-0.023-0.01276.6060.0000.0000.0000.0000.0000.000
99A141ARG10.8240.90476.895-0.018-0.0180.0000.0000.0000.000
100A142LEU00.0320.00082.2470.0000.0000.0000.0000.0000.000
101A143PRO00.007-0.00185.6180.0000.0000.0000.0000.0000.000
102A144PHE0-0.0070.00488.8500.0000.0000.0000.0000.0000.000
103A145VAL00.0430.01491.6350.0000.0000.0000.0000.0000.000
104A146THR0-0.039-0.00691.6820.0000.0000.0000.0000.0000.000
105A147SER00.0180.00993.5320.0000.0000.0000.0000.0000.000
106A148ALA00.016-0.00493.9000.0000.0000.0000.0000.0000.000
107A149THR00.0170.00994.8170.0000.0000.0000.0000.0000.000
108A150THR00.0140.01193.2790.0000.0000.0000.0000.0000.000
109A151SER0-0.027-0.00290.1930.0000.0000.0000.0000.0000.000
110A152SER00.0430.00788.4090.0000.0000.0000.0000.0000.000
111A153VAL0-0.035-0.00582.9530.0000.0000.0000.0000.0000.000
112A154ALA00.011-0.00884.6770.0000.0000.0000.0000.0000.000
113A155ASN00.0340.03686.4590.0000.0000.0000.0000.0000.000
114A156ALA00.0240.00081.1260.0000.0000.0000.0000.0000.000
115A157ASN0-0.040-0.01981.9540.0010.0010.0000.0000.0000.000
116A158ALA00.0240.01183.5890.0000.0000.0000.0000.0000.000
117A159GLN0-0.0090.00281.1270.0010.0010.0000.0000.0000.000
118A160TYR00.0340.00980.0910.0000.0000.0000.0000.0000.000
119A161PRO00.0000.01878.1880.0010.0010.0000.0000.0000.000
120A162ILE00.0100.00772.9120.0000.0000.0000.0000.0000.000
121A163GLY00.0290.00371.9370.0000.0000.0000.0000.0000.000
122A164CYS0-0.054-0.02066.3270.0000.0000.0000.0000.0000.000
123A165PHE00.0230.00268.9610.0000.0000.0000.0000.0000.000
124A166HIS0-0.051-0.04365.3110.0010.0010.0000.0000.0000.000
125A167PHE00.0790.04266.7280.0010.0010.0000.0000.0000.000
126A168ASP-1-0.823-0.92263.9730.0330.0330.0000.0000.0000.000
127A169GLU-1-0.846-0.89661.1840.0390.0390.0000.0000.0000.000
128A170ALA0-0.036-0.02664.8440.0010.0010.0000.0000.0000.000
129A171TYR00.0240.01867.800-0.001-0.0010.0000.0000.0000.000
130A172GLU-1-0.850-0.89568.1100.0280.0280.0000.0000.0000.000
131A173THR00.0480.01567.270-0.001-0.0010.0000.0000.0000.000
132A174ASN0-0.125-0.07667.7250.0000.0000.0000.0000.0000.000
133A175TYR0-0.004-0.01064.824-0.001-0.0010.0000.0000.0000.000
134A176GLY00.0620.03970.0160.0000.0000.0000.0000.0000.000
135A177ILE00.016-0.01868.7330.0000.0000.0000.0000.0000.000
136A178ASN00.030-0.00169.9090.0000.0000.0000.0000.0000.000
137A179ASN0-0.034-0.01272.1390.0000.0000.0000.0000.0000.000
138A180VAL00.0370.01965.5320.0000.0000.0000.0000.0000.000
139A181ALA0-0.023-0.00967.7120.0000.0000.0000.0000.0000.000
140A182ASP-1-0.810-0.89868.7680.0170.0170.0000.0000.0000.000
141A183ILE00.004-0.00266.6180.0000.0000.0000.0000.0000.000
142A184ILE0-0.007-0.01463.4840.0000.0000.0000.0000.0000.000
143A185ASN0-0.030-0.01166.1520.0000.0000.0000.0000.0000.000
144A186LYS10.8120.91668.535-0.018-0.0180.0000.0000.0000.000
145A187ALA0-0.0070.00564.5080.0000.0000.0000.0000.0000.000
146A188LEU0-0.052-0.01761.5030.0000.0000.0000.0000.0000.000
147A189GLY0-0.024-0.00565.240-0.001-0.0010.0000.0000.0000.000
148A190THR0-0.024-0.01567.4390.0000.0000.0000.0000.0000.000
149A191GLU-1-0.797-0.87866.8920.0120.0120.0000.0000.0000.000
150A192TRP00.008-0.01369.414-0.001-0.0010.0000.0000.0000.000
151A193LYS10.8030.89866.990-0.013-0.0130.0000.0000.0000.000
152A194ASN00.0140.00070.5880.0000.0000.0000.0000.0000.000
153A195ALA0-0.025-0.01466.396-0.001-0.0010.0000.0000.0000.000
154A196THR0-0.0070.00368.286-0.001-0.0010.0000.0000.0000.000
155A197ARG10.9550.96670.092-0.003-0.0030.0000.0000.0000.000
156A198PRO00.0470.03273.1670.0000.0000.0000.0000.0000.000
157A199THR00.018-0.00176.5750.0000.0000.0000.0000.0000.000
158A200ALA00.0150.01278.4670.0000.0000.0000.0000.0000.000
159A201ALA0-0.055-0.01276.4520.0000.0000.0000.0000.0000.000
160A202VAL00.005-0.00278.3410.0000.0000.0000.0000.0000.000
161A203THR00.0100.00380.1390.0000.0000.0000.0000.0000.000
162A204THR0-0.004-0.00780.1760.0000.0000.0000.0000.0000.000
163A205ALA0-0.015-0.00682.2100.0000.0000.0000.0000.0000.000
164A206TRP00.0070.00177.3160.0000.0000.0000.0000.0000.000
165A207SER00.003-0.01380.7620.0000.0000.0000.0000.0000.000
166A208GLU-1-0.905-0.94079.8600.0110.0110.0000.0000.0000.000
167A209GLN0-0.028-0.01779.7580.0010.0010.0000.0000.0000.000
168A210PHE0-0.018-0.00774.5200.0000.0000.0000.0000.0000.000
169A211PRO0-0.0090.00175.0210.0000.0000.0000.0000.0000.000
170A212ASN0-0.014-0.03570.6460.0010.0010.0000.0000.0000.000
171A213ILE00.0280.04171.6370.0000.0000.0000.0000.0000.000
172A214SER00.0380.01766.4000.0010.0010.0000.0000.0000.000
173A215ALA00.0260.00668.1740.0000.0000.0000.0000.0000.000
174A216SER0-0.037-0.03664.7920.0010.0010.0000.0000.0000.000
175A217SER0-0.094-0.04166.7700.0000.0000.0000.0000.0000.000
176A218THR00.0110.00469.598-0.001-0.0010.0000.0000.0000.000
177A219SER0-0.036-0.00772.0600.0000.0000.0000.0000.0000.000
178A220ARG10.9160.95571.741-0.016-0.0160.0000.0000.0000.000
179A221ASP-1-0.918-0.94773.4140.0170.0170.0000.0000.0000.000
180A222ILE00.0200.01469.9630.0000.0000.0000.0000.0000.000
181A223ASN00.0200.00073.8610.0000.0000.0000.0000.0000.000
182A224ASN0-0.033-0.03068.690-0.001-0.0010.0000.0000.0000.000
183A225PRO00.0160.01872.0870.0010.0010.0000.0000.0000.000
184A226VAL00.0130.01470.0960.0000.0000.0000.0000.0000.000
185A227ILE0-0.071-0.04372.082-0.001-0.0010.0000.0000.0000.000
186A228VAL00.0040.00072.0320.0010.0010.0000.0000.0000.000
187A229ASP-1-0.830-0.89671.5770.0230.0230.0000.0000.0000.000
188A230TYR00.001-0.01473.3740.0010.0010.0000.0000.0000.000
189A231SER0-0.022-0.03972.117-0.001-0.0010.0000.0000.0000.000
190A232LEU0-0.053-0.02374.8970.0000.0000.0000.0000.0000.000
191A233PRO0-0.0110.00473.761-0.001-0.0010.0000.0000.0000.000
192A234TYR0-0.025-0.01573.0290.0000.0000.0000.0000.0000.000
193A235PHE0-0.015-0.01078.8680.0000.0000.0000.0000.0000.000
194A236GLU-1-0.931-0.96081.9570.0200.0200.0000.0000.0000.000
195A237ASN0-0.036-0.01278.2030.0010.0010.0000.0000.0000.000
196A238ASN00.0260.01675.842-0.001-0.0010.0000.0000.0000.000
197A239VAL0-0.004-0.01377.3120.0010.0010.0000.0000.0000.000
198A240PRO0-0.0270.00475.1210.0000.0000.0000.0000.0000.000
199A241LYS10.9700.97778.016-0.024-0.0240.0000.0000.0000.000
200A242ASP-1-0.862-0.91977.9230.0220.0220.0000.0000.0000.000
201A243VAL0-0.008-0.00372.9090.0000.0000.0000.0000.0000.000
202A244GLY00.0250.02175.710-0.001-0.0010.0000.0000.0000.000
203A245ILE0-0.020-0.02374.2710.0010.0010.0000.0000.0000.000
204A246TYR0-0.040-0.03574.1060.0000.0000.0000.0000.0000.000
205A247ASP-1-0.918-0.94273.1520.0270.0270.0000.0000.0000.000
206A248TYR0-0.064-0.03768.2360.0010.0010.0000.0000.0000.000
207A249VAL0-0.0010.00070.2850.0000.0000.0000.0000.0000.000
208A250ASP-1-0.858-0.89767.7380.0320.0320.0000.0000.0000.000
209A251ILE0-0.027-0.03670.7220.0000.0000.0000.0000.0000.000
210A252LYS10.8860.95667.357-0.028-0.0280.0000.0000.0000.000
211A253ASN00.039-0.00373.931-0.001-0.0010.0000.0000.0000.000
212A254GLY00.0410.01276.1420.0000.0000.0000.0000.0000.000
213A255THR0-0.070-0.03877.0600.0000.0000.0000.0000.0000.000
214A256THR00.007-0.00376.3920.0000.0000.0000.0000.0000.000
215A257ALA0-0.0300.00272.0680.0010.0010.0000.0000.0000.000
216A258TYR00.0070.00372.4470.0000.0000.0000.0000.0000.000
217A259GLY00.0450.01968.9010.0000.0000.0000.0000.0000.000
218A260LYS10.7830.88559.515-0.032-0.0320.0000.0000.0000.000
219A261CYS0-0.052-0.01765.8840.0000.0000.0000.0000.0000.000
220A262TRP00.0500.01063.8800.0010.0010.0000.0000.0000.000
221A263GLU-1-0.780-0.88956.2370.0360.0360.0000.0000.0000.000
222A264LYS10.8940.98758.556-0.034-0.0340.0000.0000.0000.000
223A265ARG10.8590.91251.324-0.043-0.0430.0000.0000.0000.000
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