Manual

About

FMODB

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

Last updated: 2024-05-02

All entries: 37386

Number of unique PDB entries: 7781

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FMODB ID: M9M7Z

Calculation Name: 2FI7-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2FI7

Chain ID: A

ChEMBL ID:

UniProt ID: Q9HXJ2

Base Structure: X-ray

Registration Date: 2023-09-26

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 223
LigandCharge DLY=1,DAR=1
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2606825.207807
FMO2-HF: Nuclear repulsion 2518131.258546
FMO2-HF: Total energy -88693.94926
FMO2-MP2: Total energy -88957.062139


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:30:ASP)


Summations of interaction energy for fragment #1(A:30:ASP)
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.
-62.56-58.11523.79-13.697-14.5350.122
Interaction energy analysis for fragmet #1(A:30:ASP)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : -1 / q_Mulliken : -0.768 / q_NPA : -0.888
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].
3A32GLY00.0540.0281.780-29.843-30.50714.351-7.657-6.0300.074
4A33ARG10.8020.8873.370-50.104-49.9380.1420.853-1.1600.009
5A34ASP-1-0.803-0.8902.31334.77339.3463.860-4.319-4.1140.007
6A35GLU-1-0.863-0.9251.96628.05928.1085.422-2.441-3.0290.031
7A36ALA0-0.022-0.0123.932-13.960-13.6390.015-0.133-0.2020.001
8A37ARG10.6910.8185.670-44.741-44.7410.0000.0000.0000.000
9A38ASP-1-0.816-0.9076.90129.97329.9730.0000.0000.0000.000
10A39ALA00.0070.0068.118-4.267-4.2670.0000.0000.0000.000
11A40TYR0-0.023-0.02410.125-4.368-4.3680.0000.0000.0000.000
12A41ILE0-0.0110.00011.139-2.532-2.5320.0000.0000.0000.000
13A42GLN00.0170.01012.269-3.342-3.3420.0000.0000.0000.000
14A43LEU0-0.0060.00814.314-1.575-1.5750.0000.0000.0000.000
15A44GLY00.009-0.00115.955-1.309-1.3090.0000.0000.0000.000
16A45LEU0-0.007-0.01216.483-1.259-1.2590.0000.0000.0000.000
17A46GLY00.0390.02918.565-0.897-0.8970.0000.0000.0000.000
18A47TYR0-0.054-0.03819.719-0.791-0.7910.0000.0000.0000.000
19A48LEU00.0060.00521.837-0.688-0.6880.0000.0000.0000.000
20A49GLN0-0.029-0.01222.792-0.670-0.6700.0000.0000.0000.000
21A50ARG10.8400.91623.507-12.820-12.8200.0000.0000.0000.000
22A51GLY00.0280.03626.560-0.426-0.4260.0000.0000.0000.000
23A52ASN0-0.071-0.04125.356-0.044-0.0440.0000.0000.0000.000
24A53THR00.0540.01625.2680.5140.5140.0000.0000.0000.000
25A54GLU-1-0.783-0.87424.96012.00812.0080.0000.0000.0000.000
26A55GLN0-0.042-0.01522.191-0.022-0.0220.0000.0000.0000.000
27A56ALA00.012-0.00420.8060.7470.7470.0000.0000.0000.000
28A57LYS10.7870.87019.754-10.758-10.7580.0000.0000.0000.000
29A58VAL0-0.028-0.00319.2510.6860.6860.0000.0000.0000.000
30A59PRO0-0.038-0.02115.6280.7780.7780.0000.0000.0000.000
31A60LEU00.0530.02315.0021.3941.3940.0000.0000.0000.000
32A61ARG10.9250.97116.055-14.090-14.0900.0000.0000.0000.000
33A62LYS11.0061.01613.512-18.424-18.4240.0000.0000.0000.000
34A63ALA00.0030.00211.4411.8261.8260.0000.0000.0000.000
35A64LEU0-0.044-0.02111.9081.1861.1860.0000.0000.0000.000
36A65GLU-1-0.949-0.98014.08318.71918.7190.0000.0000.0000.000
37A66ILE0-0.081-0.0267.6820.9480.9480.0000.0000.0000.000
38A67ASP-1-0.736-0.8528.34429.79729.7970.0000.0000.0000.000
39A68PRO00.0360.02510.379-1.207-1.2070.0000.0000.0000.000
40A69SER0-0.008-0.01911.158-1.825-1.8250.0000.0000.0000.000
41A70SER0-0.0210.00611.071-1.168-1.1680.0000.0000.0000.000
42A71ALA00.0540.01812.499-1.280-1.2800.0000.0000.0000.000
43A72ASP-1-0.762-0.87013.69718.06618.0660.0000.0000.0000.000
44A73ALA00.0040.01313.698-0.796-0.7960.0000.0000.0000.000
45A74HIS10.7960.88415.649-18.070-18.0700.0000.0000.0000.000
46A75ALA00.0230.01018.202-0.905-0.9050.0000.0000.0000.000
47A76ALA0-0.005-0.00317.967-0.793-0.7930.0000.0000.0000.000
48A77LEU0-0.009-0.00419.665-0.725-0.7250.0000.0000.0000.000
49A78ALA0-0.0040.00021.425-0.713-0.7130.0000.0000.0000.000
50A79VAL00.0090.00723.305-0.598-0.5980.0000.0000.0000.000
51A80VAL0-0.0160.00722.392-0.520-0.5200.0000.0000.0000.000
52A81PHE00.0430.00524.511-0.397-0.3970.0000.0000.0000.000
53A82GLN0-0.039-0.02227.512-0.026-0.0260.0000.0000.0000.000
54A83THR0-0.064-0.04427.532-0.428-0.4280.0000.0000.0000.000
55A84GLU-1-0.859-0.92827.89211.09511.0950.0000.0000.0000.000
56A85MET0-0.056-0.01931.303-0.393-0.3930.0000.0000.0000.000
57A86GLU-1-0.842-0.92530.5029.5399.5390.0000.0000.0000.000
58A87PRO00.005-0.01030.7140.3700.3700.0000.0000.0000.000
59A88LYS10.8770.91730.228-10.010-10.0100.0000.0000.0000.000
60A89LEU00.0120.01727.5700.2550.2550.0000.0000.0000.000
61A90ALA00.0230.01426.6980.4600.4600.0000.0000.0000.000
62A91ASP-1-0.736-0.83726.40310.56910.5690.0000.0000.0000.000
63A92GLU-1-0.822-0.88026.03811.41611.4160.0000.0000.0000.000
64A93GLU-1-0.812-0.88920.93214.77414.7740.0000.0000.0000.000
65A94TYR00.031-0.01021.8150.7970.7970.0000.0000.0000.000
66A95ARG10.7340.84223.017-10.098-10.0980.0000.0000.0000.000
67A96LYS10.7860.87219.940-12.710-12.7100.0000.0000.0000.000
68A97ALA0-0.017-0.00218.3570.7180.7180.0000.0000.0000.000
69A98LEU0-0.040-0.02718.6520.4550.4550.0000.0000.0000.000
70A99ALA0-0.040-0.01120.024-0.149-0.1490.0000.0000.0000.000
71A100SER0-0.035-0.00814.7370.6040.6040.0000.0000.0000.000
72A101ASP-1-0.820-0.92716.68515.73615.7360.0000.0000.0000.000
73A102SER0-0.013-0.00518.770-0.202-0.2020.0000.0000.0000.000
74A103ARG10.7870.85521.309-12.468-12.4680.0000.0000.0000.000
75A104ASN00.0330.02617.027-0.574-0.5740.0000.0000.0000.000
76A105ALA00.0400.01820.707-0.229-0.2290.0000.0000.0000.000
77A106ARG10.8190.88917.277-17.071-17.0710.0000.0000.0000.000
78A107VAL00.0010.00319.164-0.368-0.3680.0000.0000.0000.000
79A108LEU0-0.014-0.00322.393-0.515-0.5150.0000.0000.0000.000
80A109ASN00.009-0.01025.504-0.862-0.8620.0000.0000.0000.000
81A110ASN0-0.029-0.00823.052-0.687-0.6870.0000.0000.0000.000
82A111TYR0-0.013-0.02625.707-0.360-0.3600.0000.0000.0000.000
83A112GLY00.0220.00127.530-0.390-0.3900.0000.0000.0000.000
84A113GLY00.0050.01030.154-0.399-0.3990.0000.0000.0000.000
85A114PHE00.0190.02329.628-0.333-0.3330.0000.0000.0000.000
86A115LEU0-0.043-0.02230.316-0.354-0.3540.0000.0000.0000.000
87A116TYR0-0.027-0.01733.395-0.436-0.4360.0000.0000.0000.000
88A117GLU-1-0.859-0.91832.4769.5739.5730.0000.0000.0000.000
89A118GLN0-0.059-0.04034.082-0.283-0.2830.0000.0000.0000.000
90A119LYS10.8810.94136.790-7.979-7.9790.0000.0000.0000.000
91A120ARG10.8310.91931.837-9.608-9.6080.0000.0000.0000.000
92A121TYR00.004-0.02936.3240.2420.2420.0000.0000.0000.000
93A122GLU-1-0.922-0.95337.5247.7877.7870.0000.0000.0000.000
94A123GLU-1-0.727-0.84331.9949.7419.7410.0000.0000.0000.000
95A124ALA00.0120.00232.8240.2730.2730.0000.0000.0000.000
96A125TYR0-0.014-0.02033.0020.1920.1920.0000.0000.0000.000
97A126GLN00.0040.00432.6580.3320.3320.0000.0000.0000.000
98A127ARG10.8680.93027.946-10.089-10.0890.0000.0000.0000.000
99A128LEU00.0240.01129.0780.3180.3180.0000.0000.0000.000
100A129LEU00.0040.00331.2260.0580.0580.0000.0000.0000.000
101A130GLU-1-0.751-0.82427.17211.05911.0590.0000.0000.0000.000
102A131ALA0-0.023-0.01126.5630.2670.2670.0000.0000.0000.000
103A132SER0-0.111-0.06527.5170.0800.0800.0000.0000.0000.000
104A133GLN0-0.023-0.00927.860-0.225-0.2250.0000.0000.0000.000
105A134ASP-1-0.802-0.89822.39613.08713.0870.0000.0000.0000.000
106A135THR0-0.060-0.05525.712-0.164-0.1640.0000.0000.0000.000
107A136LEU0-0.024-0.01022.377-0.307-0.3070.0000.0000.0000.000
108A137TYR00.0270.03122.7250.1820.1820.0000.0000.0000.000
109A138PRO00.000-0.01121.895-0.503-0.5030.0000.0000.0000.000
110A139GLU-1-0.841-0.89624.78111.16811.1680.0000.0000.0000.000
111A140ARG10.8680.93726.915-10.496-10.4960.0000.0000.0000.000
112A141SER0-0.002-0.00228.916-0.173-0.1730.0000.0000.0000.000
113A142ARG10.8960.93926.627-11.651-11.6510.0000.0000.0000.000
114A143VAL0-0.0060.01028.516-0.115-0.1150.0000.0000.0000.000
115A144PHE0-0.003-0.00931.254-0.253-0.2530.0000.0000.0000.000
116A145GLU-1-0.813-0.88534.1558.7608.7600.0000.0000.0000.000
117A146ASN0-0.006-0.01131.008-0.459-0.4590.0000.0000.0000.000
118A147LEU0-0.022-0.00833.906-0.229-0.2290.0000.0000.0000.000
119A148GLY00.0210.03136.616-0.256-0.2560.0000.0000.0000.000
120A149LEU00.0350.01136.924-0.246-0.2460.0000.0000.0000.000
121A150VAL00.020-0.00636.062-0.201-0.2010.0000.0000.0000.000
122A151SER0-0.006-0.00939.384-0.195-0.1950.0000.0000.0000.000
123A152LEU0-0.0090.00642.215-0.220-0.2200.0000.0000.0000.000
124A153GLN0-0.0400.00241.275-0.288-0.2880.0000.0000.0000.000
125A154MET0-0.0220.00039.611-0.196-0.1960.0000.0000.0000.000
126A155LYS10.8790.94744.488-6.834-6.8340.0000.0000.0000.000
127A156LYS10.8950.95242.772-7.366-7.3660.0000.0000.0000.000
128A157PRO00.0570.02245.8910.1420.1420.0000.0000.0000.000
129A158ALA00.0690.02946.8580.0870.0870.0000.0000.0000.000
130A159GLN0-0.015-0.02441.540-0.011-0.0110.0000.0000.0000.000
131A160ALA0-0.001-0.00842.2610.1820.1820.0000.0000.0000.000
132A161LYS10.8190.90042.346-6.171-6.1710.0000.0000.0000.000
133A162GLU-1-0.827-0.89340.7277.8137.8130.0000.0000.0000.000
134A163TYR00.0400.01937.7710.1380.1380.0000.0000.0000.000
135A164PHE00.0370.01138.4420.2260.2260.0000.0000.0000.000
136A165GLU-1-0.813-0.89939.9557.0537.0530.0000.0000.0000.000
137A166LYS10.7280.85936.533-7.897-7.8970.0000.0000.0000.000
138A167SER0-0.026-0.04235.3510.2610.2610.0000.0000.0000.000
139A168LEU00.0330.02035.9370.1540.1540.0000.0000.0000.000
140A169ARG10.8690.93638.154-7.964-7.9640.0000.0000.0000.000
141A170LEU0-0.047-0.00631.5080.0570.0570.0000.0000.0000.000
142A171ASN00.004-0.00532.6660.0130.0130.0000.0000.0000.000
143A172ARG10.9400.95735.112-7.680-7.6800.0000.0000.0000.000
144A173ASN0-0.0170.00935.511-0.382-0.3820.0000.0000.0000.000
145A174GLN00.0300.03234.3850.0800.0800.0000.0000.0000.000
146A175PRO00.0700.02937.763-0.176-0.1760.0000.0000.0000.000
147A176SER0-0.007-0.02237.192-0.226-0.2260.0000.0000.0000.000
148A177VAL00.006-0.00137.438-0.188-0.1880.0000.0000.0000.000
149A178ALA00.0080.01240.524-0.170-0.1700.0000.0000.0000.000
150A179LEU00.0000.00743.460-0.222-0.2220.0000.0000.0000.000
151A180GLU-1-0.826-0.87741.9887.0597.0590.0000.0000.0000.000
152A181MET0-0.040-0.01143.530-0.132-0.1320.0000.0000.0000.000
153A182ALA00.0230.02046.069-0.167-0.1670.0000.0000.0000.000
154A183ASP-1-0.791-0.89248.2976.2456.2450.0000.0000.0000.000
155A184LEU0-0.088-0.03446.045-0.124-0.1240.0000.0000.0000.000
156A185LEU00.0520.02349.003-0.127-0.1270.0000.0000.0000.000
157A186TYR0-0.052-0.02251.691-0.156-0.1560.0000.0000.0000.000
158A187LYS10.7990.89350.126-6.460-6.4600.0000.0000.0000.000
159A188GLU-1-0.849-0.91450.9466.1826.1820.0000.0000.0000.000
160A189ARG10.9050.95755.120-5.361-5.3610.0000.0000.0000.000
161A190GLU-1-0.825-0.89852.7735.9385.9380.0000.0000.0000.000
162A191TYR00.022-0.01654.7010.0570.0570.0000.0000.0000.000
163A192VAL00.0340.02855.5920.0440.0440.0000.0000.0000.000
164A193PRO00.0370.01651.1130.0680.0680.0000.0000.0000.000
165A194ALA00.0040.00550.7600.1450.1450.0000.0000.0000.000
166A195ARG10.8520.90851.057-5.660-5.6600.0000.0000.0000.000
167A196GLN0-0.0050.01149.447-0.009-0.0090.0000.0000.0000.000
168A197TYR0-0.044-0.04843.9420.2040.2040.0000.0000.0000.000
169A198TYR0-0.008-0.01346.9990.1300.1300.0000.0000.0000.000
170A199ASP-1-0.820-0.90648.7486.1246.1240.0000.0000.0000.000
171A200LEU0-0.030-0.00842.7190.0690.0690.0000.0000.0000.000
172A201PHE0-0.038-0.03444.0660.1670.1670.0000.0000.0000.000
173A202ALA0-0.0030.00444.9310.1140.1140.0000.0000.0000.000
174A203GLN0-0.042-0.02644.5380.0810.0810.0000.0000.0000.000
175A204GLY0-0.022-0.00941.7200.1500.1500.0000.0000.0000.000
176A205GLY0-0.041-0.00641.9270.1290.1290.0000.0000.0000.000
177A206GLY0-0.002-0.00843.5190.0450.0450.0000.0000.0000.000
178A207GLN00.0210.01944.518-0.012-0.0120.0000.0000.0000.000
179A208ASN0-0.024-0.01144.622-0.068-0.0680.0000.0000.0000.000
180A209ALA00.0580.03647.640-0.091-0.0910.0000.0000.0000.000
181A210ARG10.8330.86844.894-7.025-7.0250.0000.0000.0000.000
182A211SER00.005-0.01347.387-0.065-0.0650.0000.0000.0000.000
183A212LEU00.0020.02749.528-0.088-0.0880.0000.0000.0000.000
184A213LEU0-0.0040.00652.524-0.109-0.1090.0000.0000.0000.000
185A214LEU0-0.038-0.00149.773-0.104-0.1040.0000.0000.0000.000
186A215GLY00.0360.01053.012-0.080-0.0800.0000.0000.0000.000
187A216ILE0-0.042-0.02754.285-0.102-0.1020.0000.0000.0000.000
188A217ARG10.7260.82456.461-5.642-5.6420.0000.0000.0000.000
189A218LEU0-0.0150.00253.556-0.083-0.0830.0000.0000.0000.000
190A219ALA00.0180.00557.412-0.061-0.0610.0000.0000.0000.000
191A220LYS10.8410.91259.137-5.246-5.2460.0000.0000.0000.000
192A221VAL0-0.097-0.03159.685-0.097-0.0970.0000.0000.0000.000
193A222PHE0-0.0170.00157.728-0.034-0.0340.0000.0000.0000.000
194A223GLU-1-0.877-0.95162.8324.9214.9210.0000.0000.0000.000
195A224ASP-1-0.839-0.88059.0635.3985.3980.0000.0000.0000.000
196A225ARG10.8560.90761.937-4.894-4.8940.0000.0000.0000.000
197A226ASP-1-0.874-0.92462.2275.0205.0200.0000.0000.0000.000
198A227THR0-0.029-0.05056.2550.0720.0720.0000.0000.0000.000
199A228ALA0-0.038-0.02658.4380.0710.0710.0000.0000.0000.000
200A229ALA0-0.036-0.00760.3590.0060.0060.0000.0000.0000.000
201A230SER0-0.0050.00557.2300.0380.0380.0000.0000.0000.000
202A231TYR00.019-0.00352.7220.1180.1180.0000.0000.0000.000
203A232GLY00.0370.01856.7000.0220.0220.0000.0000.0000.000
204A233LEU0-0.005-0.01451.638-0.007-0.0070.0000.0000.0000.000
205A234GLN00.0280.00553.6650.1320.1320.0000.0000.0000.000
206A235LEU0-0.0110.01255.7900.0200.0200.0000.0000.0000.000
207A236DLY10.9430.95057.031-5.485-5.4850.0000.0000.0000.000
208A237DAR10.9290.97449.175-6.471-6.4710.0000.0000.0000.000
209A238LEU0-0.071-0.03551.5040.1120.1120.0000.0000.0000.000
210A239TYR00.0310.02248.4290.1680.1680.0000.0000.0000.000
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