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: 76Q3K

Calculation Name: 4HUJ-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4HUJ

Chain ID: A

ChEMBL ID:

UniProt ID: Q930K7

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 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 204
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2090247.850731
FMO2-HF: Nuclear repulsion 2017804.419848
FMO2-HF: Total energy -72443.430884
FMO2-MP2: Total energy -72660.06664


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:-5:ASN)


Summations of interaction energy for fragment #1(A:-5:ASN)
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.
-2.112.4470.083-1.791-2.8490.002
Interaction energy analysis for fragmet #1(A:-5:ASN)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.039 / q_NPA : 0.003
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].
3A-3TYR0-0.030-0.0063.162-2.4470.1680.023-1.193-1.4450.002
4A-2PHE00.0410.0063.076-0.7220.3900.044-0.363-0.7930.000
5A-1GLN00.0010.0063.624-0.897-0.0670.016-0.235-0.6110.000
6A0SER0-0.041-0.0135.917-0.160-0.1600.0000.0000.0000.000
7A1MET0-0.053-0.0238.129-0.077-0.0770.0000.0000.0000.000
8A2THR00.0090.0129.1260.1850.1850.0000.0000.0000.000
9A3THR0-0.019-0.0346.229-0.126-0.1260.0000.0000.0000.000
10A4TYR00.0450.0039.5520.0010.0010.0000.0000.0000.000
11A5ALA00.0110.00611.506-0.041-0.0410.0000.0000.0000.000
12A6ILE0-0.030-0.00913.375-0.016-0.0160.0000.0000.0000.000
13A7ILE00.0370.01515.124-0.010-0.0100.0000.0000.0000.000
14A8GLY00.019-0.00218.182-0.015-0.0150.0000.0000.0000.000
15A9ALA00.0000.00120.417-0.003-0.0030.0000.0000.0000.000
16A10GLY00.0060.00323.108-0.002-0.0020.0000.0000.0000.000
17A11ALA00.0260.00424.6750.0030.0030.0000.0000.0000.000
18A12ILE00.0380.01724.506-0.001-0.0010.0000.0000.0000.000
19A13GLY00.0360.02421.2320.0070.0070.0000.0000.0000.000
20A14SER00.0350.00620.5680.0020.0020.0000.0000.0000.000
21A15ALA0-0.041-0.01722.113-0.001-0.0010.0000.0000.0000.000
22A16LEU00.0310.01819.390-0.002-0.0020.0000.0000.0000.000
23A17ALA00.0390.01617.6970.0020.0020.0000.0000.0000.000
24A18GLU-1-0.821-0.87618.5860.0800.0800.0000.0000.0000.000
25A19ARG10.8030.89521.246-0.093-0.0930.0000.0000.0000.000
26A20PHE00.008-0.01414.6730.0000.0000.0000.0000.0000.000
27A21THR0-0.002-0.01217.028-0.004-0.0040.0000.0000.0000.000
28A22ALA0-0.070-0.02717.976-0.007-0.0070.0000.0000.0000.000
29A23ALA0-0.021-0.00719.086-0.007-0.0070.0000.0000.0000.000
30A24GLN0-0.060-0.02316.592-0.004-0.0040.0000.0000.0000.000
31A25ILE00.0010.01313.588-0.001-0.0010.0000.0000.0000.000
32A26PRO0-0.023-0.0129.1830.0040.0040.0000.0000.0000.000
33A27ALA00.0050.00410.5210.0380.0380.0000.0000.0000.000
34A28ILE0-0.042-0.0097.756-0.056-0.0560.0000.0000.0000.000
35A29ILE0-0.010-0.00310.9120.0240.0240.0000.0000.0000.000
36A30ALA00.0310.00814.053-0.011-0.0110.0000.0000.0000.000
37A31ASN00.009-0.01216.003-0.005-0.0050.0000.0000.0000.000
38A32SER00.0640.01519.1530.0040.0040.0000.0000.0000.000
39A33ARG10.8970.95921.556-0.110-0.1100.0000.0000.0000.000
40A34GLY00.0840.05817.684-0.010-0.0100.0000.0000.0000.000
41A35PRO00.0220.01814.170-0.007-0.0070.0000.0000.0000.000
42A36ALA00.0340.01716.333-0.006-0.0060.0000.0000.0000.000
43A37SER0-0.067-0.03819.329-0.006-0.0060.0000.0000.0000.000
44A38LEU0-0.0200.00116.827-0.004-0.0040.0000.0000.0000.000
45A39SER00.0120.00818.7620.0010.0010.0000.0000.0000.000
46A40SER00.0130.00520.164-0.001-0.0010.0000.0000.0000.000
47A41VAL0-0.039-0.01018.248-0.003-0.0030.0000.0000.0000.000
48A42THR00.008-0.01215.0990.0030.0030.0000.0000.0000.000
49A43ASP-1-0.917-0.96917.4780.0840.0840.0000.0000.0000.000
50A44ARG10.7230.84920.346-0.089-0.0890.0000.0000.0000.000
51A45PHE00.0080.00217.309-0.003-0.0030.0000.0000.0000.000
52A46GLY00.0380.02214.3300.0040.0040.0000.0000.0000.000
53A47ALA0-0.079-0.03412.9900.0100.0100.0000.0000.0000.000
54A48SER0-0.017-0.00412.508-0.005-0.0050.0000.0000.0000.000
55A49VAL0-0.039-0.01112.2130.0050.0050.0000.0000.0000.000
56A50LYS10.9220.9637.689-0.140-0.1400.0000.0000.0000.000
57A51ALA00.0290.02311.4560.0130.0130.0000.0000.0000.000
58A52VAL0-0.058-0.0318.384-0.026-0.0260.0000.0000.0000.000
59A53GLU-1-0.840-0.93611.1890.1740.1740.0000.0000.0000.000
60A54LEU0-0.030-0.01112.5720.0440.0440.0000.0000.0000.000
61A55LYS10.9440.96113.592-0.225-0.2250.0000.0000.0000.000
62A56ASP-1-0.850-0.9048.4580.4330.4330.0000.0000.0000.000
63A57ALA0-0.014-0.01910.0860.1450.1450.0000.0000.0000.000
64A58LEU0-0.042-0.03311.9830.0350.0350.0000.0000.0000.000
65A59GLN0-0.014-0.0099.6020.1520.1520.0000.0000.0000.000
66A60ALA0-0.0220.0109.3590.2350.2350.0000.0000.0000.000
67A61ASP-1-0.799-0.8619.7911.0781.0780.0000.0000.0000.000
68A62VAL0-0.033-0.01212.267-0.124-0.1240.0000.0000.0000.000
69A63VAL00.0060.01013.880-0.017-0.0170.0000.0000.0000.000
70A64ILE00.003-0.00516.084-0.040-0.0400.0000.0000.0000.000
71A65LEU00.0290.01119.011-0.006-0.0060.0000.0000.0000.000
72A66ALA0-0.017-0.00121.250-0.020-0.0200.0000.0000.0000.000
73A67VAL0-0.039-0.02822.410-0.010-0.0100.0000.0000.0000.000
74A68PRO0-0.010-0.01825.064-0.003-0.0030.0000.0000.0000.000
75A69TYR00.0380.01227.8300.0030.0030.0000.0000.0000.000
76A70ASP-1-0.782-0.86428.9980.1070.1070.0000.0000.0000.000
77A71SER0-0.040-0.02425.980-0.001-0.0010.0000.0000.0000.000
78A72ILE00.0040.01124.1280.0100.0100.0000.0000.0000.000
79A73ALA00.0270.02524.3480.0160.0160.0000.0000.0000.000
80A74ASP-1-0.874-0.94125.2210.1440.1440.0000.0000.0000.000
81A75ILE0-0.076-0.02719.8770.0090.0090.0000.0000.0000.000
82A76VAL00.006-0.00920.4540.0230.0230.0000.0000.0000.000
83A77THR00.0060.00421.1480.0150.0150.0000.0000.0000.000
84A78GLN0-0.131-0.07619.0270.0060.0060.0000.0000.0000.000
85A79VAL0-0.015-0.00115.8710.0180.0180.0000.0000.0000.000
86A80SER0-0.008-0.00618.481-0.017-0.0170.0000.0000.0000.000
87A81ASP-1-0.921-0.96318.0980.3080.3080.0000.0000.0000.000
88A82TRP00.0150.01016.7840.0640.0640.0000.0000.0000.000
89A83GLY0-0.010-0.01617.2570.0160.0160.0000.0000.0000.000
90A84GLY0-0.064-0.01515.7680.0520.0520.0000.0000.0000.000
91A85GLN0-0.059-0.03313.214-0.026-0.0260.0000.0000.0000.000
92A86ILE0-0.044-0.02115.883-0.086-0.0860.0000.0000.0000.000
93A87VAL00.0160.01417.4400.0200.0200.0000.0000.0000.000
94A88VAL0-0.001-0.01619.246-0.030-0.0300.0000.0000.0000.000
95A89ASP-1-0.730-0.81921.6180.1510.1510.0000.0000.0000.000
96A90ALA0-0.004-0.00323.804-0.014-0.0140.0000.0000.0000.000
97A91SER0-0.043-0.03225.531-0.016-0.0160.0000.0000.0000.000
98A92ASN0-0.006-0.02928.020-0.003-0.0030.0000.0000.0000.000
99A93ALA00.0330.03231.828-0.001-0.0010.0000.0000.0000.000
100A94ILE0-0.057-0.02634.173-0.005-0.0050.0000.0000.0000.000
101A95ASP-1-0.783-0.86636.7170.0780.0780.0000.0000.0000.000
102A96PHE0-0.019-0.01138.581-0.002-0.0020.0000.0000.0000.000
103A97PRO00.0210.00240.646-0.001-0.0010.0000.0000.0000.000
104A98ALA00.0200.00142.773-0.001-0.0010.0000.0000.0000.000
105A99PHE00.0180.01337.430-0.001-0.0010.0000.0000.0000.000
106A100LYS10.8320.90941.120-0.061-0.0610.0000.0000.0000.000
107A101PRO0-0.001-0.00538.7510.0030.0030.0000.0000.0000.000
108A102ARG10.7570.84734.628-0.095-0.0950.0000.0000.0000.000
109A103ASP-1-0.887-0.94139.3600.0700.0700.0000.0000.0000.000
110A104LEU0-0.038-0.02135.2900.0030.0030.0000.0000.0000.000
111A105GLY00.0240.01239.1900.0020.0020.0000.0000.0000.000
112A106GLY0-0.055-0.02941.819-0.001-0.0010.0000.0000.0000.000
113A107ARG10.7410.84434.041-0.107-0.1070.0000.0000.0000.000
114A108LEU00.0040.01334.419-0.002-0.0020.0000.0000.0000.000
115A109SER00.013-0.00730.6710.0040.0040.0000.0000.0000.000
116A110THR00.000-0.03827.2630.0020.0020.0000.0000.0000.000
117A111GLU-1-0.876-0.91428.7470.1170.1170.0000.0000.0000.000
118A112ILE00.0370.01830.1780.0070.0070.0000.0000.0000.000
119A113VAL0-0.013-0.00724.9700.0050.0050.0000.0000.0000.000
120A114SER0-0.018-0.03825.7240.0160.0160.0000.0000.0000.000
121A115GLU-1-0.876-0.90126.1070.1330.1330.0000.0000.0000.000
122A116LEU0-0.045-0.01525.893-0.003-0.0030.0000.0000.0000.000
123A117VAL0-0.036-0.00421.2640.0130.0130.0000.0000.0000.000
124A118PRO00.0300.01522.4190.0100.0100.0000.0000.0000.000
125A119GLY00.0510.01220.6560.0200.0200.0000.0000.0000.000
126A120ALA0-0.0080.01219.4500.0220.0220.0000.0000.0000.000
127A121LYS10.7890.88120.151-0.286-0.2860.0000.0000.0000.000
128A122VAL0-0.019-0.01021.3810.0180.0180.0000.0000.0000.000
129A123VAL0-0.023-0.01623.146-0.021-0.0210.0000.0000.0000.000
130A124LYS10.8160.91024.524-0.124-0.1240.0000.0000.0000.000
131A125ALA00.0420.01624.335-0.009-0.0090.0000.0000.0000.000
132A126PHE00.0560.01421.4660.0040.0040.0000.0000.0000.000
133A127ASN0-0.023-0.01026.468-0.005-0.0050.0000.0000.0000.000
134A128THR0-0.0120.00729.037-0.005-0.0050.0000.0000.0000.000
135A129LEU00.0240.01728.843-0.008-0.0080.0000.0000.0000.000
136A130PRO00.0130.00230.0080.0040.0040.0000.0000.0000.000
137A131ALA00.0360.01427.817-0.001-0.0010.0000.0000.0000.000
138A132ALA00.0160.00828.4110.0010.0010.0000.0000.0000.000
139A133VAL0-0.049-0.02430.667-0.002-0.0020.0000.0000.0000.000
140A134LEU0-0.0060.00524.1610.0000.0000.0000.0000.0000.000
141A135ALA00.0450.01225.5760.0030.0030.0000.0000.0000.000
142A136ALA0-0.033-0.00326.621-0.002-0.0020.0000.0000.0000.000
143A137ASP-1-0.799-0.89626.7290.0760.0760.0000.0000.0000.000
144A138PRO0-0.0030.01926.304-0.005-0.0050.0000.0000.0000.000
145A139ASP-1-0.811-0.88929.4250.0520.0520.0000.0000.0000.000
146A140LYS10.7790.86931.444-0.061-0.0610.0000.0000.0000.000
147A141GLY00.0090.01634.683-0.003-0.0030.0000.0000.0000.000
148A142THR0-0.080-0.05536.551-0.003-0.0030.0000.0000.0000.000
149A143GLY00.0600.03235.3270.0000.0000.0000.0000.0000.000
150A144SER0-0.0040.00929.595-0.002-0.0020.0000.0000.0000.000
151A145ARG10.8210.89530.496-0.070-0.0700.0000.0000.0000.000
152A146VAL0-0.012-0.00430.5320.0050.0050.0000.0000.0000.000
153A147LEU0-0.028-0.01225.7120.0010.0010.0000.0000.0000.000
154A148PHE00.020-0.00329.4230.0020.0020.0000.0000.0000.000
155A149LEU0-0.044-0.01025.5290.0070.0070.0000.0000.0000.000
156A150SER00.0490.03328.340-0.009-0.0090.0000.0000.0000.000
157A151GLY00.0600.02627.1890.0120.0120.0000.0000.0000.000
158A152ASN0-0.0040.00428.068-0.016-0.0160.0000.0000.0000.000
159A153HIS00.0470.02724.8050.0040.0040.0000.0000.0000.000
160A154SER00.0520.02725.5420.0130.0130.0000.0000.0000.000
161A155ASP-1-0.821-0.89822.1360.2160.2160.0000.0000.0000.000
162A156ALA00.0860.04521.3390.0090.0090.0000.0000.0000.000
163A157ASN0-0.047-0.04322.3260.0140.0140.0000.0000.0000.000
164A158ARG10.8450.92722.255-0.169-0.1690.0000.0000.0000.000
165A159GLN00.0520.02317.144-0.016-0.0160.0000.0000.0000.000
166A160VAL00.0140.01220.0830.0040.0040.0000.0000.0000.000
167A161ALA0-0.003-0.00721.721-0.012-0.0120.0000.0000.0000.000
168A162GLU-1-0.832-0.91120.4070.1740.1740.0000.0000.0000.000
169A163LEU00.0110.02817.123-0.011-0.0110.0000.0000.0000.000
170A164ILE0-0.026-0.02820.127-0.014-0.0140.0000.0000.0000.000
171A165SER0-0.044-0.04023.503-0.013-0.0130.0000.0000.0000.000
172A166SER0-0.051-0.02519.261-0.011-0.0110.0000.0000.0000.000
173A167LEU0-0.042-0.01518.774-0.008-0.0080.0000.0000.0000.000
174A168GLY00.0290.01921.972-0.007-0.0070.0000.0000.0000.000
175A169PHE0-0.040-0.03224.575-0.008-0.0080.0000.0000.0000.000
176A170ALA00.0190.00627.4350.0010.0010.0000.0000.0000.000
177A171PRO0-0.0050.01227.045-0.001-0.0010.0000.0000.0000.000
178A172VAL0-0.049-0.04229.117-0.009-0.0090.0000.0000.0000.000
179A173ASP-1-0.802-0.90129.3590.1270.1270.0000.0000.0000.000
180A174LEU0-0.055-0.02431.027-0.008-0.0080.0000.0000.0000.000
181A175GLY0-0.0020.00932.030-0.006-0.0060.0000.0000.0000.000
182A176THR00.025-0.00531.4390.0070.0070.0000.0000.0000.000
183A177LEU00.0340.01328.633-0.005-0.0050.0000.0000.0000.000
184A178ALA00.002-0.00332.610-0.005-0.0050.0000.0000.0000.000
185A179ALA0-0.0140.00735.683-0.006-0.0060.0000.0000.0000.000
186A180SER00.015-0.01732.272-0.005-0.0050.0000.0000.0000.000
187A181GLY00.0560.03435.457-0.002-0.0020.0000.0000.0000.000
188A182PRO0-0.047-0.03936.927-0.003-0.0030.0000.0000.0000.000
189A183ILE0-0.025-0.02636.742-0.004-0.0040.0000.0000.0000.000
190A184GLN00.015-0.00329.416-0.003-0.0030.0000.0000.0000.000
191A185GLN00.0520.04233.7060.0100.0100.0000.0000.0000.000
192A186PHE00.045-0.00434.971-0.005-0.0050.0000.0000.0000.000
193A187GLY0-0.006-0.00536.501-0.002-0.0020.0000.0000.0000.000
194A188ARG10.8470.95438.209-0.076-0.0760.0000.0000.0000.000
195A189PRO00.026-0.00439.1490.0020.0020.0000.0000.0000.000
196A190LEU00.0150.02036.069-0.002-0.0020.0000.0000.0000.000
197A191VAL0-0.037-0.01034.3490.0030.0030.0000.0000.0000.000
198A192ALA0-0.050-0.02834.965-0.004-0.0040.0000.0000.0000.000
199A193LEU0-0.0140.01336.418-0.004-0.0040.0000.0000.0000.000
200A194ASN0-0.019-0.01635.6960.0030.0030.0000.0000.0000.000
201A195LEU00.0060.00436.318-0.003-0.0030.0000.0000.0000.000
202A196LEU0-0.0100.00334.8970.0040.0040.0000.0000.0000.000
203A197LYS10.9110.95932.206-0.078-0.0780.0000.0000.0000.000
204A198ASP-1-0.911-0.94435.1730.0490.0490.0000.0000.0000.000