Manual

About

FMODB

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

Last updated: 2024-04-05

All entries: 36946

Number of unique PDB entries: 7781

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FMODB ID: 6N9MZ

Calculation Name: 2HQ1-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2HQ1

Chain ID: A

ChEMBL ID:

UniProt ID: A3DDY9

Base Structure: X-ray

Registration Date: 2023-09-20

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 221
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2446992.749094
FMO2-HF: Nuclear repulsion 2364319.600443
FMO2-HF: Total energy -82673.14865
FMO2-MP2: Total energy -82912.04272


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:1:MET)


Summations of interaction energy for fragment #1(A:1:MET)
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.
-27.961-27.51822.536-8.691-14.29-0.033
Interaction energy analysis for fragmet #1(A:1:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.010 / q_NPA : -0.022
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].
3A3LEU0-0.022-0.0182.7180.6042.3960.044-0.751-1.0850.001
4A4LYS10.8940.9542.382-17.933-16.6286.186-2.930-4.5610.024
5A5GLY0-0.0120.0013.894-2.868-2.4990.058-0.216-0.2120.002
6A6LYS10.8410.9276.638-1.393-1.3930.0000.0000.0000.000
7A7THR0-0.016-0.0188.2030.3840.3840.0000.0000.0000.000
8A8ALA0-0.027-0.01310.207-0.185-0.1850.0000.0000.0000.000
9A9ILE00.0280.01711.936-0.001-0.0010.0000.0000.0000.000
10A10VAL0-0.0090.00013.732-0.063-0.0630.0000.0000.0000.000
11A11THR00.0460.02016.5940.0040.0040.0000.0000.0000.000
12A12GLY00.0140.00520.271-0.038-0.0380.0000.0000.0000.000
13A13SER0-0.027-0.03416.990-0.020-0.0200.0000.0000.0000.000
14A14SER0-0.034-0.00418.305-0.029-0.0290.0000.0000.0000.000
15A15ARG10.9120.95720.2120.0600.0600.0000.0000.0000.000
16A16GLY00.0470.02620.4150.0060.0060.0000.0000.0000.000
17A17LEU00.0470.02118.403-0.029-0.0290.0000.0000.0000.000
18A18GLY00.0690.03017.401-0.037-0.0370.0000.0000.0000.000
19A19LYS10.7960.87815.6290.2660.2660.0000.0000.0000.000
20A20ALA00.0540.02613.980-0.043-0.0430.0000.0000.0000.000
21A21ILE0-0.003-0.01312.603-0.125-0.1250.0000.0000.0000.000
22A22ALA00.003-0.00111.663-0.053-0.0530.0000.0000.0000.000
23A23TRP00.0370.0299.3560.0590.0590.0000.0000.0000.000
24A24LYS10.8800.9447.3531.6971.6970.0000.0000.0000.000
25A25LEU00.021-0.0086.953-0.346-0.3460.0000.0000.0000.000
26A26GLY00.0330.0136.0360.3650.3650.0000.0000.0000.000
27A27ASN0-0.046-0.0353.853-0.0190.4700.004-0.059-0.4340.000
28A28MET0-0.0670.0042.545-5.036-2.6191.758-1.626-2.549-0.016
29A29GLY0-0.016-0.0191.899-5.465-8.40014.407-6.391-5.081-0.044
30A30ALA00.0290.0262.8494.6191.6250.0793.282-0.3680.000
31A31ASN0-0.0160.0015.8310.0950.0950.0000.0000.0000.000
32A32ILE0-0.011-0.0178.779-0.252-0.2520.0000.0000.0000.000
33A33VAL00.0160.00411.657-0.009-0.0090.0000.0000.0000.000
34A34LEU00.0130.01414.788-0.072-0.0720.0000.0000.0000.000
35A35ASN0-0.012-0.01517.3460.0040.0040.0000.0000.0000.000
36A36GLY0-0.010-0.01120.845-0.043-0.0430.0000.0000.0000.000
37A37SER00.0780.05224.2730.0200.0200.0000.0000.0000.000
38A38PRO00.0750.02727.008-0.007-0.0070.0000.0000.0000.000
39A39ALA0-0.0030.00928.2820.0010.0010.0000.0000.0000.000
40A40SER0-0.077-0.04424.665-0.022-0.0220.0000.0000.0000.000
41A41THR00.0520.02025.0110.0040.0040.0000.0000.0000.000
42A42SER00.002-0.01322.0470.0030.0030.0000.0000.0000.000
43A43LEU0-0.0250.00619.382-0.021-0.0210.0000.0000.0000.000
44A44ASP-1-0.766-0.86819.3130.0880.0880.0000.0000.0000.000
45A45ALA00.0210.01819.2070.0110.0110.0000.0000.0000.000
46A46THR00.0340.00515.562-0.044-0.0440.0000.0000.0000.000
47A47ALA0-0.012-0.00714.842-0.015-0.0150.0000.0000.0000.000
48A48GLU-1-0.897-0.93914.4820.1350.1350.0000.0000.0000.000
49A49GLU-1-0.861-0.91613.973-0.287-0.2870.0000.0000.0000.000
50A50PHE0-0.023-0.02710.652-0.126-0.1260.0000.0000.0000.000
51A51LYS10.8320.9119.760-0.872-0.8720.0000.0000.0000.000
52A52ALA00.0050.00811.2120.0290.0290.0000.0000.0000.000
53A53ALA0-0.041-0.0137.787-0.067-0.0670.0000.0000.0000.000
54A54GLY00.0100.0066.570-0.333-0.3330.0000.0000.0000.000
55A55ILE0-0.0300.0056.1690.5850.5850.0000.0000.0000.000
56A56ASN0-0.024-0.0067.741-0.370-0.3700.0000.0000.0000.000
57A57VAL0-0.013-0.00510.5170.0170.0170.0000.0000.0000.000
58A58VAL00.0150.02213.344-0.013-0.0130.0000.0000.0000.000
59A59VAL0-0.004-0.01616.965-0.043-0.0430.0000.0000.0000.000
60A60ALA00.0300.03419.892-0.001-0.0010.0000.0000.0000.000
61A61LYS10.8040.87221.820-0.127-0.1270.0000.0000.0000.000
62A62GLY00.0630.03025.0250.0120.0120.0000.0000.0000.000
63A63ASP-1-0.987-1.00526.1620.0110.0110.0000.0000.0000.000
64A64VAL00.020-0.00823.4410.0030.0030.0000.0000.0000.000
65A65LYS10.8240.90226.8930.0060.0060.0000.0000.0000.000
66A66ASN0-0.040-0.02830.0680.0050.0050.0000.0000.0000.000
67A67PRO0-0.007-0.01429.6760.0080.0080.0000.0000.0000.000
68A68GLU-1-0.814-0.89629.3950.1080.1080.0000.0000.0000.000
69A69ASP-1-0.762-0.89027.9810.1270.1270.0000.0000.0000.000
70A70VAL0-0.072-0.01924.6090.0170.0170.0000.0000.0000.000
71A71GLU-1-0.823-0.90324.6380.2210.2210.0000.0000.0000.000
72A72ASN0-0.048-0.01225.4900.0510.0510.0000.0000.0000.000
73A73MET0-0.0130.00420.6050.0230.0230.0000.0000.0000.000
74A74VAL0-0.011-0.01120.7460.0450.0450.0000.0000.0000.000
75A75LYS10.8040.88321.097-0.271-0.2710.0000.0000.0000.000
76A76THR00.032-0.00421.0550.0430.0430.0000.0000.0000.000
77A77ALA0-0.017-0.00616.9490.0550.0550.0000.0000.0000.000
78A78MET0-0.053-0.01317.1330.1060.1060.0000.0000.0000.000
79A79ASP-1-0.827-0.90119.3080.4170.4170.0000.0000.0000.000
80A80ALA0-0.0380.00116.4360.0180.0180.0000.0000.0000.000
81A81PHE0-0.010-0.02413.1230.1390.1390.0000.0000.0000.000
82A82GLY0-0.0080.00514.8070.1000.1000.0000.0000.0000.000
83A83ARG10.7950.86211.746-1.090-1.0900.0000.0000.0000.000
84A84ILE00.018-0.01014.5410.0250.0250.0000.0000.0000.000
85A85ASP-1-0.771-0.82111.1111.0041.0040.0000.0000.0000.000
86A86ILE00.0170.0009.481-0.130-0.1300.0000.0000.0000.000
87A87LEU0-0.0100.01013.5870.0510.0510.0000.0000.0000.000
88A88VAL0-0.005-0.00414.319-0.053-0.0530.0000.0000.0000.000
89A89ASN0-0.002-0.00917.2410.0250.0250.0000.0000.0000.000
90A90ASN0-0.022-0.02419.476-0.057-0.0570.0000.0000.0000.000
91A91ALA0-0.0010.00621.3650.0210.0210.0000.0000.0000.000
92A107TRP00.0600.00439.3080.0000.0000.0000.0000.0000.000
93A108ASP-1-0.872-0.93137.939-0.005-0.0050.0000.0000.0000.000
94A109ASP-1-0.823-0.90635.270-0.011-0.0110.0000.0000.0000.000
95A110VAL0-0.0210.00833.714-0.002-0.0020.0000.0000.0000.000
96A111LEU00.0190.01032.793-0.002-0.0020.0000.0000.0000.000
97A112ASN0-0.002-0.01732.6860.0090.0090.0000.0000.0000.000
98A113THR00.0320.01529.1280.0100.0100.0000.0000.0000.000
99A114ASN00.0240.04626.219-0.009-0.0090.0000.0000.0000.000
100A115LEU0-0.0070.00527.4440.0020.0020.0000.0000.0000.000
101A116LYS10.9170.95929.029-0.008-0.0080.0000.0000.0000.000
102A117SER00.0630.01726.3970.0160.0160.0000.0000.0000.000
103A118ALA00.0320.03524.6050.0170.0170.0000.0000.0000.000
104A119TYR00.0030.02125.2880.0220.0220.0000.0000.0000.000
105A120LEU0-0.023-0.00927.5360.0160.0160.0000.0000.0000.000
106A121CYS00.0010.00322.3010.0200.0200.0000.0000.0000.000
107A122THR00.006-0.02222.6390.0250.0250.0000.0000.0000.000
108A123LYS10.9010.96023.696-0.073-0.0730.0000.0000.0000.000
109A124ALA00.0110.01024.5930.0140.0140.0000.0000.0000.000
110A125VAL00.0490.01718.6590.0230.0230.0000.0000.0000.000
111A126SER0-0.038-0.02221.4780.0290.0290.0000.0000.0000.000
112A127LYS10.8000.88823.412-0.186-0.1860.0000.0000.0000.000
113A128ILE0-0.023-0.01318.8700.0050.0050.0000.0000.0000.000
114A129MET00.0050.01316.1730.0070.0070.0000.0000.0000.000
115A130LEU0-0.006-0.00720.0090.0010.0010.0000.0000.0000.000
116A131LYS10.8730.94022.300-0.294-0.2940.0000.0000.0000.000
117A132GLN0-0.020-0.01916.1630.0650.0650.0000.0000.0000.000
118A133LYS10.9200.98219.034-0.242-0.2420.0000.0000.0000.000
119A134SER00.0070.00016.0280.0110.0110.0000.0000.0000.000
120A135GLY00.0400.01215.0980.0540.0540.0000.0000.0000.000
121A136LYS10.7980.90012.9980.0680.0680.0000.0000.0000.000
122A137ILE00.0220.00815.7830.0140.0140.0000.0000.0000.000
123A138ILE0-0.004-0.00913.914-0.036-0.0360.0000.0000.0000.000
124A139ASN00.014-0.01018.3650.0180.0180.0000.0000.0000.000
125A140ILE00.0270.01417.993-0.033-0.0330.0000.0000.0000.000
126A141THR0-0.030-0.02022.1360.0180.0180.0000.0000.0000.000
127A142SER00.0370.01325.134-0.022-0.0220.0000.0000.0000.000
128A152GLN00.0620.01535.6930.0020.0020.0000.0000.0000.000
129A153ALA00.0190.00637.420-0.003-0.0030.0000.0000.0000.000
130A154ASN00.0680.04837.884-0.003-0.0030.0000.0000.0000.000
131A155TYR00.0360.01933.2980.0050.0050.0000.0000.0000.000
132A156ALA00.0140.01133.158-0.003-0.0030.0000.0000.0000.000
133A157ALA00.0210.01034.150-0.001-0.0010.0000.0000.0000.000
134A158SER0-0.019-0.02431.9650.0070.0070.0000.0000.0000.000
135A159LYS10.8780.95227.2010.1620.1620.0000.0000.0000.000
136A160ALA00.0100.00129.761-0.003-0.0030.0000.0000.0000.000
137A161GLY00.0300.01331.7410.0040.0040.0000.0000.0000.000
138A162LEU0-0.0040.00224.8300.0100.0100.0000.0000.0000.000
139A163ILE00.0210.03027.0010.0040.0040.0000.0000.0000.000
140A164GLY0-0.0050.00028.4200.0030.0030.0000.0000.0000.000
141A165PHE00.001-0.00625.4160.0080.0080.0000.0000.0000.000
142A166THR00.011-0.01123.5210.0110.0110.0000.0000.0000.000
143A167LYS10.9360.97826.0290.0930.0930.0000.0000.0000.000
144A168SER0-0.0090.00428.2450.0060.0060.0000.0000.0000.000
145A169ILE0-0.004-0.00324.2360.0100.0100.0000.0000.0000.000
146A170ALA0-0.0030.00324.5200.0130.0130.0000.0000.0000.000
147A171LYS10.9390.96525.483-0.001-0.0010.0000.0000.0000.000
148A172GLU-1-0.894-0.94528.6740.0960.0960.0000.0000.0000.000
149A173PHE0-0.001-0.01823.7830.0200.0200.0000.0000.0000.000
150A174ALA00.0530.04323.7430.0180.0180.0000.0000.0000.000
151A175ALA0-0.022-0.01324.5070.0120.0120.0000.0000.0000.000
152A176LYS10.7690.88624.447-0.107-0.1070.0000.0000.0000.000
153A177GLY00.0300.02321.2300.0310.0310.0000.0000.0000.000
154A178ILE0-0.070-0.02119.3080.0160.0160.0000.0000.0000.000
155A179TYR00.0140.01516.729-0.051-0.0510.0000.0000.0000.000
156A180CYS0-0.074-0.01919.4360.0140.0140.0000.0000.0000.000
157A181ASN00.022-0.00718.376-0.016-0.0160.0000.0000.0000.000
158A182ALA00.0100.00220.9460.0180.0180.0000.0000.0000.000
159A183VAL00.0180.01817.521-0.026-0.0260.0000.0000.0000.000
160A184ALA0-0.016-0.01920.9310.0260.0260.0000.0000.0000.000
161A185PRO0-0.0050.00121.642-0.010-0.0100.0000.0000.0000.000
162A186GLY00.0040.00424.0720.0290.0290.0000.0000.0000.000
163A187ILE0-0.019-0.00326.9200.0040.0040.0000.0000.0000.000
164A188ILE0-0.034-0.01422.128-0.019-0.0190.0000.0000.0000.000
165A189LYS10.8170.88622.1760.3470.3470.0000.0000.0000.000
166A190THR0-0.008-0.01423.271-0.006-0.0060.0000.0000.0000.000
167A191ASP-1-0.834-0.92425.530-0.191-0.1910.0000.0000.0000.000
168A192MET00.0220.01527.6740.0060.0060.0000.0000.0000.000
169A193THR00.0420.01127.7280.0010.0010.0000.0000.0000.000
170A194ASP-1-0.833-0.88726.643-0.280-0.2800.0000.0000.0000.000
171A195VAL0-0.017-0.01929.7770.0060.0060.0000.0000.0000.000
172A196LEU0-0.042-0.00132.6700.0120.0120.0000.0000.0000.000
173A197PRO00.0300.00134.873-0.006-0.0060.0000.0000.0000.000
174A198ASP-1-0.758-0.86336.673-0.143-0.1430.0000.0000.0000.000
175A199LYS10.8520.90437.7530.1250.1250.0000.0000.0000.000
176A200VAL00.0080.00737.1080.0000.0000.0000.0000.0000.000
177A201LYS10.8260.91931.6470.1900.1900.0000.0000.0000.000
178A202GLU-1-0.832-0.92934.749-0.189-0.1890.0000.0000.0000.000
179A203MET0-0.0470.00236.804-0.001-0.0010.0000.0000.0000.000
180A204TYR00.012-0.01033.3430.0020.0020.0000.0000.0000.000
181A205LEU0-0.026-0.00130.452-0.008-0.0080.0000.0000.0000.000
182A206ASN00.0330.00033.539-0.013-0.0130.0000.0000.0000.000
183A207ASN0-0.052-0.02135.7200.0050.0050.0000.0000.0000.000
184A208ILE0-0.0040.02529.0710.0000.0000.0000.0000.0000.000
185A209PRO0-0.0100.00531.094-0.004-0.0040.0000.0000.0000.000
186A210LEU0-0.024-0.01425.715-0.003-0.0030.0000.0000.0000.000
187A211LYS10.7880.89929.2960.1750.1750.0000.0000.0000.000
188A212ARG10.9100.94924.3870.3450.3450.0000.0000.0000.000
189A213PHE00.0020.00026.5290.0090.0090.0000.0000.0000.000
190A214GLY00.0440.03023.005-0.020-0.0200.0000.0000.0000.000
191A215THR0-0.021-0.04718.5510.0060.0060.0000.0000.0000.000
192A216PRO00.018-0.00517.855-0.005-0.0050.0000.0000.0000.000
193A217GLU-1-0.818-0.92113.989-0.607-0.6070.0000.0000.0000.000
194A218GLU-1-0.858-0.88114.507-0.606-0.6060.0000.0000.0000.000
195A219VAL00.000-0.00315.884-0.014-0.0140.0000.0000.0000.000
196A220ALA00.0070.00412.9740.0220.0220.0000.0000.0000.000
197A221ASN0-0.019-0.02210.865-0.261-0.2610.0000.0000.0000.000
198A222VAL00.0080.01812.037-0.031-0.0310.0000.0000.0000.000
199A223VAL0-0.005-0.00812.8810.0430.0430.0000.0000.0000.000
200A224GLY00.023-0.0039.5740.0540.0540.0000.0000.0000.000
201A225PHE00.0110.0099.6430.0080.0080.0000.0000.0000.000
202A226LEU0-0.0140.00211.6240.0650.0650.0000.0000.0000.000
203A227ALA0-0.0100.0029.8420.1130.1130.0000.0000.0000.000
204A228SER0-0.060-0.0348.3380.1140.1140.0000.0000.0000.000
205A229ASP-1-0.793-0.8969.1530.2760.2760.0000.0000.0000.000
206A230ASP-1-0.847-0.9259.223-1.043-1.0430.0000.0000.0000.000
207A231SER0-0.035-0.02312.0720.0910.0910.0000.0000.0000.000
208A232ASN0-0.019-0.02813.2920.0750.0750.0000.0000.0000.000
209A233TYR0-0.024-0.02116.401-0.028-0.0280.0000.0000.0000.000
210A234ILE0-0.0090.02117.3790.0050.0050.0000.0000.0000.000
211A235THR00.0380.01819.6090.0150.0150.0000.0000.0000.000
212A236GLY00.0130.00822.275-0.006-0.0060.0000.0000.0000.000
213A237GLN0-0.068-0.04121.858-0.011-0.0110.0000.0000.0000.000
214A238VAL00.000-0.02122.8830.0090.0090.0000.0000.0000.000
215A239ILE00.0100.01517.656-0.004-0.0040.0000.0000.0000.000
216A240ASN00.0180.00321.7200.0010.0010.0000.0000.0000.000
217A241ILE0-0.021-0.01018.814-0.023-0.0230.0000.0000.0000.000
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