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

tag_button

FMODB ID: 8N96Y

Calculation Name: 2HXI-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2HXI

Chain ID: A

ChEMBL ID:

UniProt ID: O87854

Base Structure: X-ray

Registration Date: 2023-09-27

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 197
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -1930678.658852
FMO2-HF: Nuclear repulsion 1856229.589458
FMO2-HF: Total energy -74449.069393
FMO2-MP2: Total energy -74669.769626


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:6:ARG)


Summations of interaction energy for fragment #1(A:6:ARG)
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.
-19.135-24.46510.855-1.309-4.216-0.04
Interaction energy analysis for fragmet #1(A:6:ARG)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.939 / q_NPA : 0.972
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].
3A8SER00.0110.0101.906-2.215-8.03310.842-1.209-3.815-0.040
4A9THR00.032-0.0214.1650.7080.7400.000-0.022-0.0110.000
5A10GLU-1-0.944-0.9626.821-20.257-20.2570.0000.0000.0000.000
6A11GLN00.0830.0364.571-3.058-2.910-0.001-0.006-0.1400.000
7A12ILE0-0.035-0.0064.6341.2821.320-0.001-0.003-0.0340.000
8A13LEU0-0.021-0.0238.3921.5961.5960.0000.0000.0000.000
9A14ASP-1-0.792-0.86611.238-16.966-16.9660.0000.0000.0000.000
10A15ALA00.0510.02810.9510.9040.9040.0000.0000.0000.000
11A16ALA0-0.078-0.05312.5371.0101.0100.0000.0000.0000.000
12A17ALA0-0.0030.00014.4190.9340.9340.0000.0000.0000.000
13A18GLU-1-0.923-0.96514.487-17.180-17.1800.0000.0000.0000.000
14A19LEU0-0.078-0.04015.3810.5740.5740.0000.0000.0000.000
15A20LEU0-0.076-0.03818.2420.6060.6060.0000.0000.0000.000
16A21LEU0-0.016-0.00620.2400.6070.6070.0000.0000.0000.000
17A22ALA0-0.0020.00022.622-0.052-0.0520.0000.0000.0000.000
18A23GLY0-0.0210.01526.0000.1340.1340.0000.0000.0000.000
19A24ASP-1-0.923-0.97825.692-11.162-11.1620.0000.0000.0000.000
20A25ALA0-0.005-0.00223.3620.2760.2760.0000.0000.0000.000
21A26GLU-1-0.777-0.87023.688-11.666-11.6660.0000.0000.0000.000
22A27THR0-0.038-0.00123.406-0.230-0.2300.0000.0000.0000.000
23A28PHE00.0410.01514.841-0.423-0.4230.0000.0000.0000.000
24A29SER0-0.011-0.02118.6670.1520.1520.0000.0000.0000.000
25A30VAL00.0320.01812.991-0.564-0.5640.0000.0000.0000.000
26A31ARG10.9180.94714.11114.67414.6740.0000.0000.0000.000
27A32LYS10.8080.90215.84812.00912.0090.0000.0000.0000.000
28A33LEU00.0420.02911.232-0.467-0.4670.0000.0000.0000.000
29A34ALA0-0.035-0.03010.855-1.297-1.2970.0000.0000.0000.000
30A35ALA00.0120.00611.710-1.542-1.5420.0000.0000.0000.000
31A36SER00.0150.01013.377-0.222-0.2220.0000.0000.0000.000
32A37LEU0-0.0300.0027.769-0.642-0.6420.0000.0000.0000.000
33A38GLY00.0040.0208.259-3.623-3.6230.0000.0000.0000.000
34A39THR0-0.025-0.0197.510-1.293-1.2930.0000.0000.0000.000
35A40ASP-1-0.722-0.8359.704-18.483-18.4830.0000.0000.0000.000
36A41SER00.0250.00210.610-0.575-0.5750.0000.0000.0000.000
37A42SER0-0.073-0.06412.3950.6740.6740.0000.0000.0000.000
38A43SER0-0.034-0.0357.348-0.054-0.0540.0000.0000.0000.000
39A44LEU00.0180.0267.170-0.801-0.8010.0000.0000.0000.000
40A45TYR0-0.018-0.0319.1920.9170.9170.0000.0000.0000.000
41A46ARG10.9020.9459.66822.37122.3710.0000.0000.0000.000
42A47HIS0-0.0020.0323.0792.6202.8900.015-0.069-0.2160.000
43A48PHE00.0570.0337.8550.4980.4980.0000.0000.0000.000
44A49ARG10.8260.89311.02416.49416.4940.0000.0000.0000.000
45A50ASN00.005-0.00313.4010.6820.6820.0000.0000.0000.000
46A51LYS10.9990.99814.61712.75512.7550.0000.0000.0000.000
47A52THR00.0030.00616.185-0.134-0.1340.0000.0000.0000.000
48A53GLU-1-0.787-0.86615.198-13.382-13.3820.0000.0000.0000.000
49A54LEU0-0.0110.00910.947-0.006-0.0060.0000.0000.0000.000
50A55LEU0-0.016-0.01514.0240.0710.0710.0000.0000.0000.000
51A56ARG10.8280.90817.38212.20812.2080.0000.0000.0000.000
52A57ALA00.0310.01614.0560.3150.3150.0000.0000.0000.000
53A58VAL00.000-0.01014.207-0.053-0.0530.0000.0000.0000.000
54A59ALA00.0290.01116.4680.3250.3250.0000.0000.0000.000
55A60ASP-1-0.797-0.85918.050-12.006-12.0060.0000.0000.0000.000
56A61ARG10.8230.89313.88016.53016.5300.0000.0000.0000.000
57A62ILE00.0290.03018.9450.2170.2170.0000.0000.0000.000
58A63LEU0-0.011-0.00522.3270.3740.3740.0000.0000.0000.000
59A64LEU0-0.028-0.02419.4040.2860.2860.0000.0000.0000.000
60A65SER0-0.005-0.00122.6280.1760.1760.0000.0000.0000.000
61A66ALA0-0.0120.01024.2190.3100.3100.0000.0000.0000.000
62A67MET0-0.058-0.02026.2380.4710.4710.0000.0000.0000.000
63A68ASP-1-0.852-0.91524.983-10.672-10.6720.0000.0000.0000.000
64A69GLY0-0.009-0.00626.9780.3380.3380.0000.0000.0000.000
65A70TYR0-0.097-0.06629.9610.3360.3360.0000.0000.0000.000
66A71ARG10.9200.94732.1448.2978.2970.0000.0000.0000.000
67A72PRO0-0.0300.00935.3640.0700.0700.0000.0000.0000.000
68A73GLU-1-0.964-0.98437.825-6.890-6.8900.0000.0000.0000.000
69A74GLY00.0230.00641.293-0.023-0.0230.0000.0000.0000.000
70A75ASP-1-0.809-0.89943.973-6.457-6.4570.0000.0000.0000.000
71A76TRP00.016-0.00142.031-0.253-0.2530.0000.0000.0000.000
72A77LYS10.8280.88341.3635.9855.9850.0000.0000.0000.000
73A78GLN00.0300.02741.792-0.039-0.0390.0000.0000.0000.000
74A79ARG10.8280.89537.0497.2897.2890.0000.0000.0000.000
75A80LEU0-0.007-0.00237.019-0.223-0.2230.0000.0000.0000.000
76A81THR0-0.003-0.01837.104-0.146-0.1460.0000.0000.0000.000
77A82ALA00.0200.01536.847-0.131-0.1310.0000.0000.0000.000
78A83VAL0-0.007-0.00731.682-0.253-0.2530.0000.0000.0000.000
79A84ALA0-0.019-0.00732.682-0.256-0.2560.0000.0000.0000.000
80A85LEU00.0140.00433.831-0.197-0.1970.0000.0000.0000.000
81A86ARG10.8300.90329.6508.9928.9920.0000.0000.0000.000
82A87LEU0-0.032-0.01127.903-0.345-0.3450.0000.0000.0000.000
83A88ARG10.7950.86729.4497.8247.8240.0000.0000.0000.000
84A89GLU-1-0.904-0.95231.077-8.720-8.7200.0000.0000.0000.000
85A90SER0-0.030-0.03026.042-0.254-0.2540.0000.0000.0000.000
86A91PHE0-0.029-0.02823.837-0.490-0.4900.0000.0000.0000.000
87A92GLY00.0040.02727.516-0.022-0.0220.0000.0000.0000.000
88A93GLN00.0050.00126.873-0.061-0.0610.0000.0000.0000.000
89A94GLN00.0130.00023.150-0.455-0.4550.0000.0000.0000.000
90A95PRO00.0740.03825.542-0.143-0.1430.0000.0000.0000.000
91A96GLN0-0.055-0.03021.525-0.369-0.3690.0000.0000.0000.000
92A97LEU00.008-0.00319.177-0.056-0.0560.0000.0000.0000.000
93A98ALA00.0500.04323.1840.0080.0080.0000.0000.0000.000
94A99ALA00.0330.01526.6730.1510.1510.0000.0000.0000.000
95A100VAL0-0.100-0.05220.7520.0720.0720.0000.0000.0000.000
96A101TRP00.0350.01324.2540.0010.0010.0000.0000.0000.000
97A102GLY00.0670.02625.2710.1280.1280.0000.0000.0000.000
98A103ARG10.8690.95126.6959.9289.9280.0000.0000.0000.000
99A104HIS0-0.039-0.02523.5630.1550.1550.0000.0000.0000.000
100A105GLY00.0530.04824.668-0.120-0.1200.0000.0000.0000.000
101A106SER0-0.014-0.04120.634-0.076-0.0760.0000.0000.0000.000
102A107GLY0-0.0120.00019.738-0.502-0.5020.0000.0000.0000.000
103A108GLY0-0.0030.00418.918-0.122-0.1220.0000.0000.0000.000
104A109THR00.022-0.01319.5030.5040.5040.0000.0000.0000.000
105A110GLY00.0520.03021.0150.4410.4410.0000.0000.0000.000
106A111SER0-0.014-0.04422.6160.5540.5540.0000.0000.0000.000
107A112ARG10.8690.93119.69712.34812.3480.0000.0000.0000.000
108A113LEU00.0160.01524.4270.3300.3300.0000.0000.0000.000
109A114MET00.0000.01827.1130.4300.4300.0000.0000.0000.000
110A115MET0-0.036-0.03627.8060.1700.1700.0000.0000.0000.000
111A116GLU-1-0.843-0.90429.860-8.148-8.1480.0000.0000.0000.000
112A117GLU-1-0.711-0.80131.614-7.624-7.6240.0000.0000.0000.000
113A118VAL0-0.007-0.00933.0740.2800.2800.0000.0000.0000.000
114A119LEU0-0.003-0.00532.8280.2530.2530.0000.0000.0000.000
115A120GLN0-0.043-0.03635.5820.4450.4450.0000.0000.0000.000
116A121ALA0-0.068-0.02137.4680.2140.2140.0000.0000.0000.000
117A122LEU00.006-0.00737.4550.1800.1800.0000.0000.0000.000
118A123ARG10.8360.89638.7797.3737.3730.0000.0000.0000.000
119A124ALA0-0.050-0.01941.7320.1630.1630.0000.0000.0000.000
120A125SER0-0.046-0.04043.5050.1520.1520.0000.0000.0000.000
121A126GLY00.0000.00245.4370.1360.1360.0000.0000.0000.000
122A127LEU0-0.046-0.02044.4630.0900.0900.0000.0000.0000.000
123A128PRO00.0120.01545.489-0.083-0.0830.0000.0000.0000.000
124A129ASP-1-0.792-0.87541.643-7.105-7.1050.0000.0000.0000.000
125A130ASP-1-0.931-0.96941.597-6.450-6.4500.0000.0000.0000.000
126A131GLU-1-0.785-0.87842.515-6.264-6.2640.0000.0000.0000.000
127A132ILE0-0.0210.01238.542-0.158-0.1580.0000.0000.0000.000
128A133PRO00.0210.00336.812-0.158-0.1580.0000.0000.0000.000
129A134ALA0-0.019-0.01037.298-0.155-0.1550.0000.0000.0000.000
130A135ARG10.8120.87839.6776.2246.2240.0000.0000.0000.000
131A136TYR00.0410.01430.250-0.110-0.1100.0000.0000.0000.000
132A137HIS0-0.0100.00934.1450.0400.0400.0000.0000.0000.000
133A138ARG10.9040.93435.8086.9376.9370.0000.0000.0000.000
134A139LEU00.0270.03336.638-0.010-0.0100.0000.0000.0000.000
135A140VAL00.0460.01530.743-0.067-0.0670.0000.0000.0000.000
136A141ILE00.0000.02433.326-0.149-0.1490.0000.0000.0000.000
137A142LEU0-0.0020.02134.779-0.068-0.0680.0000.0000.0000.000
138A143ILE00.0280.01233.022-0.044-0.0440.0000.0000.0000.000
139A144SER00.000-0.02530.350-0.082-0.0820.0000.0000.0000.000
140A145SER0-0.051-0.02932.130-0.161-0.1610.0000.0000.0000.000
141A146LEU0-0.024-0.00934.485-0.011-0.0110.0000.0000.0000.000
142A147ILE00.0310.02330.3560.0010.0010.0000.0000.0000.000
143A148THR0-0.071-0.05129.961-0.211-0.2110.0000.0000.0000.000
144A149ALA0-0.023-0.00231.714-0.037-0.0370.0000.0000.0000.000
145A150GLU-1-0.882-0.90634.281-7.619-7.6190.0000.0000.0000.000
146A151GLY00.0540.03631.2020.0120.0120.0000.0000.0000.000
147A152GLY0-0.081-0.05231.591-0.132-0.1320.0000.0000.0000.000
148A168PHE00.0590.01646.847-0.024-0.0240.0000.0000.0000.000
149A169ARG10.9420.98347.2506.3536.3530.0000.0000.0000.000
150A170VAL00.0270.01651.1360.0720.0720.0000.0000.0000.000
151A171ALA0-0.0100.00249.691-0.110-0.1100.0000.0000.0000.000
152A172VAL00.0150.00450.694-0.040-0.0400.0000.0000.0000.000
153A173LEU0-0.024-0.00553.8290.0420.0420.0000.0000.0000.000
154A174GLY00.0210.01056.4790.0890.0890.0000.0000.0000.000
155A175ALA0-0.009-0.02358.102-0.081-0.0810.0000.0000.0000.000
156A176ASP-1-0.827-0.90760.469-4.604-4.6040.0000.0000.0000.000
157A177PRO00.0020.00263.827-0.043-0.0430.0000.0000.0000.000
158A178GLU-1-0.881-0.94366.098-4.342-4.3420.0000.0000.0000.000
159A179ARG10.8710.94560.2754.9394.9390.0000.0000.0000.000
160A180PHE0-0.058-0.03959.053-0.070-0.0700.0000.0000.0000.000
161A181PRO00.0650.04562.265-0.061-0.0610.0000.0000.0000.000
162A182ALA0-0.001-0.00761.355-0.011-0.0110.0000.0000.0000.000
163A183LEU0-0.002-0.00655.766-0.046-0.0460.0000.0000.0000.000
164A184SER0-0.057-0.04759.512-0.031-0.0310.0000.0000.0000.000
165A185HIS0-0.0080.01361.8840.0630.0630.0000.0000.0000.000
166A186PHE00.0010.00457.658-0.025-0.0250.0000.0000.0000.000
167A187ALA0-0.0080.00756.630-0.103-0.1030.0000.0000.0000.000
168A188ARG10.7760.87354.5965.3355.3350.0000.0000.0000.000
169A189GLU-1-0.857-0.93755.981-5.165-5.1650.0000.0000.0000.000
170A190ILE0-0.023-0.00351.523-0.114-0.1140.0000.0000.0000.000
171A191ARG10.8640.88847.8326.0856.0850.0000.0000.0000.000
172A192PRO0-0.029-0.02345.861-0.022-0.0220.0000.0000.0000.000
173A193LEU00.0380.01941.949-0.051-0.0510.0000.0000.0000.000
174A194GLY00.0110.00441.253-0.114-0.1140.0000.0000.0000.000
175A195ALA0-0.047-0.01941.550-0.117-0.1170.0000.0000.0000.000
176A196ASP-1-0.778-0.87243.640-6.376-6.3760.0000.0000.0000.000
177A197ARG10.8580.93637.5157.4697.4690.0000.0000.0000.000
178A198GLY00.0600.03839.380-0.033-0.0330.0000.0000.0000.000
179A199ALA00.0390.02640.319-0.007-0.0070.0000.0000.0000.000
180A200ALA00.0530.02542.7640.0230.0230.0000.0000.0000.000
181A201PHE0-0.056-0.02635.483-0.011-0.0110.0000.0000.0000.000
182A202GLU-1-0.892-0.95340.490-7.006-7.0060.0000.0000.0000.000
183A203GLU-1-0.940-0.96842.235-6.135-6.1350.0000.0000.0000.000
184A204ILE0-0.038-0.02442.3510.0910.0910.0000.0000.0000.000
185A205LEU0-0.0080.00338.5260.0250.0250.0000.0000.0000.000
186A206ALA00.0300.01142.1360.0460.0460.0000.0000.0000.000
187A207ALA00.0070.00645.2720.1020.1020.0000.0000.0000.000
188A208HIS0-0.012-0.00840.7540.1610.1610.0000.0000.0000.000
189A209LEU0-0.017-0.02140.8510.0280.0280.0000.0000.0000.000
190A210ALA00.0220.01544.7770.0720.0720.0000.0000.0000.000
191A211HIS0-0.041-0.02844.2130.1300.1300.0000.0000.0000.000
192A212LEU0-0.065-0.02541.8700.0410.0410.0000.0000.0000.000
193A213GLU-1-0.793-0.89346.584-5.952-5.9520.0000.0000.0000.000
194A214ALA0-0.054-0.02249.1330.0900.0900.0000.0000.0000.000
195A215ALA0-0.053-0.02649.0200.0910.0910.0000.0000.0000.000
196A216ALA00.0190.02348.762-0.041-0.0410.0000.0000.0000.000
197A217PRO0-0.061-0.02049.7490.1160.1160.0000.0000.0000.000