FMODB

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

Last updated: 2025-10-17

All entries: 77277

Number of unique PDB entries: 32023

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FMODB ID: 8G18Y

Calculation Name: 2HQ8-A-Xray547

Preferred Name:

Target Type:

Ligand Name: calcium ion

Ligand 3-letter code: CA

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 2HQ8

Chain ID: A

ChEMBL ID:

UniProt ID: C9V488

Base Structure: X-ray

Registration Date: 2025-10-04

Reference: Sci Data 11, 1164 (2024).

DOI: https://doi.org/10.1038/s41597-024-03999-2

Apendix: None


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptAll
Protonation MOE:Protonate 3D
Complement MOE:Homology Modeling
Water No
Procedure Manual calculation
Remarks
ac.sh, 23 2024 Oct; Missing atoms/residues were imported from a 100% homology model, which was constructed by MOE.
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 181
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -1958369.70535
FMO2-HF: Nuclear repulsion 1886812.0109
FMO2-HF: Total energy -71557.69445
FMO2-MP2: Total energy -71764.991749


3D Structure Molmil
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:4:ILE)


Summations of interaction energy for fragment #1(A:4:ILE)
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.
-196.484-187.36613.308-9.608-12.818-0.08
Interaction energy analysis for fragmet #1(A:4:ILE)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.818 / q_NPA : 0.898
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].
3A6GLU-1-0.862-0.9452.777-40.329-37.7840.477-1.282-1.740-0.007
4A7SER0-0.011-0.0044.9633.5733.679-0.001-0.004-0.1010.000
5A8GLU-1-0.787-0.8672.002-91.519-89.8219.430-6.339-4.789-0.059
6A9ARG10.8690.9252.60041.70843.5090.577-0.569-1.810-0.002
7A10ALA00.0260.0094.2184.2094.3140.005-0.031-0.0790.000
87A90LEU0-0.027-0.0172.287-3.908-3.3732.289-0.483-2.341-0.003
88A91LYS10.7910.9033.32116.74917.7680.088-0.490-0.616-0.004
168A171LEU0-0.091-0.0552.735-3.303-1.9940.443-0.410-1.342-0.005
8A11TYR0-0.015-0.0047.1883.1363.1360.0000.0000.0000.000
9A12HIS00.003-0.0035.5982.3772.3770.0000.0000.0000.000
10A13LEU00.0340.0107.5152.7092.7090.0000.0000.0000.000
11A14ARG10.8200.8859.68321.04621.0460.0000.0000.0000.000
12A15LYS10.8240.9468.89627.77727.7770.0000.0000.0000.000
13A16MET0-0.0310.00810.0112.2522.2520.0000.0000.0000.000
14A17LYS10.8840.91613.04019.08719.0870.0000.0000.0000.000
15A18THR00.0080.00815.3311.1031.1030.0000.0000.0000.000
16A19ARG10.9260.94413.07018.17018.1700.0000.0000.0000.000
17A20MET0-0.064-0.02215.3230.9810.9810.0000.0000.0000.000
18A21GLN00.009-0.00118.9550.9250.9250.0000.0000.0000.000
19A22ARG10.8280.92420.85512.52212.5220.0000.0000.0000.000
20A23VAL0-0.014-0.00320.7260.4270.4270.0000.0000.0000.000
21A24ASP-1-0.829-0.91623.040-10.602-10.6020.0000.0000.0000.000
22A25VAL0-0.062-0.01225.0220.1690.1690.0000.0000.0000.000
23A26THR0-0.096-0.07228.2600.4420.4420.0000.0000.0000.000
24A27GLY0-0.0120.00628.2440.3180.3180.0000.0000.0000.000
25A28ASP-1-0.888-0.95427.922-10.071-10.0710.0000.0000.0000.000
26A29GLY0-0.0070.00624.7320.0110.0110.0000.0000.0000.000
27A30PHE0-0.128-0.08423.681-0.515-0.5150.0000.0000.0000.000
28A31ILE00.0260.03220.626-0.105-0.1050.0000.0000.0000.000
29A32SER0-0.021-0.04824.094-0.075-0.0750.0000.0000.0000.000
30A33ARG10.8270.87326.9999.1219.1210.0000.0000.0000.000
31A34GLU-1-0.841-0.90529.267-9.142-9.1420.0000.0000.0000.000
32A35ASP-1-0.738-0.86026.724-10.411-10.4110.0000.0000.0000.000
33A36TYR00.010-0.00622.009-0.073-0.0730.0000.0000.0000.000
34A37GLU-1-0.872-0.91928.495-8.099-8.0990.0000.0000.0000.000
35A38LEU0-0.035-0.01731.1910.2550.2550.0000.0000.0000.000
36A39ILE00.0140.00625.7980.1320.1320.0000.0000.0000.000
37A40ALA00.0460.03530.1530.1510.1510.0000.0000.0000.000
38A41VAL0-0.029-0.02432.5560.2680.2680.0000.0000.0000.000
39A42ARG10.7990.90530.0719.7719.7710.0000.0000.0000.000
40A43ILE00.0750.03429.3320.1980.1980.0000.0000.0000.000
41A44ALA00.0050.00133.8000.1860.1860.0000.0000.0000.000
42A45LYS10.9080.95837.2887.9517.9510.0000.0000.0000.000
43A46ILE0-0.0310.00333.3710.2430.2430.0000.0000.0000.000
44A47ALA00.029-0.00235.8560.1540.1540.0000.0000.0000.000
45A48LYS10.7680.89137.8867.6057.6050.0000.0000.0000.000
46A49LEU00.0350.03636.2870.1500.1500.0000.0000.0000.000
47A50SER00.0280.01340.9650.0750.0750.0000.0000.0000.000
48A51ALA00.007-0.02042.121-0.129-0.1290.0000.0000.0000.000
49A52GLU-1-0.972-0.97542.373-6.765-6.7650.0000.0000.0000.000
50A53LYS10.9420.97337.1497.8937.8930.0000.0000.0000.000
51A54ALA0-0.050-0.01837.937-0.259-0.2590.0000.0000.0000.000
52A55GLU-1-0.791-0.84837.375-7.768-7.7680.0000.0000.0000.000
53A56GLU-1-0.924-0.96437.204-7.723-7.7230.0000.0000.0000.000
54A57THR00.0240.00032.697-0.265-0.2650.0000.0000.0000.000
55A58ARG10.7610.82532.8597.5157.5150.0000.0000.0000.000
56A59GLN0-0.058-0.04733.341-0.336-0.3360.0000.0000.0000.000
57A60GLU-1-0.884-0.91830.807-9.137-9.1370.0000.0000.0000.000
58A61PHE00.038-0.00226.701-0.368-0.3680.0000.0000.0000.000
59A62LEU0-0.027-0.01028.609-0.273-0.2730.0000.0000.0000.000
60A63ARG10.9400.98229.3578.8618.8610.0000.0000.0000.000
61A64VAL00.0330.01323.807-0.245-0.2450.0000.0000.0000.000
62A65ALA00.0060.00725.111-0.361-0.3610.0000.0000.0000.000
63A66ASP-1-0.864-0.91126.258-9.430-9.4300.0000.0000.0000.000
64A67GLN0-0.086-0.05324.424-0.091-0.0910.0000.0000.0000.000
65A68LEU0-0.049-0.01119.904-0.491-0.4910.0000.0000.0000.000
66A69GLY0-0.0090.00422.789-0.245-0.2450.0000.0000.0000.000
67A70LEU0-0.0220.00223.0370.1810.1810.0000.0000.0000.000
68A71ALA00.0290.01526.6350.3540.3540.0000.0000.0000.000
69A72PRO00.012-0.02030.194-0.083-0.0830.0000.0000.0000.000
70A73GLY0-0.0090.00732.2230.0920.0920.0000.0000.0000.000
71A74VAL0-0.079-0.02625.761-0.100-0.1000.0000.0000.0000.000
72A75ARG10.9120.96326.3939.7909.7900.0000.0000.0000.000
73A76ILE0-0.0090.00819.783-0.013-0.0130.0000.0000.0000.000
74A77SER00.0360.01720.848-0.112-0.1120.0000.0000.0000.000
75A78VAL00.042-0.00219.669-0.678-0.6780.0000.0000.0000.000
76A79GLU-1-0.896-0.92915.873-17.484-17.4840.0000.0000.0000.000
77A80GLU-1-0.926-0.96815.556-14.623-14.6230.0000.0000.0000.000
78A81ALA00.0230.01115.486-0.900-0.9000.0000.0000.0000.000
79A82ALA00.0080.00513.542-0.825-0.8250.0000.0000.0000.000
80A83VAL00.0090.00211.038-1.621-1.6210.0000.0000.0000.000
81A84ASN00.009-0.00110.641-2.153-2.1530.0000.0000.0000.000
82A85ALA0-0.026-0.00111.469-0.560-0.5600.0000.0000.0000.000
83A86THR00.005-0.0236.062-0.621-0.6210.0000.0000.0000.000
84A87ASP-1-0.864-0.9306.355-30.819-30.8190.0000.0000.0000.000
85A88SER0-0.034-0.0117.646-0.926-0.9260.0000.0000.0000.000
86A89LEU0-0.002-0.0157.690-0.282-0.2820.0000.0000.0000.000
89A92MET0-0.084-0.0016.1631.3671.3670.0000.0000.0000.000
90A93LYS10.9310.9556.66125.61425.6140.0000.0000.0000.000
91A94GLY00.018-0.0019.2060.7810.7810.0000.0000.0000.000
92A95GLU-1-0.884-0.94111.506-15.798-15.7980.0000.0000.0000.000
93A96GLU-1-0.802-0.90811.213-19.713-19.7130.0000.0000.0000.000
94A97LYS10.9160.9635.51232.49832.4980.0000.0000.0000.000
95A98ALA00.0100.01311.5910.6030.6030.0000.0000.0000.000
96A99MET0-0.013-0.00715.1400.9830.9830.0000.0000.0000.000
97A100ALA00.0120.00913.1390.6580.6580.0000.0000.0000.000
98A101VAL00.0110.00413.6530.4680.4680.0000.0000.0000.000
99A102ILE0-0.0060.01216.2150.6970.6970.0000.0000.0000.000
100A103GLN0-0.020-0.00718.4210.2080.2080.0000.0000.0000.000
101A104SER0-0.004-0.02817.5910.5470.5470.0000.0000.0000.000
102A105LEU0-0.016-0.00919.6560.3680.3680.0000.0000.0000.000
103A106ILE00.0210.02022.8620.4620.4620.0000.0000.0000.000
104A107MET00.013-0.00120.9830.3680.3680.0000.0000.0000.000
105A108TYR0-0.065-0.04523.9180.1050.1050.0000.0000.0000.000
106A109ASP-1-0.793-0.88725.444-10.021-10.0210.0000.0000.0000.000
107A110CYS0-0.081-0.03227.0820.3640.3640.0000.0000.0000.000
108A111ILE0-0.070-0.03124.9310.2030.2030.0000.0000.0000.000
109A112ASP-1-0.792-0.88329.124-8.825-8.8250.0000.0000.0000.000
110A113THR0-0.059-0.05731.4980.2400.2400.0000.0000.0000.000
111A114ASP-1-0.968-1.00734.466-7.905-7.9050.0000.0000.0000.000
112A115LYS10.7700.89132.4289.2059.2050.0000.0000.0000.000
113A116ASP-1-0.888-0.93334.925-8.508-8.5080.0000.0000.0000.000
114A117GLY0-0.026-0.00732.4910.0210.0210.0000.0000.0000.000
115A118TYR0-0.082-0.03430.774-0.402-0.4020.0000.0000.0000.000
116A119VAL00.0390.03827.2050.0610.0610.0000.0000.0000.000
117A120SER00.016-0.02930.176-0.065-0.0650.0000.0000.0000.000
118A121LEU00.0110.00231.644-0.167-0.1670.0000.0000.0000.000
119A122PRO0-0.030-0.04032.607-0.120-0.1200.0000.0000.0000.000
120A123GLU-1-0.696-0.77931.572-8.962-8.9620.0000.0000.0000.000
121A124PHE00.0440.01923.482-0.104-0.1040.0000.0000.0000.000
122A125LYS10.8070.89528.7878.5218.5210.0000.0000.0000.000
123A126ALA0-0.026-0.02031.029-0.037-0.0370.0000.0000.0000.000
124A127PHE00.0180.00022.7880.0310.0310.0000.0000.0000.000
125A128LEU00.0250.01424.222-0.075-0.0750.0000.0000.0000.000
126A129GLN0-0.043-0.02527.3440.1250.1250.0000.0000.0000.000
127A130ALA0-0.050-0.01829.4840.2520.2520.0000.0000.0000.000
128A131VAL0-0.007-0.00824.1440.0990.0990.0000.0000.0000.000
129A132GLY00.0350.01125.873-0.283-0.2830.0000.0000.0000.000
130A133PRO0-0.082-0.02827.1240.1540.1540.0000.0000.0000.000
131A134ASP-1-0.893-0.93626.638-10.629-10.6290.0000.0000.0000.000
132A135LEU00.0280.03125.3310.0900.0900.0000.0000.0000.000
133A136THR00.017-0.00528.7910.2480.2480.0000.0000.0000.000
134A137ASP-1-0.795-0.89730.810-8.805-8.8050.0000.0000.0000.000
135A138ASP-1-0.851-0.91531.649-9.828-9.8280.0000.0000.0000.000
136A139LYS10.8560.92726.14410.19010.1900.0000.0000.0000.000
137A140ALA00.0840.04527.230-0.392-0.3920.0000.0000.0000.000
138A141ILE0-0.008-0.00728.533-0.156-0.1560.0000.0000.0000.000
139A142THR0-0.054-0.03225.661-0.092-0.0920.0000.0000.0000.000
140A143CYS0-0.0100.01124.287-0.462-0.4620.0000.0000.0000.000
141A144PHE00.0180.01024.972-0.316-0.3160.0000.0000.0000.000
142A145ASN0-0.010-0.01927.208-0.030-0.0300.0000.0000.0000.000
143A146THR0-0.095-0.05521.586-0.136-0.1360.0000.0000.0000.000
144A147LEU0-0.0020.00021.417-0.552-0.5520.0000.0000.0000.000
145A148ASP-1-0.779-0.86424.104-10.193-10.1930.0000.0000.0000.000
146A149PHE0-0.041-0.02419.722-0.067-0.0670.0000.0000.0000.000
147A150ASN0-0.061-0.04625.9700.3390.3390.0000.0000.0000.000
148A151LYS10.7740.89926.87011.47511.4750.0000.0000.0000.000
149A152ASN0-0.008-0.00431.5290.3280.3280.0000.0000.0000.000
150A153GLY0-0.014-0.00532.7270.3160.3160.0000.0000.0000.000
151A154GLN0-0.096-0.06132.0410.1470.1470.0000.0000.0000.000
152A155ILE00.0010.02525.269-0.163-0.1630.0000.0000.0000.000
153A156SER00.007-0.02427.3750.1860.1860.0000.0000.0000.000
154A157ARG10.8300.88224.63110.07910.0790.0000.0000.0000.000
155A158ASP-1-0.873-0.91923.007-12.065-12.0650.0000.0000.0000.000
156A159GLU-1-0.768-0.88321.820-12.043-12.0430.0000.0000.0000.000
157A160PHE00.0460.02920.937-0.786-0.7860.0000.0000.0000.000
158A161LEU0-0.0180.00217.770-0.800-0.8000.0000.0000.0000.000
159A162VAL0-0.027-0.02717.202-1.112-1.1120.0000.0000.0000.000
160A163THR00.009-0.00616.179-1.191-1.1910.0000.0000.0000.000
161A164VAL00.0080.01215.208-1.141-1.1410.0000.0000.0000.000
162A165ASN0-0.047-0.02412.072-1.566-1.5660.0000.0000.0000.000
163A166ASP-1-0.821-0.89311.461-24.504-24.5040.0000.0000.0000.000
164A167PHE00.0420.01211.301-2.092-2.0920.0000.0000.0000.000
165A168LEU0-0.015-0.00310.660-1.337-1.3370.0000.0000.0000.000
166A169PHE0-0.044-0.0386.865-2.043-2.0430.0000.0000.0000.000
167A170GLY00.0390.0456.779-3.648-3.6480.0000.0000.0000.000
169A172GLU-1-0.914-0.9576.366-31.829-31.8290.0000.0000.0000.000
170A173GLU-1-0.836-0.9179.387-18.979-18.9790.0000.0000.0000.000
171A174THR0-0.044-0.03712.6921.0761.0760.0000.0000.0000.000
172A175ALA00.0360.01115.2440.4340.4340.0000.0000.0000.000
173A176LEU00.0020.00816.4550.5050.5050.0000.0000.0000.000
174A177ALA0-0.004-0.00913.4140.4830.4830.0000.0000.0000.000
175A178ASN0-0.029-0.01915.4160.8120.8120.0000.0000.0000.000
176A179ALA00.0270.01918.0670.6200.6200.0000.0000.0000.000
177A180PHE0-0.043-0.02117.4940.5430.5430.0000.0000.0000.000
178A181TYR0-0.002-0.01517.0880.0180.0180.0000.0000.0000.000
179A182GLY0-0.029-0.02420.4620.4540.4540.0000.0000.0000.000
180A183ASP-1-0.959-0.97719.998-12.444-12.4440.0000.0000.0000.000
181A184LEU-1-0.937-0.94213.480-16.243-16.2430.0000.0000.0000.000