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: N6GKQ

Calculation Name: 1H6F-A-Xray549

Preferred Name:

Target Type:

Ligand Name: magnesium ion

Ligand 3-letter code: MG

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1H6F

Chain ID: A

ChEMBL ID:

UniProt ID: O15119

Base Structure: X-ray

Registration Date: 2025-10-11

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 OptH
Protonation MOE:Protonate 3D
Complement ac.sh, 23 2024 Oct
Water No
Procedure Manual calculation
Remarks
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 184
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2115637.46738
FMO2-HF: Nuclear repulsion 2039173.179702
FMO2-HF: Total energy -76464.287678
FMO2-MP2: Total energy -76684.870871


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:102:ASP)


Summations of interaction energy for fragment #1(A:102: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.
5.7718.7490.338-1.293-2.0240.003
Interaction energy analysis for fragmet #1(A:102:ASP)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.033 / 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].
3A104LYS10.9400.9682.66511.70914.1950.335-1.006-1.8160.004
41A142GLY00.0460.0114.564-0.788-0.790-0.001-0.0190.0220.000
42A143LEU0-0.020-0.0163.523-7.173-6.8630.004-0.233-0.081-0.001
148A249ARG10.9350.9773.781-3.746-3.5620.000-0.035-0.1490.000
4A105VAL0-0.0070.0015.943-0.471-0.4710.0000.0000.0000.000
5A106HIS0-0.022-0.0099.6370.4950.4950.0000.0000.0000.000
6A107LEU00.0250.01612.501-0.020-0.0200.0000.0000.0000.000
7A108GLU-1-0.883-0.95615.880-1.424-1.4240.0000.0000.0000.000
8A109ALA00.004-0.01218.8660.1130.1130.0000.0000.0000.000
9A110LYS10.8590.90917.1500.1420.1420.0000.0000.0000.000
10A111GLU-1-0.844-0.92220.440-0.451-0.4510.0000.0000.0000.000
11A112LEU0-0.045-0.01823.6230.0610.0610.0000.0000.0000.000
12A113TRP00.001-0.01121.2040.0880.0880.0000.0000.0000.000
13A114ASP-1-0.801-0.89121.5100.0110.0110.0000.0000.0000.000
14A115GLN0-0.0250.00624.1800.0720.0720.0000.0000.0000.000
15A116PHE00.009-0.01226.7960.0260.0260.0000.0000.0000.000
16A117HIS00.0510.03122.742-0.016-0.0160.0000.0000.0000.000
17A118LYS10.9420.97626.3110.0010.0010.0000.0000.0000.000
18A119ARG10.7830.87728.4820.0620.0620.0000.0000.0000.000
19A120GLY00.0210.02329.1920.0060.0060.0000.0000.0000.000
20A121THR00.005-0.00325.877-0.031-0.0310.0000.0000.0000.000
21A122GLU-1-0.687-0.82328.9840.0560.0560.0000.0000.0000.000
22A123MET0-0.076-0.02326.569-0.052-0.0520.0000.0000.0000.000
23A124VAL00.0250.03031.5680.0170.0170.0000.0000.0000.000
24A125ILE0-0.037-0.01532.498-0.027-0.0270.0000.0000.0000.000
25A126THR00.022-0.00735.0860.0000.0000.0000.0000.0000.000
26A127LYS11.0401.04437.2120.0700.0700.0000.0000.0000.000
27A128SER0-0.025-0.02139.1200.0000.0000.0000.0000.0000.000
28A129GLY00.0240.01834.967-0.023-0.0230.0000.0000.0000.000
29A130ARG10.9350.97133.4080.1140.1140.0000.0000.0000.000
30A131ARG10.9770.98130.1700.3640.3640.0000.0000.0000.000
31A132MET00.0140.01723.2170.0180.0180.0000.0000.0000.000
32A133PHE0-0.018-0.00128.422-0.046-0.0460.0000.0000.0000.000
33A134PRO00.1130.05324.6100.0430.0430.0000.0000.0000.000
34A135PRO0-0.046-0.01525.0340.0230.0230.0000.0000.0000.000
35A136PHE00.0530.01916.332-0.053-0.0530.0000.0000.0000.000
36A137LYS10.9400.98519.8350.6650.6650.0000.0000.0000.000
37A138VAL00.0600.04014.1940.0430.0430.0000.0000.0000.000
38A139ARG10.9751.00014.0512.2302.2300.0000.0000.0000.000
39A140CYS00.0060.0179.9590.0440.0440.0000.0000.0000.000
40A141SER00.004-0.0088.099-0.011-0.0110.0000.0000.0000.000
43A144ASP-1-0.792-0.8775.446-8.146-8.1460.0000.0000.0000.000
44A145LYS10.9620.9717.3815.5445.5440.0000.0000.0000.000
45A146LYS10.9120.92010.6242.8042.8040.0000.0000.0000.000
46A147ALA0-0.0180.0149.9910.5070.5070.0000.0000.0000.000
47A148LYS10.9010.94412.0071.4551.4550.0000.0000.0000.000
48A149TYR00.0110.0016.921-0.416-0.4160.0000.0000.0000.000
49A150ILE00.0270.02413.5790.0550.0550.0000.0000.0000.000
50A151LEU0-0.0080.00512.014-0.050-0.0500.0000.0000.0000.000
51A152LEU0-0.036-0.02515.3810.1370.1370.0000.0000.0000.000
52A153MET0-0.0280.00116.650-0.080-0.0800.0000.0000.0000.000
53A154ASP-1-0.745-0.83519.2130.1910.1910.0000.0000.0000.000
54A155ILE0-0.026-0.01120.943-0.023-0.0230.0000.0000.0000.000
55A156ILE00.0150.01420.648-0.001-0.0010.0000.0000.0000.000
56A157ALA00.0520.01924.036-0.028-0.0280.0000.0000.0000.000
57A158ALA0-0.038-0.02523.6910.0480.0480.0000.0000.0000.000
58A159ASP-1-0.780-0.86124.7170.4330.4330.0000.0000.0000.000
59A160ASP-1-0.815-0.90727.4970.3930.3930.0000.0000.0000.000
60A161CYS0-0.031-0.01830.755-0.019-0.0190.0000.0000.0000.000
61A162ARG10.9601.00432.830-0.195-0.1950.0000.0000.0000.000
62A163TYR0-0.087-0.08729.7930.0020.0020.0000.0000.0000.000
63A164LYS10.9250.95936.000-0.186-0.1860.0000.0000.0000.000
64A165PHE00.0490.02836.6440.0140.0140.0000.0000.0000.000
65A166HIS0-0.002-0.01639.0490.0010.0010.0000.0000.0000.000
66A167ASN00.006-0.00440.7610.0040.0040.0000.0000.0000.000
67A168SER00.0090.00340.3280.0060.0060.0000.0000.0000.000
68A169ARG10.9430.98136.604-0.173-0.1730.0000.0000.0000.000
69A170TRP00.004-0.00633.3450.0040.0040.0000.0000.0000.000
70A171MET0-0.022-0.01134.7210.0280.0280.0000.0000.0000.000
71A172VAL00.0410.02333.355-0.016-0.0160.0000.0000.0000.000
72A173ALA0-0.073-0.04935.936-0.009-0.0090.0000.0000.0000.000
73A174GLY00.0080.00537.488-0.009-0.0090.0000.0000.0000.000
74A175LYS10.8370.92433.357-0.314-0.3140.0000.0000.0000.000
75A176ALA0-0.080-0.03433.181-0.021-0.0210.0000.0000.0000.000
76A177ASP-1-0.849-0.93635.2430.1670.1670.0000.0000.0000.000
77A178PRO0-0.021-0.02435.0300.0180.0180.0000.0000.0000.000
78A179GLU-1-0.748-0.82130.3240.1650.1650.0000.0000.0000.000
79A180MET0-0.0110.00332.5010.0100.0100.0000.0000.0000.000
80A181PRO00.0210.00229.4480.0120.0120.0000.0000.0000.000
81A182LYS10.7980.90525.738-0.183-0.1830.0000.0000.0000.000
82A183ARG10.8190.90626.1700.2270.2270.0000.0000.0000.000
83A184MET00.0430.03819.469-0.053-0.0530.0000.0000.0000.000
84A185TYR0-0.060-0.05022.319-0.040-0.0400.0000.0000.0000.000
85A186ILE00.0520.02020.223-0.050-0.0500.0000.0000.0000.000
86A187HIS0-0.016-0.00418.784-0.015-0.0150.0000.0000.0000.000
87A188PRO0-0.019-0.02120.680-0.026-0.0260.0000.0000.0000.000
88A189ASP-1-0.837-0.89919.938-1.165-1.1650.0000.0000.0000.000
89A190SER0-0.089-0.03418.689-0.172-0.1720.0000.0000.0000.000
90A191PRO0-0.0150.00617.8380.1070.1070.0000.0000.0000.000
91A192ALA00.0640.02116.3480.0290.0290.0000.0000.0000.000
92A193THR0-0.030-0.04214.119-0.120-0.1200.0000.0000.0000.000
93A194GLY00.0440.02010.242-0.013-0.0130.0000.0000.0000.000
94A195GLU-1-0.850-0.91111.094-2.931-2.9310.0000.0000.0000.000
95A196GLN00.0570.03713.4530.0580.0580.0000.0000.0000.000
96A197TRP0-0.018-0.01212.3650.2170.2170.0000.0000.0000.000
97A198MET0-0.074-0.0178.964-0.566-0.5660.0000.0000.0000.000
98A199SER0-0.097-0.03612.8290.2650.2650.0000.0000.0000.000
99A200LYS10.8840.94216.1941.8171.8170.0000.0000.0000.000
100A201VAL0-0.0040.00616.655-0.183-0.1830.0000.0000.0000.000
101A202VAL0-0.024-0.00315.2590.1240.1240.0000.0000.0000.000
102A203THR0-0.032-0.04818.2180.1220.1220.0000.0000.0000.000
103A204PHE00.0510.01717.731-0.016-0.0160.0000.0000.0000.000
104A205HIS00.0210.00423.3820.1240.1240.0000.0000.0000.000
105A206LYS10.9330.96326.6420.4720.4720.0000.0000.0000.000
106A207LEU0-0.0020.01324.0420.0430.0430.0000.0000.0000.000
107A208LYS10.8230.92627.5010.2110.2110.0000.0000.0000.000
108A209LEU00.0390.02927.4750.0180.0180.0000.0000.0000.000
109A210THR0-0.045-0.05231.380-0.006-0.0060.0000.0000.0000.000
110A211ASN00.0940.05134.2100.0020.0020.0000.0000.0000.000
111A212ASN0-0.013-0.00936.9470.0240.0240.0000.0000.0000.000
112A213ILE00.0790.02536.719-0.013-0.0130.0000.0000.0000.000
113A214SER00.0210.01937.9310.0070.0070.0000.0000.0000.000
114A215ASP-1-0.827-0.90835.213-0.119-0.1190.0000.0000.0000.000
115A216LYS10.9320.96636.7470.0610.0610.0000.0000.0000.000
116A217HIS10.8250.89735.0450.1220.1220.0000.0000.0000.000
117A218GLY00.0280.03431.741-0.026-0.0260.0000.0000.0000.000
118A219PHE0-0.028-0.01830.290-0.031-0.0310.0000.0000.0000.000
119A220THR00.0490.01926.8080.0060.0060.0000.0000.0000.000
120A221ILE0-0.0040.01229.640-0.005-0.0050.0000.0000.0000.000
121A222LEU0-0.045-0.01628.0570.0210.0210.0000.0000.0000.000
122A223ASN00.0310.00532.093-0.038-0.0380.0000.0000.0000.000
123A224SER0-0.014-0.02533.870-0.004-0.0040.0000.0000.0000.000
124A225MET0-0.0080.00735.6460.0090.0090.0000.0000.0000.000
125A226HIS00.0420.02631.8970.0400.0400.0000.0000.0000.000
126A227LYS10.8630.93926.442-0.375-0.3750.0000.0000.0000.000
127A228TYR0-0.048-0.05225.9210.0160.0160.0000.0000.0000.000
128A229GLN00.025-0.00719.2070.0410.0410.0000.0000.0000.000
129A230PRO0-0.059-0.02619.9810.0020.0020.0000.0000.0000.000
130A231ARG10.8580.90116.666-0.348-0.3480.0000.0000.0000.000
131A232PHE00.0070.00111.683-0.146-0.1460.0000.0000.0000.000
132A233HIS00.0010.00013.0260.2740.2740.0000.0000.0000.000
133A234ILE0-0.0140.0018.110-0.403-0.4030.0000.0000.0000.000
134A235VAL00.0630.03210.8930.3590.3590.0000.0000.0000.000
135A236ARG10.8390.8977.3403.0683.0680.0000.0000.0000.000
136A237ALA00.0290.01811.8490.2620.2620.0000.0000.0000.000
137A238ASN0-0.005-0.02215.647-0.080-0.0800.0000.0000.0000.000
138A239ASP-1-0.757-0.89018.511-0.369-0.3690.0000.0000.0000.000
139A240ILE00.0110.00520.5750.0300.0300.0000.0000.0000.000
140A241LEU00.0230.00722.2730.0700.0700.0000.0000.0000.000
141A242LYS10.9170.95319.5790.5150.5150.0000.0000.0000.000
142A243LEU0-0.0380.00317.7180.0690.0690.0000.0000.0000.000
143A244PRO0-0.011-0.01319.6000.0820.0820.0000.0000.0000.000
144A245TYR00.0090.02020.6980.0850.0850.0000.0000.0000.000
145A246SER0-0.046-0.02815.493-0.006-0.0060.0000.0000.0000.000
146A247THR0-0.006-0.00611.7930.1420.1420.0000.0000.0000.000
147A248PHE0-0.011-0.01612.707-0.297-0.2970.0000.0000.0000.000
149A250THR00.011-0.01810.238-0.528-0.5280.0000.0000.0000.000
150A251TYR0-0.047-0.0345.5890.5170.5170.0000.0000.0000.000
151A252LEU00.014-0.00411.732-0.205-0.2050.0000.0000.0000.000
152A253PHE00.0410.02212.0750.0330.0330.0000.0000.0000.000
153A254PRO00.0700.05515.922-0.085-0.0850.0000.0000.0000.000
154A255GLU-1-0.798-0.88217.4680.0550.0550.0000.0000.0000.000
155A256THR0-0.087-0.08019.152-0.088-0.0880.0000.0000.0000.000
156A257GLU-1-0.858-0.91821.5440.3560.3560.0000.0000.0000.000
157A258PHE0-0.060-0.04123.468-0.047-0.0470.0000.0000.0000.000
158A259ILE00.0300.02127.1450.0310.0310.0000.0000.0000.000
159A260ALA0-0.028-0.00630.611-0.040-0.0400.0000.0000.0000.000
160A261VAL00.0310.01532.1820.0190.0190.0000.0000.0000.000
161A262THR00.006-0.01035.864-0.015-0.0150.0000.0000.0000.000
162A263ALA0-0.006-0.00838.870-0.018-0.0180.0000.0000.0000.000
163A264TYR0-0.012-0.01133.6530.0060.0060.0000.0000.0000.000
164A265GLN0-0.054-0.02637.3420.0120.0120.0000.0000.0000.000
165A266ASN00.0180.01534.444-0.009-0.0090.0000.0000.0000.000
166A267ASP-1-0.823-0.91437.099-0.028-0.0280.0000.0000.0000.000
167A268LYS10.9130.94735.759-0.028-0.0280.0000.0000.0000.000
168A269ILE0-0.052-0.01631.169-0.022-0.0220.0000.0000.0000.000
169A270THR00.032-0.00334.417-0.024-0.0240.0000.0000.0000.000
170A271GLN00.0360.01837.181-0.006-0.0060.0000.0000.0000.000
171A272LEU00.0000.01830.487-0.021-0.0210.0000.0000.0000.000
172A273LYS10.7540.86430.2460.0820.0820.0000.0000.0000.000
173A274ILE00.0190.01134.239-0.029-0.0290.0000.0000.0000.000
174A275ASP-1-0.797-0.88335.292-0.173-0.1730.0000.0000.0000.000
175A276ASN0-0.085-0.05530.809-0.046-0.0460.0000.0000.0000.000
176A277ASN0-0.029-0.01832.600-0.057-0.0570.0000.0000.0000.000
177A278PRO0-0.004-0.01632.4510.0160.0160.0000.0000.0000.000
178A279PHE0-0.040-0.03533.4730.0040.0040.0000.0000.0000.000
179A280ALA0-0.0160.00636.8950.0160.0160.0000.0000.0000.000
180A281LYS10.9730.97938.0970.3020.3020.0000.0000.0000.000
181A282GLY0-0.019-0.00140.0470.0040.0040.0000.0000.0000.000
182A283PHE0-0.058-0.03041.3140.0090.0090.0000.0000.0000.000
183A284ARG10.8180.91235.4860.2400.2400.0000.0000.0000.000
184A285ASP-2-1.844-1.89642.517-0.257-0.2570.0000.0000.0000.000