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: G4641

Calculation Name: 3HYJ-D-Xray549

Preferred Name:

Target Type:

Ligand Name: chloride ion

Ligand 3-letter code: CL

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 3HYJ

Chain ID: D

ChEMBL ID:

UniProt ID: Q9X234

Base Structure: X-ray

Registration Date: 2025-10-12

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 198
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2433143.300276
FMO2-HF: Nuclear repulsion 2353706.468652
FMO2-HF: Total energy -79436.831624
FMO2-MP2: Total energy -79672.910565


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(D:1:MET)


Summations of interaction energy for fragment #1(D: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.
53.15455.4141.931-1.142-3.05-0.002
Interaction energy analysis for fragmet #1(D:1:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.867 / q_NPA : 0.924
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].
3D3SER00.0010.0153.8562.7184.401-0.022-0.731-0.930-0.002
80D80LYS10.8360.9064.02742.38642.568-0.001-0.037-0.1450.000
84D84ILE00.0360.0012.205-3.036-2.6411.954-0.374-1.9750.000
4D4LEU00.0860.0305.8752.1692.1690.0000.0000.0000.000
5D5LEU00.0360.0339.0212.6302.6300.0000.0000.0000.000
6D6ARG10.8900.94210.57017.47417.4740.0000.0000.0000.000
7D7ARG10.8330.89213.32715.36915.3690.0000.0000.0000.000
8D8THR00.002-0.01015.3800.2760.2760.0000.0000.0000.000
9D9PHE00.0880.02718.457-0.032-0.0320.0000.0000.0000.000
10D10SER00.0240.01121.0260.3470.3470.0000.0000.0000.000
11D11GLU-1-0.773-0.85516.462-17.402-17.4020.0000.0000.0000.000
12D12GLU-1-0.811-0.87319.830-13.570-13.5700.0000.0000.0000.000
13D13ILE00.0670.03921.3300.2690.2690.0000.0000.0000.000
14D14LYS10.7720.87421.29714.30714.3070.0000.0000.0000.000
15D15GLU-1-0.880-0.93817.834-16.588-16.5880.0000.0000.0000.000
16D16GLU-1-0.814-0.88821.978-10.457-10.4570.0000.0000.0000.000
17D17LEU00.0160.00025.6500.1720.1720.0000.0000.0000.000
18D18VAL0-0.077-0.02821.0700.0810.0810.0000.0000.0000.000
19D19ASN0-0.022-0.01124.044-0.200-0.2000.0000.0000.0000.000
20D20VAL00.0290.04326.9810.3530.3530.0000.0000.0000.000
21D21PRO00.003-0.00430.206-0.170-0.1700.0000.0000.0000.000
22D22PHE0-0.023-0.02427.0850.0480.0480.0000.0000.0000.000
23D23GLY00.0510.05332.7050.0400.0400.0000.0000.0000.000
24D24SER0-0.037-0.06136.381-0.078-0.0780.0000.0000.0000.000
25D25ARG10.9510.97134.6928.7008.7000.0000.0000.0000.000
26D26GLU-1-0.825-0.92235.744-8.355-8.3550.0000.0000.0000.000
27D27GLU-1-0.761-0.84235.506-8.606-8.6060.0000.0000.0000.000
28D28VAL0-0.0080.01230.444-0.353-0.3530.0000.0000.0000.000
29D29ILE0-0.023-0.01231.511-0.403-0.4030.0000.0000.0000.000
30D30SER00.0080.00032.828-0.119-0.1190.0000.0000.0000.000
31D31GLU-1-0.786-0.88228.441-11.425-11.4250.0000.0000.0000.000
32D32LEU0-0.016-0.00926.402-0.415-0.4150.0000.0000.0000.000
33D33LEU00.0200.00528.740-0.333-0.3330.0000.0000.0000.000
34D34GLY00.0390.01530.0560.0300.0300.0000.0000.0000.000
35D35PHE0-0.043-0.03522.165-0.420-0.4200.0000.0000.0000.000
36D36ILE0-0.024-0.00825.909-0.392-0.3920.0000.0000.0000.000
37D37LYS10.8490.92528.0829.0289.0280.0000.0000.0000.000
38D38ALA00.0110.01926.9700.0790.0790.0000.0000.0000.000
39D39ARG10.7500.85820.96513.97213.9720.0000.0000.0000.000
40D40GLY00.0240.01723.247-0.727-0.7270.0000.0000.0000.000
41D41ASP-1-0.852-0.91923.549-12.063-12.0630.0000.0000.0000.000
42D42LEU0-0.008-0.01925.258-0.270-0.2700.0000.0000.0000.000
43D43ASP-1-0.954-0.96327.405-10.289-10.2890.0000.0000.0000.000
44D44VAL0-0.034-0.01721.981-0.051-0.0510.0000.0000.0000.000
45D45LYS10.8750.94021.85213.35813.3580.0000.0000.0000.000
46D46SER00.0820.04725.5550.1360.1360.0000.0000.0000.000
47D47ARG10.8680.91428.75710.41210.4120.0000.0000.0000.000
48D48HIS0-0.017-0.01724.315-0.073-0.0730.0000.0000.0000.000
49D49ILE00.0140.01825.0770.2750.2750.0000.0000.0000.000
50D50VAL0-0.0070.00019.302-0.496-0.4960.0000.0000.0000.000
51D51PHE00.0480.01820.4710.3020.3020.0000.0000.0000.000
52D52SER00.0280.00718.331-0.995-0.9950.0000.0000.0000.000
53D53LEU00.0010.01417.2550.3890.3890.0000.0000.0000.000
54D54HIS00.0390.02016.069-0.873-0.8730.0000.0000.0000.000
55D55SER0-0.091-0.06615.857-0.697-0.6970.0000.0000.0000.000
56D56PHE0-0.003-0.02213.445-0.629-0.6290.0000.0000.0000.000
57D57ALA00.0660.04815.7290.2320.2320.0000.0000.0000.000
58D58ALA00.0390.00919.1360.4760.4760.0000.0000.0000.000
59D59SER0-0.064-0.04416.0110.0210.0210.0000.0000.0000.000
60D60ARG10.8830.91716.42616.63816.6380.0000.0000.0000.000
61D61ARG10.7600.86319.34311.99411.9940.0000.0000.0000.000
62D62LEU00.0310.02120.5490.4010.4010.0000.0000.0000.000
63D63LEU00.014-0.00317.1750.4850.4850.0000.0000.0000.000
64D64ASN0-0.021-0.00721.8580.5060.5060.0000.0000.0000.000
65D65LEU00.0100.02024.6280.4850.4850.0000.0000.0000.000
66D66MET0-0.012-0.00723.8990.5250.5250.0000.0000.0000.000
67D67LYS10.9040.95024.51812.84312.8430.0000.0000.0000.000
68D68TYR0-0.026-0.00627.0820.3530.3530.0000.0000.0000.000
69D69LEU0-0.034-0.02229.9890.4090.4090.0000.0000.0000.000
70D70SER0-0.046-0.01229.6730.3290.3290.0000.0000.0000.000
71D71LYS10.8810.94627.91010.85210.8520.0000.0000.0000.000
72D72PRO0-0.008-0.00625.317-0.378-0.3780.0000.0000.0000.000
73D73VAL0-0.017-0.01719.4530.0920.0920.0000.0000.0000.000
74D74SER0-0.110-0.07121.2650.1400.1400.0000.0000.0000.000
75D75GLU-1-0.818-0.91214.882-20.385-20.3850.0000.0000.0000.000
76D76ILE0-0.069-0.04213.3120.7200.7200.0000.0000.0000.000
77D77ILE00.0560.04710.440-1.963-1.9630.0000.0000.0000.000
78D78VAL0-0.046-0.0327.5800.7510.7510.0000.0000.0000.000
79D79GLU-1-0.876-0.9347.837-26.623-26.6230.0000.0000.0000.000
81D81SER00.0000.0177.6763.9583.9580.0000.0000.0000.000
82D82HIS00.0730.0349.028-3.480-3.4800.0000.0000.0000.000
83D83ASN00.012-0.0029.502-2.088-2.0880.0000.0000.0000.000
85D85LYS00.0020.0005.265-5.257-5.2570.0000.0000.0000.000
86D86LYS10.8650.9417.91922.86822.8680.0000.0000.0000.000
87D87ARG10.9200.9649.54122.23622.2360.0000.0000.0000.000
88D88TYR0-0.109-0.05211.8112.0262.0260.0000.0000.0000.000
89D89ILE0-0.022-0.00311.742-2.577-2.5770.0000.0000.0000.000
90D90LYS00.0420.01313.3531.7871.7870.0000.0000.0000.000
91D91ILE00.0190.01915.368-0.365-0.3650.0000.0000.0000.000
92D92THR00.0090.01217.7680.8450.8450.0000.0000.0000.000
93D93ALA00.0250.02020.331-0.125-0.1250.0000.0000.0000.000
94D94GLU-1-0.806-0.88323.668-10.768-10.7680.0000.0000.0000.000
95D95TYR00.000-0.01027.0040.0380.0380.0000.0000.0000.000
96D96SER0-0.021-0.02129.6470.1720.1720.0000.0000.0000.000
97D97GLU-1-0.935-0.96133.343-8.739-8.7390.0000.0000.0000.000
98D98SER0-0.017-0.00635.0310.1610.1610.0000.0000.0000.000
99D99PHE0-0.033-0.01028.6490.0280.0280.0000.0000.0000.000
100D100MET0-0.009-0.01534.508-0.092-0.0920.0000.0000.0000.000
101D101VAL00.0180.01436.5080.2000.2000.0000.0000.0000.000
102D102ILE0-0.050-0.02036.8190.2230.2230.0000.0000.0000.000
103D103GLU-1-0.828-0.93338.671-8.246-8.2460.0000.0000.0000.000
104D104PRO0-0.049-0.02136.4760.1470.1470.0000.0000.0000.000
105D105PHE0-0.009-0.01337.5060.0010.0010.0000.0000.0000.000
106D106PHE00.0170.00841.6410.0970.0970.0000.0000.0000.000
107D107ASP-1-0.835-0.91042.675-7.324-7.3240.0000.0000.0000.000
108D108VAL00.0200.00941.667-0.205-0.2050.0000.0000.0000.000
109D109ALA00.0170.01839.665-0.220-0.2200.0000.0000.0000.000
110D110LEU0-0.004-0.00337.896-0.325-0.3250.0000.0000.0000.000
111D111PHE00.0170.00936.889-0.348-0.3480.0000.0000.0000.000
112D112VAL00.0110.00135.541-0.302-0.3020.0000.0000.0000.000
113D113SER0-0.014-0.03133.456-0.416-0.4160.0000.0000.0000.000
114D114PHE0-0.001-0.00532.147-0.408-0.4080.0000.0000.0000.000
115D115LEU0-0.018-0.00831.771-0.421-0.4210.0000.0000.0000.000
116D116ARG10.8540.92428.6679.6929.6920.0000.0000.0000.000
117D117GLY00.0620.03327.349-0.506-0.5060.0000.0000.0000.000
118D118LEU0-0.0270.00926.915-0.550-0.5500.0000.0000.0000.000
119D119PHE0-0.034-0.01925.591-0.465-0.4650.0000.0000.0000.000
120D120LEU0-0.005-0.00723.284-0.681-0.6810.0000.0000.0000.000
121D121SER0-0.023-0.01722.541-0.732-0.7320.0000.0000.0000.000
122D122GLY00.0160.00122.503-0.668-0.6680.0000.0000.0000.000
123D123GLY0-0.0080.01024.9990.3070.3070.0000.0000.0000.000
124D124SER0-0.093-0.03523.300-0.784-0.7840.0000.0000.0000.000
125D125MET00.0300.02224.7500.6340.6340.0000.0000.0000.000
126D126THR0-0.043-0.00624.947-0.680-0.6800.0000.0000.0000.000
127D127ASN00.0400.01724.6450.4900.4900.0000.0000.0000.000
128D128PRO00.0560.02227.2990.2250.2250.0000.0000.0000.000
129D129ARG10.9270.97726.06610.65410.6540.0000.0000.0000.000
130D130TYR0-0.035-0.03324.0540.0690.0690.0000.0000.0000.000
131D131HIS0-0.0110.00830.0970.2650.2650.0000.0000.0000.000
132D132TYR0-0.0020.00431.376-0.050-0.0500.0000.0000.0000.000
133D133HIS0-0.044-0.05029.3290.4010.4010.0000.0000.0000.000
134D134LEU00.0140.01429.275-0.402-0.4020.0000.0000.0000.000
135D135GLU-1-0.816-0.88727.687-11.008-11.0080.0000.0000.0000.000
136D136ILE00.002-0.00728.140-0.383-0.3830.0000.0000.0000.000
137D137ASN0-0.122-0.05826.3630.2810.2810.0000.0000.0000.000
138D138LEU00.0290.00928.339-0.134-0.1340.0000.0000.0000.000
139D139PHE00.0230.01730.1610.2350.2350.0000.0000.0000.000
140D140GLU-1-0.756-0.84232.040-8.807-8.8070.0000.0000.0000.000
141D141GLU-1-0.842-0.93034.954-8.156-8.1560.0000.0000.0000.000
142D142GLU-1-0.892-0.93138.276-7.450-7.4500.0000.0000.0000.000
143D143THR00.022-0.01734.4030.0380.0380.0000.0000.0000.000
144D144LEU0-0.029-0.00735.010-0.006-0.0060.0000.0000.0000.000
145D145ALA0-0.010-0.00537.3220.0630.0630.0000.0000.0000.000
146D146LEU00.0250.02240.1420.1340.1340.0000.0000.0000.000
147D147THR0-0.009-0.02835.308-0.020-0.0200.0000.0000.0000.000
148D148ARG10.8290.89038.6657.9447.9440.0000.0000.0000.000
149D149LYS10.8590.92240.3776.9356.9350.0000.0000.0000.000
150D150SER00.0440.00740.9020.1300.1300.0000.0000.0000.000
151D151LEU0-0.027-0.01836.264-0.002-0.0020.0000.0000.0000.000
152D152LYS10.8220.91140.6477.0357.0350.0000.0000.0000.000
153D153ASP-1-0.850-0.91844.026-6.763-6.7630.0000.0000.0000.000
154D154PHE0-0.028-0.00741.9490.1290.1290.0000.0000.0000.000
155D155PHE00.002-0.00139.0270.0010.0010.0000.0000.0000.000
156D156ASN0-0.028-0.00343.000-0.004-0.0040.0000.0000.0000.000
157D157ILE0-0.038-0.00437.762-0.008-0.0080.0000.0000.0000.000
158D158ASN0-0.032-0.01641.3650.2060.2060.0000.0000.0000.000
159D159ALA00.0350.03337.664-0.121-0.1210.0000.0000.0000.000
160D160GLY0-0.0050.00137.8620.2380.2380.0000.0000.0000.000
161D161ILE00.010-0.00436.353-0.156-0.1560.0000.0000.0000.000
162D162ILE0-0.035-0.00632.1740.1340.1340.0000.0000.0000.000
163D163GLU-1-0.801-0.88634.043-8.807-8.8070.0000.0000.0000.000
164D164LEU00.004-0.01029.5260.0790.0790.0000.0000.0000.000
165D165ARG10.9250.96726.05711.26211.2620.0000.0000.0000.000
166D166ASN00.0310.01529.779-0.087-0.0870.0000.0000.0000.000
167D167THR0-0.043-0.01527.061-0.317-0.3170.0000.0000.0000.000
168D168ARG10.8470.89830.2909.1839.1830.0000.0000.0000.000
169D169LYS10.8180.90826.26011.47111.4710.0000.0000.0000.000
170D170LEU00.0560.04831.8320.3880.3880.0000.0000.0000.000
171D171TYR0-0.031-0.02432.259-0.171-0.1710.0000.0000.0000.000
172D172ILE00.0380.01133.5230.3500.3500.0000.0000.0000.000
173D173LYS10.9810.99034.0658.0968.0960.0000.0000.0000.000
174D174SER00.0020.01036.5490.0240.0240.0000.0000.0000.000
175D175ILE00.0760.03034.188-0.132-0.1320.0000.0000.0000.000
176D176LYS10.9250.96736.8937.3377.3370.0000.0000.0000.000
177D177ASP-1-0.788-0.90838.543-7.750-7.7500.0000.0000.0000.000
178D178ILE0-0.031-0.02032.110-0.149-0.1490.0000.0000.0000.000
179D179LEU0-0.025-0.00833.875-0.220-0.2200.0000.0000.0000.000
180D180VAL00.0720.03535.569-0.104-0.1040.0000.0000.0000.000
181D181PHE0-0.006-0.00730.497-0.057-0.0570.0000.0000.0000.000
182D182LEU0-0.019-0.02129.237-0.196-0.1960.0000.0000.0000.000
183D183GLU-1-0.924-0.96132.653-8.502-8.5020.0000.0000.0000.000
184D184ALA0-0.038-0.00835.2990.0190.0190.0000.0000.0000.000
185D185ILE0-0.060-0.02829.547-0.080-0.0800.0000.0000.0000.000
186D186GLY00.0130.00932.202-0.212-0.2120.0000.0000.0000.000
187D187VAL0-0.062-0.02228.767-0.164-0.1640.0000.0000.0000.000
188D188GLN0-0.017-0.01931.1430.5830.5830.0000.0000.0000.000
189D189ARG10.7650.86323.82411.88211.8820.0000.0000.0000.000
190D190LYS10.9320.98131.1248.8038.8030.0000.0000.0000.000
191D191LEU00.018-0.00229.342-0.287-0.2870.0000.0000.0000.000
192D192GLU-1-0.860-0.95027.609-10.021-10.0210.0000.0000.0000.000
193D193GLU-1-0.843-0.93424.565-11.707-11.7070.0000.0000.0000.000
194D194ILE0-0.094-0.06023.848-0.489-0.4890.0000.0000.0000.000
195D195ASP-1-0.916-0.94224.549-11.296-11.2960.0000.0000.0000.000
196D196ARG10.9270.93918.54213.53113.5310.0000.0000.0000.000
197D197ILE0-0.119-0.04519.325-0.858-0.8580.0000.0000.0000.000
198D198VAL-1-0.844-0.87819.449-13.739-13.7390.0000.0000.0000.000