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: 7445K

Calculation Name: 2Y44-A-Xray547

Preferred Name:

Target Type:

Ligand Name: cysteinesulfonic acid | iodide ion

Ligand 3-letter code: OCS | IOD

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 2Y44

Chain ID: A

ChEMBL ID:

UniProt ID: Q07419

Base Structure: X-ray

Registration Date: 2025-10-06

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 183
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -1549071.952243
FMO2-HF: Nuclear repulsion 1480950.688493
FMO2-HF: Total energy -68121.26375
FMO2-MP2: Total energy -68319.705772


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:40:LYS)


Summations of interaction energy for fragment #1(A:40:LYS)
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.
-425.147-415.1993.592-6.117-7.424-0.065
Interaction energy analysis for fragmet #1(A:40:LYS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 2 / q_Mulliken : 1.832 / q_NPA : 1.901
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].
3A42GLU-1-0.896-0.9383.586-67.218-65.193-0.004-0.778-1.243-0.003
4A43GLU-1-0.869-0.9242.122-133.606-127.7972.971-4.522-4.259-0.055
5A44VAL00.005-0.0012.8639.92610.7880.039-0.301-0.600-0.002
6A45GLN00.013-0.0055.33711.76611.884-0.001-0.004-0.1120.000
112A152ASP-1-0.887-0.9564.425-89.017-88.944-0.001-0.015-0.0570.000
115A155ILE0-0.016-0.0052.625-4.409-3.3480.588-0.497-1.153-0.005
7A46THR00.0300.0187.4527.0777.0770.0000.0000.0000.000
8A47MET00.0020.0016.0537.4817.4810.0000.0000.0000.000
9A48CYS0-0.0530.0089.2178.4268.4260.0000.0000.0000.000
10A49ASP-1-0.891-0.95111.271-37.978-37.9780.0000.0000.0000.000
11A50VAL0-0.015-0.00812.1973.3973.3970.0000.0000.0000.000
12A51ALA00.0170.01013.1502.7402.7400.0000.0000.0000.000
13A52ARG10.8210.88314.89638.47538.4750.0000.0000.0000.000
14A53GLN00.0270.02516.9463.4173.4170.0000.0000.0000.000
15A54LEU00.0100.00216.1421.8941.8940.0000.0000.0000.000
16A55ARG10.7530.83314.92235.34335.3430.0000.0000.0000.000
17A56ALA0-0.0130.01120.9041.1681.1680.0000.0000.0000.000
18A57LEU00.0060.00521.7741.2421.2420.0000.0000.0000.000
19A58GLU-1-0.899-0.93324.947-19.755-19.7550.0000.0000.0000.000
20A59THR00.004-0.00527.0590.5740.5740.0000.0000.0000.000
21A60ALA00.0040.00626.9890.7680.7680.0000.0000.0000.000
22A61SER00.010-0.01128.5320.7910.7910.0000.0000.0000.000
23A62GLN0-0.040-0.02130.8550.6880.6880.0000.0000.0000.000
24A63SER0-0.030-0.00731.8940.8570.8570.0000.0000.0000.000
25A64ALA00.0330.01732.6320.5570.5570.0000.0000.0000.000
26A65VAL00.008-0.00634.4440.6290.6290.0000.0000.0000.000
27A66ALA0-0.016-0.00336.6660.5570.5570.0000.0000.0000.000
28A67ALA00.0060.00337.1990.4950.4950.0000.0000.0000.000
29A68VAL00.0040.01038.0700.4470.4470.0000.0000.0000.000
30A69VAL0-0.010-0.01240.4490.4510.4510.0000.0000.0000.000
31A70SER0-0.073-0.04342.1360.4210.4210.0000.0000.0000.000
32A71SER0-0.005-0.00842.0680.3450.3450.0000.0000.0000.000
33A72ALA00.0200.01644.6260.2910.2910.0000.0000.0000.000
34A73ARG10.8480.93745.32413.51513.5150.0000.0000.0000.000
35A74GLU-1-0.762-0.86845.687-13.363-13.3630.0000.0000.0000.000
36A75ALA00.0510.02348.6710.2890.2890.0000.0000.0000.000
37A76SER0-0.057-0.05250.4570.3710.3710.0000.0000.0000.000
38A77GLU-1-0.928-0.97351.349-11.958-11.9580.0000.0000.0000.000
39A78ALA0-0.019-0.00953.2120.2590.2590.0000.0000.0000.000
40A79LYS10.9360.98054.62411.16011.1600.0000.0000.0000.000
41A80GLU-1-0.891-0.94656.556-10.304-10.3040.0000.0000.0000.000
42A81ARG10.8150.91254.21311.51911.5190.0000.0000.0000.000
43A82ALA00.1230.06859.1610.2280.2280.0000.0000.0000.000
44A83GLU-1-0.883-0.96560.140-10.088-10.0880.0000.0000.0000.000
45A84LYS10.8200.90861.44210.42710.4270.0000.0000.0000.000
46A85ALA00.0000.00563.8720.2220.2220.0000.0000.0000.000
47A86VAL00.0360.02964.7030.2150.2150.0000.0000.0000.000
48A87GLU-1-0.795-0.88067.048-8.906-8.9060.0000.0000.0000.000
49A88ARG10.9030.96667.1849.4889.4880.0000.0000.0000.000
50A89ALA00.0370.02469.5830.1740.1740.0000.0000.0000.000
51A90LYS10.8660.90269.7819.1759.1750.0000.0000.0000.000
52A91SER0-0.079-0.04272.7080.1900.1900.0000.0000.0000.000
53A92LYS10.8870.92973.9338.5208.5200.0000.0000.0000.000
54A93LYS10.8550.94275.7368.3048.3040.0000.0000.0000.000
55A94ARG10.9790.98374.0898.5258.5250.0000.0000.0000.000
56A95GLY00.0310.01471.501-0.073-0.0730.0000.0000.0000.000
57A96VAL00.0130.00669.739-0.122-0.1220.0000.0000.0000.000
58A97ASP-1-0.892-0.91568.701-8.906-8.9060.0000.0000.0000.000
59A98THR00.0130.00266.413-0.128-0.1280.0000.0000.0000.000
60A99ALA00.0210.01464.812-0.161-0.1610.0000.0000.0000.000
61A100THR0-0.020-0.03463.998-0.144-0.1440.0000.0000.0000.000
62A101GLU-1-0.952-0.98163.077-9.649-9.6490.0000.0000.0000.000
63A102ALA00.0100.01760.364-0.188-0.1880.0000.0000.0000.000
64A103ALA00.0190.00659.202-0.220-0.2200.0000.0000.0000.000
65A104ALA0-0.012-0.00758.973-0.187-0.1870.0000.0000.0000.000
66A105ARG10.9310.96755.05210.81210.8120.0000.0000.0000.000
67A106ALA00.0810.03954.892-0.246-0.2460.0000.0000.0000.000
68A107ALA0-0.023-0.01654.269-0.232-0.2320.0000.0000.0000.000
69A108ALA0-0.034-0.02254.214-0.185-0.1850.0000.0000.0000.000
70A109ALA0-0.0240.00050.828-0.223-0.2230.0000.0000.0000.000
71A110ALA00.0580.01849.654-0.287-0.2870.0000.0000.0000.000
72A111GLN0-0.040-0.02249.693-0.361-0.3610.0000.0000.0000.000
73A112ARG10.8300.91947.08112.09512.0950.0000.0000.0000.000
74A113ALA00.0550.02845.404-0.322-0.3220.0000.0000.0000.000
75A114GLU-1-0.848-0.93644.896-13.175-13.1750.0000.0000.0000.000
76A115THR0-0.082-0.04244.584-0.138-0.1380.0000.0000.0000.000
77A116VAL00.0060.00539.980-0.276-0.2760.0000.0000.0000.000
78A117VAL0-0.0060.00540.687-0.463-0.4630.0000.0000.0000.000
79A118SER0-0.061-0.03441.253-0.346-0.3460.0000.0000.0000.000
80A119ASP-1-0.868-0.93738.993-14.989-14.9890.0000.0000.0000.000
81A120ALA00.0360.02136.372-0.439-0.4390.0000.0000.0000.000
82A121ARG10.9070.95135.61114.09014.0900.0000.0000.0000.000
83A122LYS10.8450.94336.08114.46014.4600.0000.0000.0000.000
84A123HIS10.8760.90632.76416.51216.5120.0000.0000.0000.000
85A124ALA00.0360.02531.402-0.658-0.6580.0000.0000.0000.000
86A125ALA0-0.0090.01530.873-0.584-0.5840.0000.0000.0000.000
87A126ASP-1-0.908-0.96030.877-18.232-18.2320.0000.0000.0000.000
88A127LEU0-0.025-0.00724.955-0.680-0.6800.0000.0000.0000.000
89A128THR0-0.022-0.01326.133-0.854-0.8540.0000.0000.0000.000
90A129ALA0-0.031-0.01426.394-0.630-0.6300.0000.0000.0000.000
91A130ALA0-0.016-0.00625.522-0.511-0.5110.0000.0000.0000.000
92A131SER0-0.028-0.03221.966-0.941-0.9410.0000.0000.0000.000
93A132LYS10.8980.94221.27321.34521.3450.0000.0000.0000.000
94A133ASP-1-0.843-0.92421.306-25.057-25.0570.0000.0000.0000.000
95A134ALA0-0.0200.00517.844-1.516-1.5160.0000.0000.0000.000
96A135ILE00.0050.01816.635-2.322-2.3220.0000.0000.0000.000
97A136GLU-1-0.877-0.92017.024-26.076-26.0760.0000.0000.0000.000
98A137THR0-0.010-0.01714.192-1.060-1.0600.0000.0000.0000.000
99A138THR0-0.028-0.02411.684-3.213-3.2130.0000.0000.0000.000
100A139ASP-1-0.809-0.90712.346-35.779-35.7790.0000.0000.0000.000
101A140GLU-1-0.904-0.93414.321-33.961-33.9610.0000.0000.0000.000
102A141SER0-0.013-0.0219.426-1.766-1.7660.0000.0000.0000.000
103A142LEU0-0.007-0.0018.809-4.052-4.0520.0000.0000.0000.000
104A143ARG10.8820.92510.75831.07931.0790.0000.0000.0000.000
105A144LEU00.0120.02011.2850.0700.0700.0000.0000.0000.000
106A145LEU0-0.012-0.0165.196-2.150-2.1500.0000.0000.0000.000
107A146ALA0-0.052-0.0248.825-1.564-1.5640.0000.0000.0000.000
108A147THR0-0.087-0.05111.5991.8471.8470.0000.0000.0000.000
109A148CYS0-0.0120.0208.7111.6851.6850.0000.0000.0000.000
110A149GLU-1-0.946-0.95611.460-39.601-39.6010.0000.0000.0000.000
111A151ALA0-0.011-0.0096.773-1.542-1.5420.0000.0000.0000.000
113A153GLU-1-0.884-0.9467.733-41.606-41.6060.0000.0000.0000.000
114A154PRO0-0.003-0.0066.9382.5492.5490.0000.0000.0000.000
116A156ARG10.9020.9496.16450.49650.4960.0000.0000.0000.000
117A157THR0-0.046-0.0389.6965.1375.1370.0000.0000.0000.000
118A158ALA0-0.033-0.0197.6503.6043.6040.0000.0000.0000.000
119A159ALA00.0410.0268.1892.7522.7520.0000.0000.0000.000
120A160LYS10.9550.97410.00138.35738.3570.0000.0000.0000.000
121A161LYS0-0.0420.00912.9673.8493.8490.0000.0000.0000.000
122A163THR00.0130.00914.1401.1331.1330.0000.0000.0000.000
123A164GLY00.0260.00717.854-0.318-0.3180.0000.0000.0000.000
124A165ALA00.0190.01218.974-1.337-1.3370.0000.0000.0000.000
125A166ALA0-0.011-0.00219.598-0.065-0.0650.0000.0000.0000.000
126A167ALA0-0.010-0.00621.2551.0271.0270.0000.0000.0000.000
127A168GLU-1-0.982-1.00223.731-21.660-21.6600.0000.0000.0000.000
128A169VAL0-0.0150.01322.025-0.200-0.2000.0000.0000.0000.000
129A170THR00.008-0.00223.6730.9620.9620.0000.0000.0000.000
130A171SER0-0.070-0.08423.398-1.226-1.2260.0000.0000.0000.000
131A172LYS10.9980.99922.99021.76121.7610.0000.0000.0000.000
132A173SER0-0.019-0.01120.612-0.564-0.5640.0000.0000.0000.000
133A174LEU00.0180.00818.771-1.700-1.7000.0000.0000.0000.000
134A175GLU-1-0.860-0.94318.115-25.861-25.8610.0000.0000.0000.000
135A176SER0-0.011-0.02517.809-1.027-1.0270.0000.0000.0000.000
136A177ALA0-0.0150.00314.543-1.793-1.7930.0000.0000.0000.000
137A178PHE0-0.002-0.00513.202-2.690-2.6900.0000.0000.0000.000
138A179ASP-1-0.857-0.90913.798-32.573-32.5730.0000.0000.0000.000
139A180ALA00.0290.01611.823-1.704-1.7040.0000.0000.0000.000
140A181LEU0-0.025-0.0307.649-4.113-4.1130.0000.0000.0000.000
141A182ALA0-0.018-0.0049.327-3.379-3.3790.0000.0000.0000.000
142A183GLU-1-0.950-0.98211.683-38.283-38.2830.0000.0000.0000.000
143A184LEU0-0.046-0.0155.799-2.989-2.9890.0000.0000.0000.000
144A185LEU0-0.062-0.0225.363-7.388-7.3880.0000.0000.0000.000
145A186PRO00.0330.0068.7794.3844.3840.0000.0000.0000.000
146A187ASP-1-0.930-0.96211.931-40.836-40.8360.0000.0000.0000.000
147A188GLY0-0.024-0.00812.2332.1362.1360.0000.0000.0000.000
148A189ALA0-0.019-0.00613.3691.1331.1330.0000.0000.0000.000
149A190ASP-1-0.890-0.95214.183-29.274-29.2740.0000.0000.0000.000
150A191ASP-1-0.872-0.94015.971-31.273-31.2730.0000.0000.0000.000
151A192ILE0-0.025-0.00110.5930.7700.7700.0000.0000.0000.000
152A193ARG10.8810.92714.87434.65234.6520.0000.0000.0000.000
153A194GLU-1-0.928-0.96817.584-24.024-24.0240.0000.0000.0000.000
154A195HIS10.7580.87116.68332.93032.9300.0000.0000.0000.000
155A196GLY00.0450.02618.1240.5000.5000.0000.0000.0000.000
156A197ALA00.0080.00419.1191.2861.2860.0000.0000.0000.000
157A198VAL0-0.017-0.00322.5601.3431.3430.0000.0000.0000.000
158A199PHE00.0370.00319.0891.1161.1160.0000.0000.0000.000
159A200VAL0-0.0160.00021.4050.9960.9960.0000.0000.0000.000
160A201LYS10.9590.98324.12920.01820.0180.0000.0000.0000.000
161A202GLY00.0210.01826.8680.9000.9000.0000.0000.0000.000
162A203LEU00.0070.00424.6960.7420.7420.0000.0000.0000.000
163A204LYS10.8870.93925.58923.14323.1430.0000.0000.0000.000
164A205SER0-0.090-0.04529.6480.8290.8290.0000.0000.0000.000
165A206LEU0-0.0040.00929.6470.5570.5570.0000.0000.0000.000
166A207GLU-1-0.793-0.87928.110-20.649-20.6490.0000.0000.0000.000
167A208ASP-1-0.875-0.92632.602-15.910-15.9100.0000.0000.0000.000
168A209ASP-1-0.778-0.87135.525-16.278-16.2780.0000.0000.0000.000
169A210VAL00.000-0.00834.6510.5030.5030.0000.0000.0000.000
170A211ARG10.8220.91532.93017.71617.7160.0000.0000.0000.000
171A212THR0-0.0040.00038.8030.5080.5080.0000.0000.0000.000
172A213ALA00.006-0.00640.7720.4280.4280.0000.0000.0000.000
173A214GLY00.0050.01241.4030.3240.3240.0000.0000.0000.000
174A215GLU-1-0.911-0.96442.786-13.049-13.0490.0000.0000.0000.000
175A216ALA0-0.031-0.01044.9480.3550.3550.0000.0000.0000.000
176A217LYS10.8440.91643.77414.17814.1780.0000.0000.0000.000
177A218TYR0-0.014-0.00246.6440.4110.4110.0000.0000.0000.000
178A219GLU-1-0.865-0.93548.510-12.021-12.0210.0000.0000.0000.000
179A220ALA0-0.030-0.02350.6380.2910.2910.0000.0000.0000.000
180A221GLU-1-0.953-0.98749.541-12.221-12.2210.0000.0000.0000.000
181A222LYS10.8540.93951.76412.02212.0220.0000.0000.0000.000
182A223ALA0-0.097-0.03854.3280.1850.1850.0000.0000.0000.000
183A224GLU-2-1.825-1.88856.734-21.107-21.1070.0000.0000.0000.000