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: 8GM4Y

Calculation Name: 1UTH-A-Xray547

Preferred Name:

Target Type:

Ligand Name: thiocyanate ion

Ligand 3-letter code: SCN

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1UTH

Chain ID: A

ChEMBL ID:

UniProt ID: Q7WT50

Base Structure: X-ray

Registration Date: 2025-10-03

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 219
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2588830.135669
FMO2-HF: Nuclear repulsion 2501062.073657
FMO2-HF: Total energy -87768.062012
FMO2-MP2: Total energy -88021.574014


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:86:THR)


Summations of interaction energy for fragment #1(A:86:THR)
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.
-38.84-33.3661.966-3.819-3.621-0.045
Interaction energy analysis for fragmet #1(A:86:THR)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.862 / q_NPA : 0.921
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].
3A88ASN0-0.001-0.0223.859-1.1730.574-0.014-0.726-1.0070.000
4A89SER00.0140.0163.1483.4604.0660.006-0.198-0.414-0.001
5A90PHE00.010-0.0042.140-35.661-32.6391.975-2.880-2.117-0.044
6A91ASP-1-0.795-0.8894.600-25.623-25.524-0.001-0.015-0.0830.000
7A92PRO0-0.036-0.0337.149-1.602-1.6020.0000.0000.0000.000
8A93PHE00.0000.0109.8330.8340.8340.0000.0000.0000.000
9A94ALA00.0230.0118.2421.4891.4890.0000.0000.0000.000
10A95SER0-0.078-0.0276.391-2.996-2.9960.0000.0000.0000.000
11A96THR00.0410.0106.5013.7763.7760.0000.0000.0000.000
12A97ARG10.7510.8676.28434.87034.8700.0000.0000.0000.000
13A98THR00.0490.0298.2102.7452.7450.0000.0000.0000.000
14A99PHE0-0.062-0.0288.939-2.237-2.2370.0000.0000.0000.000
15A100ASN0-0.007-0.01612.9151.7551.7550.0000.0000.0000.000
16A101LEU00.007-0.01015.788-0.101-0.1010.0000.0000.0000.000
17A102ALA00.0250.01519.0300.6720.6720.0000.0000.0000.000
18A103MET0-0.012-0.00121.3900.2690.2690.0000.0000.0000.000
19A104THR00.0390.01225.4600.1250.1250.0000.0000.0000.000
20A105ASP-1-0.792-0.89928.513-9.650-9.6500.0000.0000.0000.000
21A106ILE0-0.035-0.02330.719-0.097-0.0970.0000.0000.0000.000
22A107GLY00.000-0.00127.852-0.055-0.0550.0000.0000.0000.000
23A108GLU-1-0.761-0.84125.123-12.140-12.1400.0000.0000.0000.000
24A109MET0-0.0060.00126.861-0.107-0.1070.0000.0000.0000.000
25A110TYR00.0030.00528.0460.0410.0410.0000.0000.0000.000
26A111PHE00.0360.00123.5340.0160.0160.0000.0000.0000.000
27A112MET00.0420.02420.074-0.432-0.4320.0000.0000.0000.000
28A113PRO0-0.011-0.00123.391-0.392-0.3920.0000.0000.0000.000
29A114PRO00.0580.02724.693-0.224-0.2240.0000.0000.0000.000
30A115LEU00.0160.00817.943-0.458-0.4580.0000.0000.0000.000
31A116MET0-0.005-0.01218.081-0.899-0.8990.0000.0000.0000.000
32A117GLU-1-0.949-0.95820.807-12.140-12.1400.0000.0000.0000.000
33A118ALA00.001-0.00720.385-0.242-0.2420.0000.0000.0000.000
34A119LEU0-0.021-0.03014.719-0.767-0.7670.0000.0000.0000.000
35A120ALA0-0.0020.00516.911-0.822-0.8220.0000.0000.0000.000
36A121GLN0-0.029-0.00619.3530.0040.0040.0000.0000.0000.000
37A122ARG10.7710.84115.82815.61215.6120.0000.0000.0000.000
38A123ALA0-0.031-0.02411.968-1.433-1.4330.0000.0000.0000.000
39A124PRO00.0020.01213.591-0.271-0.2710.0000.0000.0000.000
40A125HIS0-0.0040.00711.3670.9800.9800.0000.0000.0000.000
41A126ILE0-0.064-0.0139.383-1.170-1.1700.0000.0000.0000.000
42A127GLN0-0.007-0.00511.8241.0791.0790.0000.0000.0000.000
43A128ILE0-0.008-0.01613.550-0.971-0.9710.0000.0000.0000.000
44A129SER0-0.0100.00316.2921.0721.0720.0000.0000.0000.000
45A130THR0-0.021-0.03318.571-0.467-0.4670.0000.0000.0000.000
46A131LEU00.0210.02120.6150.3640.3640.0000.0000.0000.000
47A132ARG10.8030.85723.99211.31611.3160.0000.0000.0000.000
48A133PRO00.007-0.00426.051-0.108-0.1080.0000.0000.0000.000
49A134ASN0-0.055-0.04127.0700.1230.1230.0000.0000.0000.000
50A135ALA0-0.0120.00326.6190.3480.3480.0000.0000.0000.000
51A136GLY00.0120.01624.727-0.301-0.3010.0000.0000.0000.000
52A137ASN0-0.020-0.02224.3500.7100.7100.0000.0000.0000.000
53A138LEU00.0480.03122.111-0.437-0.4370.0000.0000.0000.000
54A139LYS10.8670.91622.20810.49410.4940.0000.0000.0000.000
55A140GLU-1-0.862-0.91522.288-12.469-12.4690.0000.0000.0000.000
56A141ASP-1-0.825-0.91519.504-14.497-14.4970.0000.0000.0000.000
57A142MET0-0.071-0.03117.729-0.754-0.7540.0000.0000.0000.000
58A143GLU-1-0.858-0.91517.296-17.346-17.3460.0000.0000.0000.000
59A144SER00.0380.00316.315-1.427-1.4270.0000.0000.0000.000
60A145GLY0-0.056-0.01813.138-1.082-1.0820.0000.0000.0000.000
61A146ALA00.0210.03013.314-1.088-1.0880.0000.0000.0000.000
62A147VAL0-0.022-0.01415.8550.2460.2460.0000.0000.0000.000
63A148ASP-1-0.821-0.89411.966-24.617-24.6170.0000.0000.0000.000
64A149LEU0-0.051-0.03615.1180.1060.1060.0000.0000.0000.000
65A150ALA00.0320.02518.1570.3850.3850.0000.0000.0000.000
66A151LEU0-0.024-0.00421.4270.0340.0340.0000.0000.0000.000
67A152GLY0-0.006-0.00924.6410.3640.3640.0000.0000.0000.000
68A153LEU0-0.006-0.00728.402-0.081-0.0810.0000.0000.0000.000
69A154LEU0-0.015-0.00925.6560.0040.0040.0000.0000.0000.000
70A155PRO00.0610.04129.302-0.200-0.2000.0000.0000.0000.000
71A156GLU-1-0.809-0.91228.837-10.499-10.4990.0000.0000.0000.000
72A157LEU0-0.023-0.00223.889-0.176-0.1760.0000.0000.0000.000
73A158GLN0-0.042-0.03127.0770.0050.0050.0000.0000.0000.000
74A159THR00.0340.00026.636-0.402-0.4020.0000.0000.0000.000
75A160GLY00.0170.01523.491-0.092-0.0920.0000.0000.0000.000
76A161PHE0-0.054-0.02921.245-0.925-0.9250.0000.0000.0000.000
77A162PHE0-0.0180.00719.9260.3890.3890.0000.0000.0000.000
78A163GLN00.0200.00622.617-0.080-0.0800.0000.0000.0000.000
79A164ARG10.9570.97821.82513.64113.6410.0000.0000.0000.000
80A165ARG10.8770.94625.18510.07810.0780.0000.0000.0000.000
81A166LEU0-0.0100.00423.549-0.250-0.2500.0000.0000.0000.000
82A167PHE00.0800.03627.6480.2720.2720.0000.0000.0000.000
83A168ARG10.9020.93531.3038.3008.3000.0000.0000.0000.000
84A169HIS0-0.020-0.00333.3300.1200.1200.0000.0000.0000.000
85A170ARG10.8930.91636.1477.7867.7860.0000.0000.0000.000
86A171TYR00.0190.00639.357-0.124-0.1240.0000.0000.0000.000
87A172VAL0-0.005-0.00341.3370.1160.1160.0000.0000.0000.000
88A173CYS0-0.091-0.05043.981-0.011-0.0110.0000.0000.0000.000
89A174MET0-0.0250.00040.981-0.066-0.0660.0000.0000.0000.000
90A175PHE00.0520.01246.0050.0680.0680.0000.0000.0000.000
91A176ARG10.8700.93447.8105.9075.9070.0000.0000.0000.000
92A177LYS10.8690.91748.2726.5196.5190.0000.0000.0000.000
93A178ASP-1-0.869-0.91150.515-6.019-6.0190.0000.0000.0000.000
94A179HIS00.0070.00952.7960.1630.1630.0000.0000.0000.000
95A180PRO0-0.0030.00954.8230.0500.0500.0000.0000.0000.000
96A181SER0-0.027-0.03057.4390.0840.0840.0000.0000.0000.000
97A182ALA0-0.0060.00353.2320.0380.0380.0000.0000.0000.000
98A183LYS10.9000.94354.7415.6145.6140.0000.0000.0000.000
99A184SER0-0.022-0.00949.007-0.077-0.0770.0000.0000.0000.000
100A185PRO00.004-0.00151.3600.0350.0350.0000.0000.0000.000
101A186MET00.0290.03851.7870.1160.1160.0000.0000.0000.000
102A187SER00.0100.00053.572-0.031-0.0310.0000.0000.0000.000
103A188LEU00.0570.01053.536-0.018-0.0180.0000.0000.0000.000
104A189LYS10.9650.98255.8705.1055.1050.0000.0000.0000.000
105A190GLN00.0220.00855.747-0.040-0.0400.0000.0000.0000.000
106A191PHE00.0420.00749.023-0.024-0.0240.0000.0000.0000.000
107A192SER0-0.030-0.03654.279-0.059-0.0590.0000.0000.0000.000
108A193GLU-1-0.986-0.96356.456-5.182-5.1820.0000.0000.0000.000
109A194LEU00.0130.00254.2870.0490.0490.0000.0000.0000.000
110A195GLU-1-0.802-0.85854.487-5.621-5.6210.0000.0000.0000.000
111A196HIS0-0.013-0.02749.678-0.210-0.2100.0000.0000.0000.000
112A197VAL00.0080.00245.5550.0390.0390.0000.0000.0000.000
113A198GLY0-0.035-0.02245.837-0.053-0.0530.0000.0000.0000.000
114A199VAL0-0.027-0.02439.088-0.031-0.0310.0000.0000.0000.000
115A200VAL0-0.011-0.00541.142-0.012-0.0120.0000.0000.0000.000
116A201ALA0-0.018-0.01337.057-0.058-0.0580.0000.0000.0000.000
117A202LEU00.0370.01737.494-0.075-0.0750.0000.0000.0000.000
118A203ASN0-0.0050.00834.533-0.045-0.0450.0000.0000.0000.000
119A204THR00.0140.01033.180-0.504-0.5040.0000.0000.0000.000
120A205GLY00.0100.01234.4340.2370.2370.0000.0000.0000.000
121A206HIS0-0.041-0.04033.3940.1670.1670.0000.0000.0000.000
122A207GLY00.0560.03938.1510.1790.1790.0000.0000.0000.000
123A208GLU-1-0.918-0.96140.153-7.435-7.4350.0000.0000.0000.000
124A209VAL0-0.051-0.02841.6020.2160.2160.0000.0000.0000.000
125A210ASP-1-0.851-0.91044.093-6.516-6.5160.0000.0000.0000.000
126A211GLY00.1000.04146.2050.1640.1640.0000.0000.0000.000
127A212LEU0-0.063-0.03643.6280.1390.1390.0000.0000.0000.000
128A213LEU0-0.040-0.02347.6170.1360.1360.0000.0000.0000.000
129A214GLU-1-0.955-0.96650.180-6.060-6.0600.0000.0000.0000.000
130A215ARG10.9460.96845.7116.9216.9210.0000.0000.0000.000
131A216ALA0-0.035-0.00151.8090.0850.0850.0000.0000.0000.000
132A217GLY00.0110.00853.6190.1000.1000.0000.0000.0000.000
133A218ILE0-0.085-0.04351.7970.1040.1040.0000.0000.0000.000
134A219LYS10.9630.98253.6785.3155.3150.0000.0000.0000.000
135A220ARG10.9110.95547.8696.5016.5010.0000.0000.0000.000
136A221ARG10.8580.92254.4105.4845.4840.0000.0000.0000.000
137A222MET0-0.0100.00148.481-0.050-0.0500.0000.0000.0000.000
138A223ARG10.8310.90852.1545.7575.7570.0000.0000.0000.000
139A224LEU00.0320.00746.7580.0160.0160.0000.0000.0000.000
140A225VAL0-0.0030.00345.374-0.036-0.0360.0000.0000.0000.000
141A226VAL00.0130.02041.6820.0150.0150.0000.0000.0000.000
142A227PRO00.0270.01338.901-0.011-0.0110.0000.0000.0000.000
143A228HIS00.020-0.00434.876-0.058-0.0580.0000.0000.0000.000
144A229PHE00.035-0.00935.9410.2300.2300.0000.0000.0000.000
145A230ILE0-0.0130.00334.7640.1370.1370.0000.0000.0000.000
146A231ALA00.0280.01537.1250.0390.0390.0000.0000.0000.000
147A232ILE0-0.010-0.00640.3860.1860.1860.0000.0000.0000.000
148A233GLY00.0380.02540.6520.1590.1590.0000.0000.0000.000
149A234PRO00.0410.00640.8880.1820.1820.0000.0000.0000.000
150A235ILE00.0110.01744.0470.1890.1890.0000.0000.0000.000
151A236LEU0-0.029-0.00644.1640.1700.1700.0000.0000.0000.000
152A237HIS0-0.073-0.04245.6210.1900.1900.0000.0000.0000.000
153A238SER0-0.007-0.00847.5610.1360.1360.0000.0000.0000.000
154A239THR0-0.064-0.04249.8450.1490.1490.0000.0000.0000.000
155A240ASP-1-0.795-0.88851.811-5.831-5.8310.0000.0000.0000.000
156A241LEU0-0.028-0.00749.8170.0650.0650.0000.0000.0000.000
157A242ILE0-0.034-0.01549.211-0.065-0.0650.0000.0000.0000.000
158A243ALA00.0330.02044.403-0.011-0.0110.0000.0000.0000.000
159A244THR0-0.0190.00143.6010.0600.0600.0000.0000.0000.000
160A245VAL00.0280.01039.346-0.119-0.1190.0000.0000.0000.000
161A246PRO00.0190.01136.2490.0920.0920.0000.0000.0000.000
162A247GLN00.0700.02936.326-0.276-0.2760.0000.0000.0000.000
163A248ARG10.8090.88731.2009.8329.8320.0000.0000.0000.000
164A249PHE00.0330.01633.955-0.192-0.1920.0000.0000.0000.000
165A250ALA00.0480.01335.7930.0640.0640.0000.0000.0000.000
166A251VAL0-0.024-0.00434.3040.0840.0840.0000.0000.0000.000
167A252ARG10.8140.89629.17010.10810.1080.0000.0000.0000.000
168A253CYS0-0.019-0.00935.5430.0270.0270.0000.0000.0000.000
169A254GLU-1-0.858-0.91839.030-7.336-7.3360.0000.0000.0000.000
170A255VAL00.0290.01139.9250.1550.1550.0000.0000.0000.000
171A256PRO0-0.030-0.01437.3650.1470.1470.0000.0000.0000.000
172A257PHE00.0310.02138.5700.0430.0430.0000.0000.0000.000
173A258GLY00.0160.03343.3230.1970.1970.0000.0000.0000.000
174A259LEU0-0.056-0.03842.8680.1790.1790.0000.0000.0000.000
175A260THR00.0360.01545.329-0.081-0.0810.0000.0000.0000.000
176A261THR0-0.038-0.03742.3830.0160.0160.0000.0000.0000.000
177A262SER00.0240.01345.8270.1960.1960.0000.0000.0000.000
178A263PRO00.0110.00346.092-0.141-0.1410.0000.0000.0000.000
179A264HIS00.0210.01345.7360.1900.1900.0000.0000.0000.000
180A265PRO0-0.0010.01347.7630.0190.0190.0000.0000.0000.000
181A266ALA0-0.015-0.00348.8420.1220.1220.0000.0000.0000.000
182A267LYS10.9200.95048.3306.0876.0870.0000.0000.0000.000
183A268LEU00.0150.02043.838-0.034-0.0340.0000.0000.0000.000
184A269PRO00.006-0.00341.330-0.043-0.0430.0000.0000.0000.000
185A270ASP-1-0.781-0.84938.212-8.040-8.0400.0000.0000.0000.000
186A271ILE0-0.0080.00433.928-0.071-0.0710.0000.0000.0000.000
187A272ALA0-0.028-0.02332.838-0.113-0.1130.0000.0000.0000.000
188A273ILE0-0.026-0.00327.919-0.036-0.0360.0000.0000.0000.000
189A274ASN00.0130.00627.0750.1290.1290.0000.0000.0000.000
190A275LEU00.0490.03619.340-0.009-0.0090.0000.0000.0000.000
191A276PHE0-0.007-0.01322.1420.0580.0580.0000.0000.0000.000
192A277TRP00.011-0.01017.082-0.505-0.5050.0000.0000.0000.000
193A278HIS00.0590.04217.0510.3810.3810.0000.0000.0000.000
194A279ALA0-0.002-0.01117.231-1.143-1.1430.0000.0000.0000.000
195A280LYS10.7770.88014.33018.06418.0640.0000.0000.0000.000
196A281TYR0-0.013-0.01611.191-2.310-2.3100.0000.0000.0000.000
197A282ASN00.0150.01213.613-0.840-0.8400.0000.0000.0000.000
198A283ARG10.9670.96112.77318.55918.5590.0000.0000.0000.000
199A284ASP-1-0.777-0.8637.725-38.783-38.7830.0000.0000.0000.000
200A285PRO0-0.016-0.0156.1682.2142.2140.0000.0000.0000.000
201A286GLY00.0400.0327.5251.5831.5830.0000.0000.0000.000
202A287ASN00.0290.0088.4104.0444.0440.0000.0000.0000.000
203A288MET0-0.073-0.02210.8022.8162.8160.0000.0000.0000.000
204A289TRP00.0370.02610.6691.2891.2890.0000.0000.0000.000
205A290LEU00.0590.02712.4771.8851.8850.0000.0000.0000.000
206A291ARG10.7910.89014.32121.49421.4940.0000.0000.0000.000
207A292GLN0-0.052-0.02614.0370.8890.8890.0000.0000.0000.000
208A293LEU00.0650.03515.9761.0451.0450.0000.0000.0000.000
209A294PHE00.012-0.00618.2201.0891.0890.0000.0000.0000.000
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