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

tag_button

FMODB ID: 4GG8N

Calculation Name: 1V3Y-A-Xray547

Preferred Name:

Target Type:

Ligand Name: cysteinesulfonic acid

Ligand 3-letter code: OCS

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1V3Y

Chain ID: A

ChEMBL ID:

UniProt ID: P43522

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 182
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2053860.927025
FMO2-HF: Nuclear repulsion 1980633.536978
FMO2-HF: Total energy -73227.390046
FMO2-MP2: Total energy -73442.53269


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:1:MET)


Summations of interaction energy for fragment #1(A: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.
-294.541-295.0528.666-15.38-12.778-0.164
Interaction energy analysis for fragmet #1(A:1:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.709 / q_NPA : 0.832
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].
3A3TYR0-0.013-0.0143.8645.5016.935-0.011-0.588-0.8350.000
28A28ARG10.8380.9033.31137.46037.7930.015-0.067-0.2810.000
31A31GLU-1-0.828-0.9074.578-32.173-32.063-0.001-0.004-0.1060.000
32A32ASP-1-0.839-0.9172.697-74.408-71.1521.861-2.083-3.034-0.023
33A33MET0-0.085-0.0244.053-0.268-0.260-0.001-0.0070.0010.000
35A35GLU-1-0.807-0.8821.764-138.201-143.85126.803-12.631-8.523-0.141
4A4PRO0-0.008-0.0156.6692.0932.0930.0000.0000.0000.000
5A5ILE00.0060.0089.9811.0791.0790.0000.0000.0000.000
6A6ARG10.8340.91712.59822.39122.3910.0000.0000.0000.000
7A7LEU00.0800.05115.8840.3870.3870.0000.0000.0000.000
8A8TYR0-0.048-0.04319.0470.4370.4370.0000.0000.0000.000
9A9GLY00.0400.00822.5770.4520.4520.0000.0000.0000.000
10A10ASP-1-0.751-0.84617.936-16.549-16.5490.0000.0000.0000.000
11A11PRO0-0.009-0.01821.3320.0620.0620.0000.0000.0000.000
12A12VAL0-0.074-0.03217.3980.4990.4990.0000.0000.0000.000
13A13LEU0-0.007-0.00117.8930.0770.0770.0000.0000.0000.000
14A14ARG10.7510.84221.09712.33912.3390.0000.0000.0000.000
15A15ARG10.8790.95021.19913.99713.9970.0000.0000.0000.000
16A16LYS10.8550.92823.20911.21911.2190.0000.0000.0000.000
17A17ALA0-0.0160.00119.8320.1080.1080.0000.0000.0000.000
18A18ARG10.9010.93421.09512.81212.8120.0000.0000.0000.000
19A19PRO00.0250.00020.661-0.710-0.7100.0000.0000.0000.000
20A20VAL0-0.0260.00117.276-0.315-0.3150.0000.0000.0000.000
21A21GLU-1-0.940-0.96219.705-11.814-11.8140.0000.0000.0000.000
22A22ASP-1-0.834-0.90718.549-15.506-15.5060.0000.0000.0000.000
23A23PHE00.011-0.01716.815-0.677-0.6770.0000.0000.0000.000
24A24SER0-0.061-0.03015.079-1.450-1.4500.0000.0000.0000.000
25A25GLY00.0180.00911.728-0.737-0.7370.0000.0000.0000.000
26A26ILE0-0.036-0.00810.690-2.436-2.4360.0000.0000.0000.000
27A27LYS10.9220.9579.44620.00320.0030.0000.0000.0000.000
29A29LEU00.0340.0216.185-4.372-4.3720.0000.0000.0000.000
30A30ALA00.0280.0057.705-2.103-2.1030.0000.0000.0000.000
34A34LEU00.0020.0007.4261.8611.8610.0000.0000.0000.000
36A36THR00.007-0.0175.6451.5011.5010.0000.0000.0000.000
37A37MET0-0.067-0.0157.1644.2364.2360.0000.0000.0000.000
38A38PHE00.017-0.0107.9023.1843.1840.0000.0000.0000.000
39A39GLU-1-0.836-0.9116.303-41.274-41.2740.0000.0000.0000.000
40A40ALA0-0.022-0.0178.9203.0533.0530.0000.0000.0000.000
41A41LYS10.7470.88311.24028.43928.4390.0000.0000.0000.000
42A42GLY00.0320.04013.4121.7501.7500.0000.0000.0000.000
43A43VAL00.009-0.00115.209-0.184-0.1840.0000.0000.0000.000
44A44GLY0-0.001-0.02615.7690.6510.6510.0000.0000.0000.000
45A45LEU0-0.0040.01210.221-0.491-0.4910.0000.0000.0000.000
46A46ALA00.0290.00713.684-0.411-0.4110.0000.0000.0000.000
47A47ALA00.0310.01512.775-0.745-0.7450.0000.0000.0000.000
48A48PRO0-0.029-0.02013.671-0.674-0.6740.0000.0000.0000.000
49A49GLN00.033-0.01414.5200.0520.0520.0000.0000.0000.000
50A50ILE00.0420.0398.599-0.479-0.4790.0000.0000.0000.000
51A51GLY0-0.025-0.01911.867-0.333-0.3330.0000.0000.0000.000
52A52LEU00.0010.00910.4121.1741.1740.0000.0000.0000.000
53A53SER0-0.005-0.00414.6400.7180.7180.0000.0000.0000.000
54A54GLN00.014-0.00414.5830.0750.0750.0000.0000.0000.000
55A55ARG10.8080.88417.59212.61912.6190.0000.0000.0000.000
56A56LEU00.0560.01912.1910.5060.5060.0000.0000.0000.000
57A57PHE0-0.013-0.00814.725-0.264-0.2640.0000.0000.0000.000
58A58VAL0-0.0060.01710.6230.5530.5530.0000.0000.0000.000
59A59ALA00.0190.00113.9600.2110.2110.0000.0000.0000.000
60A60VAL0-0.0050.00513.697-0.072-0.0720.0000.0000.0000.000
61A61GLU-1-0.779-0.88416.903-13.200-13.2000.0000.0000.0000.000
62A62TYR0-0.040-0.04412.8980.3480.3480.0000.0000.0000.000
63A63ALA0-0.0050.00618.8600.6490.6490.0000.0000.0000.000
64A64ASP-1-0.861-0.92417.073-17.041-17.0410.0000.0000.0000.000
65A65GLU0-0.097-0.08612.157-0.739-0.7390.0000.0000.0000.000
66A66PRO00.0460.01212.988-1.458-1.4580.0000.0000.0000.000
67A67GLU-1-0.782-0.86710.943-29.577-29.5770.0000.0000.0000.000
68A68GLY0-0.043-0.01812.1511.6271.6270.0000.0000.0000.000
69A69GLU-1-0.978-0.98412.495-18.741-18.7410.0000.0000.0000.000
70A70GLU-1-0.936-0.9638.125-27.450-27.4500.0000.0000.0000.000
71A71GLU-1-0.750-0.8707.525-37.501-37.5010.0000.0000.0000.000
72A72ARG10.7050.8265.97338.92738.9270.0000.0000.0000.000
73A73PRO0-0.0110.0159.6670.5200.5200.0000.0000.0000.000
74A74LEU0-0.036-0.02612.3092.0172.0170.0000.0000.0000.000
75A75ARG10.7870.8657.53328.78028.7800.0000.0000.0000.000
76A76GLU-1-0.860-0.90411.707-22.096-22.0960.0000.0000.0000.000
77A77LEU0-0.061-0.02414.6381.2631.2630.0000.0000.0000.000
78A78VAL0-0.0280.00313.9910.7960.7960.0000.0000.0000.000
79A79ARG10.8970.94717.06512.99812.9980.0000.0000.0000.000
80A80ARG10.8390.90418.39614.15314.1530.0000.0000.0000.000
81A81VAL00.0570.03112.017-0.466-0.4660.0000.0000.0000.000
82A82TYR0-0.085-0.05215.4450.9810.9810.0000.0000.0000.000
83A83VAL00.0490.02712.227-1.131-1.1310.0000.0000.0000.000
84A84VAL0-0.048-0.02515.0181.2781.2780.0000.0000.0000.000
85A85ALA00.0490.02517.434-0.409-0.4090.0000.0000.0000.000
86A86ASN0-0.056-0.04518.9500.4700.4700.0000.0000.0000.000
87A87PRO0-0.0010.00920.7860.5650.5650.0000.0000.0000.000
88A88VAL0-0.008-0.01123.6790.2110.2110.0000.0000.0000.000
89A89ILE0-0.021-0.00527.0660.0070.0070.0000.0000.0000.000
90A90THR0-0.050-0.03129.2990.2940.2940.0000.0000.0000.000
91A91TYR0-0.082-0.06132.1280.4150.4150.0000.0000.0000.000
92A92ARG10.9100.94931.1599.4709.4700.0000.0000.0000.000
93A93GLU-1-0.799-0.86134.314-8.044-8.0440.0000.0000.0000.000
94A94GLY00.0860.04435.350-0.252-0.2520.0000.0000.0000.000
95A95LEU0-0.063-0.04235.977-0.135-0.1350.0000.0000.0000.000
96A96VAL00.0330.02033.3360.1850.1850.0000.0000.0000.000
97A97GLU-1-0.884-0.94233.433-8.990-8.9900.0000.0000.0000.000
98A98GLY00.022-0.00531.4310.0560.0560.0000.0000.0000.000
99A99THR0-0.018-0.00827.178-0.037-0.0370.0000.0000.0000.000
100A100GLU-1-0.763-0.82525.276-12.824-12.8240.0000.0000.0000.000
101A101GLY00.1110.05323.6570.5380.5380.0000.0000.0000.000
102A102CYS-1-0.941-0.90420.197-16.773-16.7730.0000.0000.0000.000
103A103LEU00.0810.04513.7720.3830.3830.0000.0000.0000.000
104A104SER00.011-0.00317.178-0.468-0.4680.0000.0000.0000.000
105A105LEU0-0.097-0.05018.9390.7540.7540.0000.0000.0000.000
106A106PRO00.0460.03818.2680.4880.4880.0000.0000.0000.000
107A107GLY00.0330.00920.3480.4770.4770.0000.0000.0000.000
108A108LEU0-0.057-0.01823.1270.7250.7250.0000.0000.0000.000
109A109TYR00.022-0.00322.525-0.490-0.4900.0000.0000.0000.000
110A110SER0-0.031-0.02227.4670.4960.4960.0000.0000.0000.000
111A111GLU-1-0.888-0.95629.686-10.315-10.3150.0000.0000.0000.000
112A112GLU-1-0.857-0.92431.947-8.696-8.6960.0000.0000.0000.000
113A113VAL0-0.018-0.00728.8480.2240.2240.0000.0000.0000.000
114A114PRO0-0.0190.01131.881-0.082-0.0820.0000.0000.0000.000
115A115ARG10.6960.79926.31711.65311.6530.0000.0000.0000.000
116A116ALA0-0.041-0.01831.5100.3240.3240.0000.0000.0000.000
117A117GLU-1-0.934-0.95431.230-9.310-9.3100.0000.0000.0000.000
118A118ARG10.8910.92231.7738.6648.6640.0000.0000.0000.000
119A119ILE0-0.052-0.02926.3600.1820.1820.0000.0000.0000.000
120A120ARG10.8620.93629.5659.2999.2990.0000.0000.0000.000
121A121VAL0-0.031-0.02524.1550.0290.0290.0000.0000.0000.000
122A122GLU-1-0.851-0.91226.618-10.102-10.1020.0000.0000.0000.000
123A123TYR0-0.017-0.02319.6360.0020.0020.0000.0000.0000.000
124A124GLN0-0.030-0.00720.9650.5300.5300.0000.0000.0000.000
125A125ASP-1-0.740-0.84617.661-15.492-15.4920.0000.0000.0000.000
126A126GLU-1-0.832-0.93212.510-18.865-18.8650.0000.0000.0000.000
127A127GLU-1-0.895-0.94115.181-15.981-15.9810.0000.0000.0000.000
128A128GLY00.0000.00917.6660.7250.7250.0000.0000.0000.000
129A129ARG10.7390.84518.02215.61415.6140.0000.0000.0000.000
130A130GLY00.0260.01622.354-0.296-0.2960.0000.0000.0000.000
131A131ARG10.8530.92021.83012.45212.4520.0000.0000.0000.000
132A132VAL00.0320.00924.9790.0510.0510.0000.0000.0000.000
133A133LEU0-0.0180.00522.9010.0240.0240.0000.0000.0000.000
134A134GLU-1-0.836-0.91026.845-9.299-9.2990.0000.0000.0000.000
135A135LEU0-0.021-0.00723.440-0.230-0.2300.0000.0000.0000.000
136A136GLU-1-0.894-0.95827.983-9.527-9.5270.0000.0000.0000.000
137A137GLY00.0270.01328.354-0.401-0.4010.0000.0000.0000.000
138A138TYR00.0170.00121.734-0.215-0.2150.0000.0000.0000.000
139A139MET00.0450.03219.977-0.337-0.3370.0000.0000.0000.000
140A140ALA00.0270.02624.332-0.343-0.3430.0000.0000.0000.000
141A141ARG10.8240.91425.53011.13811.1380.0000.0000.0000.000
142A142VAL00.0170.01019.691-0.122-0.1220.0000.0000.0000.000
143A143PHE00.033-0.00220.447-0.422-0.4220.0000.0000.0000.000
144A144GLN0-0.053-0.04222.7890.3500.3500.0000.0000.0000.000
145A145HIS10.7750.84320.39515.03615.0360.0000.0000.0000.000
146A146GLU-1-0.808-0.92117.493-18.116-18.1160.0000.0000.0000.000
147A147ILE0-0.012-0.01320.273-0.095-0.0950.0000.0000.0000.000
148A148ASP-1-0.753-0.83822.933-11.664-11.6640.0000.0000.0000.000
149A149HIS10.8700.93118.45516.38516.3850.0000.0000.0000.000
150A150LEU0-0.0330.00817.983-0.159-0.1590.0000.0000.0000.000
151A151ASP-1-0.831-0.89321.555-11.755-11.7550.0000.0000.0000.000
152A152GLY0-0.0070.02423.5410.5320.5320.0000.0000.0000.000
153A153ILE0-0.035-0.01224.6760.3630.3630.0000.0000.0000.000
154A154LEU00.019-0.00122.754-0.731-0.7310.0000.0000.0000.000
155A155PHE00.0390.01524.3110.5210.5210.0000.0000.0000.000
156A156PHE00.0550.02826.4440.4940.4940.0000.0000.0000.000
157A157GLU-1-0.829-0.90328.539-10.841-10.8410.0000.0000.0000.000
158A158ARG10.8120.88428.61811.29611.2960.0000.0000.0000.000
159A159LEU0-0.0030.02731.9970.2550.2550.0000.0000.0000.000
160A160PRO00.0200.00234.4340.1110.1110.0000.0000.0000.000
161A161LYS10.8380.90538.0187.6947.6940.0000.0000.0000.000
162A162PRO00.0360.00838.879-0.108-0.1080.0000.0000.0000.000
163A163LYS10.8690.94036.5418.5558.5550.0000.0000.0000.000
164A164ARG10.9180.97933.4529.0709.0700.0000.0000.0000.000
165A165GLU-1-0.843-0.91435.037-8.160-8.1600.0000.0000.0000.000
166A166ALA00.0170.01237.338-0.038-0.0380.0000.0000.0000.000
167A167PHE00.0050.00527.742-0.054-0.0540.0000.0000.0000.000
168A168LEU0-0.010-0.01031.311-0.217-0.2170.0000.0000.0000.000
169A169GLU-1-0.834-0.91033.715-8.532-8.5320.0000.0000.0000.000
170A170ALA0-0.039-0.01334.6270.0150.0150.0000.0000.0000.000
171A171ASN0-0.015-0.01829.569-0.182-0.1820.0000.0000.0000.000
172A172ARG10.8400.91130.3238.2998.2990.0000.0000.0000.000
173A173ALA0-0.014-0.00631.392-0.133-0.1330.0000.0000.0000.000
174A174GLU-1-0.779-0.88825.280-12.636-12.6360.0000.0000.0000.000
175A175LEU0-0.0350.00126.243-0.447-0.4470.0000.0000.0000.000
176A176VAL00.003-0.01727.240-0.239-0.2390.0000.0000.0000.000
177A177ARG10.7940.89420.96514.03914.0390.0000.0000.0000.000
178A178PHE00.0230.00022.477-0.273-0.2730.0000.0000.0000.000
179A179GLN0-0.019-0.02223.013-0.110-0.1100.0000.0000.0000.000
180A180LYS10.8100.90725.37811.02711.0270.0000.0000.0000.000
181A181GLU-1-0.908-0.93818.832-15.989-15.9890.0000.0000.0000.000
182A182ALA-1-0.968-0.96219.413-15.882-15.8820.0000.0000.0000.000