FMODB

FMODB: The database of quantum mechanical data based on the FMO method

Last updated: 2024-07-23

All entries: 37450

Number of unique PDB entries: 7783

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FMODB ID: 14Z4Z

Calculation Name: 3KY7-A-Xray372

Preferred Name:

Target Type:

Ligand Name: cysteinesulfonic acid

ligand 3-letter code: OCS

PDB ID: 3KY7

Chain ID: A

ChEMBL ID:

UniProt ID: Q6GHJ5

Base Structure: X-ray

Registration Date: 2023-06-20

Reference: C. Watanabe, N. Tani, K. Kamisaka, T. Honma et al., Interaction energy analysis of Apo structure dataset on FMODB, To be published.

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
Protonation MOE:Protonate 3D
Complement MOE:Structure Preparation
Water No
Procedure Auto-FMO protocol ver. 2.20220422
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 230
LigandCharge OCS=-1
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2535140.358037
FMO2-HF: Nuclear repulsion 2441405.502105
FMO2-HF: Total energy -93734.855931
FMO2-MP2: Total energy -94004.925984


3D Structure
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.
-20.945-13.4526.475-11.675-22.296-0.083
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 : 0 / q_Mulliken : -0.011 / q_NPA : 0.006
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].
3A3ILE0-0.010-0.0212.066-1.533-1.3987.727-2.497-5.366-0.003
4A4ASP-1-0.783-0.8804.779-1.458-1.373-0.001-0.026-0.0580.000
5A5TYR0-0.044-0.0857.2030.1790.1790.0000.0000.0000.000
6A6LEU00.0240.03510.970-0.027-0.0270.0000.0000.0000.000
7A7THR00.0190.00714.4030.0720.0720.0000.0000.0000.000
8A8LEU0-0.046-0.02716.761-0.025-0.0250.0000.0000.0000.000
9A9PHE0-0.039-0.03018.6140.0150.0150.0000.0000.0000.000
10A10PRO0-0.0010.00616.1740.0030.0030.0000.0000.0000.000
11A11GLU-1-0.808-0.91316.640-0.212-0.2120.0000.0000.0000.000
12A12MET0-0.127-0.05417.3310.0170.0170.0000.0000.0000.000
13A13PHE00.011-0.00911.3280.0220.0220.0000.0000.0000.000
14A14ASP-1-0.891-0.92414.424-0.314-0.3140.0000.0000.0000.000
15A15GLY0-0.059-0.03616.405-0.006-0.0060.0000.0000.0000.000
16A16VAL00.004-0.00611.7760.0140.0140.0000.0000.0000.000
17A17LEU00.0170.0229.8450.0030.0030.0000.0000.0000.000
18A18ASN0-0.047-0.02211.814-0.080-0.0800.0000.0000.0000.000
19A19HIS00.006-0.01114.5620.0130.0130.0000.0000.0000.000
20A20SER00.0480.04212.6180.0530.0530.0000.0000.0000.000
21A21ILE0-0.067-0.02712.102-0.043-0.0430.0000.0000.0000.000
22A22MET00.040-0.0077.8690.1010.1010.0000.0000.0000.000
23A23LYS10.9750.9679.2810.3800.3800.0000.0000.0000.000
24A24ARG10.8770.95910.117-0.079-0.0790.0000.0000.0000.000
25A25ALA00.0600.0146.1650.0290.0290.0000.0000.0000.000
26A26GLN00.0230.0057.154-0.143-0.1430.0000.0000.0000.000
27A27GLU-1-0.954-0.9698.693-0.497-0.4970.0000.0000.0000.000
28A28ASN0-0.086-0.0398.9880.0100.0100.0000.0000.0000.000
29A29ASN0-0.040-0.0227.239-0.171-0.1710.0000.0000.0000.000
30A30LYS10.9180.9754.235-1.283-0.890-0.001-0.167-0.2250.000
31A31LEU00.0440.0191.922-6.356-8.2348.315-3.378-3.059-0.026
32A32GLN0-0.042-0.0233.4941.5872.1670.010-0.132-0.458-0.001
33A33ILE00.0070.0124.629-0.419-0.357-0.001-0.019-0.0410.000
34A34ASN0-0.003-0.0056.8400.3940.3940.0000.0000.0000.000
35A35THR00.0100.01010.0150.0270.0270.0000.0000.0000.000
36A36VAL00.0730.03212.317-0.024-0.0240.0000.0000.0000.000
37A37ASN0-0.005-0.00314.8600.0810.0810.0000.0000.0000.000
38A38PHE00.0880.02718.1360.0060.0060.0000.0000.0000.000
39A39ARG10.8920.93619.4330.1740.1740.0000.0000.0000.000
40A40ASP-1-0.923-0.95420.538-0.293-0.2930.0000.0000.0000.000
41A41TYR0-0.097-0.10617.2630.0150.0150.0000.0000.0000.000
42A42ALA00.0090.04122.7490.0190.0190.0000.0000.0000.000
43A43ILE0-0.052-0.08825.9130.0000.0000.0000.0000.0000.000
44A44ASN0-0.022-0.01027.5570.0040.0040.0000.0000.0000.000
45A45LYS10.8920.98830.6930.0780.0780.0000.0000.0000.000
46A46HIS00.0350.03631.260-0.003-0.0030.0000.0000.0000.000
47A47ASN00.0590.01528.3020.0010.0010.0000.0000.0000.000
48A48GLN0-0.030-0.02328.040-0.002-0.0020.0000.0000.0000.000
49A49VAL00.0190.00422.895-0.002-0.0020.0000.0000.0000.000
50A50ASP-1-0.874-0.94725.531-0.051-0.0510.0000.0000.0000.000
51A51ASP-1-0.861-0.94727.887-0.066-0.0660.0000.0000.0000.000
52A52TYR0-0.024-0.02431.0210.0050.0050.0000.0000.0000.000
53A53PRO00.0130.03332.640-0.002-0.0020.0000.0000.0000.000
54A54TYR00.0230.00133.2490.0000.0000.0000.0000.0000.000
55A55GLY0-0.049-0.02035.4650.0040.0040.0000.0000.0000.000
56A56GLY0-0.033-0.01237.2460.0020.0020.0000.0000.0000.000
57A57GLY00.012-0.00935.4660.0040.0040.0000.0000.0000.000
58A58GLN0-0.070-0.04135.494-0.002-0.0020.0000.0000.0000.000
59A59GLY00.0090.01431.678-0.002-0.0020.0000.0000.0000.000
60A60MET0-0.0630.00329.6370.0010.0010.0000.0000.0000.000
61A61VAL0-0.028-0.02327.1470.0080.0080.0000.0000.0000.000
62A62LEU0-0.0050.00720.384-0.010-0.0100.0000.0000.0000.000
63A63LYS10.8460.91225.0840.0990.0990.0000.0000.0000.000
64A64PRO00.0210.00523.375-0.009-0.0090.0000.0000.0000.000
65A65GLU-1-0.953-0.98122.561-0.121-0.1210.0000.0000.0000.000
66A66PRO0-0.0130.00022.362-0.016-0.0160.0000.0000.0000.000
67A67VAL00.0330.01217.472-0.029-0.0290.0000.0000.0000.000
68A68PHE0-0.010-0.01417.967-0.020-0.0200.0000.0000.0000.000
69A69ASN0-0.029-0.01518.904-0.020-0.0200.0000.0000.0000.000
70A70ALA00.0100.00716.166-0.027-0.0270.0000.0000.0000.000
71A71MET0-0.049-0.03413.227-0.076-0.0760.0000.0000.0000.000
72A72GLU-1-0.945-0.97014.669-0.345-0.3450.0000.0000.0000.000
73A73ASP-1-0.800-0.82516.306-0.496-0.4960.0000.0000.0000.000
74A74LEU0-0.102-0.03811.121-0.072-0.0720.0000.0000.0000.000
75A75ASP-1-0.970-0.98911.241-0.902-0.9020.0000.0000.0000.000
76A76VAL0-0.045-0.0209.910-0.079-0.0790.0000.0000.0000.000
77A77THR0-0.024-0.00710.2480.0980.0980.0000.0000.0000.000
78A78GLU-1-0.912-0.96611.353-0.062-0.0620.0000.0000.0000.000
79A79GLN0-0.061-0.0268.7220.0560.0560.0000.0000.0000.000
80A80ALA0-0.054-0.0147.057-0.049-0.0490.0000.0000.0000.000
81A81ARG10.7880.8776.838-0.445-0.4450.0000.0000.0000.000
82A82VAL00.0470.0418.468-0.044-0.0440.0000.0000.0000.000
83A83ILE00.015-0.0067.7330.0880.0880.0000.0000.0000.000
84A84LEU00.0170.02312.043-0.083-0.0830.0000.0000.0000.000
85A85MET0-0.087-0.03311.7800.0520.0520.0000.0000.0000.000
86A86OCS-1-0.815-0.91916.0860.0840.0840.0000.0000.0000.000
87A87PRO0-0.031-0.03219.3320.0220.0220.0000.0000.0000.000
88A88GLN0-0.066-0.03721.9340.0090.0090.0000.0000.0000.000
89A89GLY00.0660.05118.4890.0050.0050.0000.0000.0000.000
90A90GLU-1-0.933-0.98016.8700.3910.3910.0000.0000.0000.000
91A91PRO0-0.039-0.01016.8620.0200.0200.0000.0000.0000.000
92A92PHE00.0300.0098.9670.0330.0330.0000.0000.0000.000
93A93SER00.007-0.00813.608-0.021-0.0210.0000.0000.0000.000
94A94HIS00.0520.01512.7350.0710.0710.0000.0000.0000.000
95A95GLN0-0.021-0.00512.4300.1670.1670.0000.0000.0000.000
96A96LYS10.9580.99310.837-0.545-0.5450.0000.0000.0000.000
97A97ALA00.0340.0108.5670.1720.1720.0000.0000.0000.000
98A98VAL0-0.048-0.0347.7810.3740.3740.0000.0000.0000.000
99A99GLU-1-0.949-0.9748.8651.0671.0670.0000.0000.0000.000
100A100LEU00.0630.0155.720-0.0160.054-0.001-0.008-0.0620.000
101A101SER0-0.100-0.0374.1280.2621.0870.054-0.243-0.635-0.001
102A102LYS10.8920.9314.775-0.648-0.3440.010-0.046-0.2690.000
103A103ALA00.0080.0294.591-0.736-0.4220.001-0.076-0.2390.000
104A104ASP-1-0.866-0.9442.543-3.423-0.1642.241-1.963-3.537-0.026
105A105HIS0-0.116-0.0792.570-5.400-3.0972.701-2.060-2.945-0.027
106A106ILE0-0.0110.0133.2940.4531.1151.281-0.236-1.7070.001
107A107VAL00.0480.0275.599-0.488-0.4880.0000.0000.0000.000
108A108PHE0-0.002-0.0096.0180.2120.2120.0000.0000.0000.000
109A109ILE00.0320.00810.988-0.097-0.0970.0000.0000.0000.000
110A110CYS0-0.069-0.04113.1330.0470.0470.0000.0000.0000.000
111A111GLY00.0120.01215.6970.0220.0220.0000.0000.0000.000
112A112HIS0-0.023-0.01518.6010.0250.0250.0000.0000.0000.000
113A113TYR00.0190.01521.003-0.021-0.0210.0000.0000.0000.000
114A114GLU-1-0.915-0.96224.695-0.004-0.0040.0000.0000.0000.000
115A115GLY00.004-0.00126.2760.0100.0100.0000.0000.0000.000
116A116TYR00.0480.01620.285-0.009-0.0090.0000.0000.0000.000
117A117ASP-1-0.751-0.86124.350-0.029-0.0290.0000.0000.0000.000
118A118GLU-1-0.823-0.92723.9760.0420.0420.0000.0000.0000.000
119A119ARG10.7740.87023.9630.0510.0510.0000.0000.0000.000
120A120ILE00.0210.01918.930-0.007-0.0070.0000.0000.0000.000
121A121ARG10.7710.84719.315-0.082-0.0820.0000.0000.0000.000
122A122THR0-0.056-0.01919.9780.0070.0070.0000.0000.0000.000
123A123HIS0-0.086-0.06220.1420.0040.0040.0000.0000.0000.000
124A124LEU0-0.0050.01416.214-0.013-0.0130.0000.0000.0000.000
125A125VAL0-0.030-0.02314.877-0.001-0.0010.0000.0000.0000.000
126A126THR00.008-0.00211.682-0.008-0.0080.0000.0000.0000.000
127A127ASP-1-0.879-0.92311.0850.6610.6610.0000.0000.0000.000
128A128GLU-1-0.755-0.82213.9990.0950.0950.0000.0000.0000.000
129A129ILE0-0.082-0.04811.4460.0530.0530.0000.0000.0000.000
130A130SER00.0190.04215.514-0.037-0.0370.0000.0000.0000.000
131A131MET0-0.030-0.03514.4050.0550.0550.0000.0000.0000.000
132A132GLY0-0.018-0.02117.5130.0170.0170.0000.0000.0000.000
133A133ASP-1-0.960-0.96921.0420.1250.1250.0000.0000.0000.000
134A134TYR0-0.0220.00419.364-0.016-0.0160.0000.0000.0000.000
135A135VAL00.005-0.00123.0960.0060.0060.0000.0000.0000.000
136A136LEU0-0.019-0.02118.708-0.006-0.0060.0000.0000.0000.000
137A137THR0-0.025-0.01822.668-0.001-0.0010.0000.0000.0000.000
138A138GLY00.0490.02420.449-0.013-0.0130.0000.0000.0000.000
139A139GLY00.0300.01616.6760.0240.0240.0000.0000.0000.000
140A140GLU-1-0.832-0.93914.428-0.063-0.0630.0000.0000.0000.000
141A141LEU0-0.009-0.01213.6050.0080.0080.0000.0000.0000.000
142A142PRO00.0110.00313.5590.0240.0240.0000.0000.0000.000
143A143ALA00.1440.07510.4200.0670.0670.0000.0000.0000.000
144A144MET0-0.0280.0258.9900.0400.0400.0000.0000.0000.000
145A145THR0-0.058-0.0309.6100.0330.0330.0000.0000.0000.000
146A146MET0-0.012-0.0108.5400.0320.0320.0000.0000.0000.000
147A147THR0-0.0040.0204.4090.0710.157-0.001-0.006-0.0790.000
148A148ASP-1-0.950-0.9595.3460.4490.4490.0000.0000.0000.000
149A149ALA0-0.038-0.0297.6460.1240.1240.0000.0000.0000.000
150A150ILE00.0150.0132.823-0.4520.1120.144-0.113-0.5950.000
151A151VAL00.0530.0273.3840.0230.5800.043-0.117-0.4830.000
152A152ARG10.8590.9544.466-0.406-0.351-0.001-0.007-0.0470.000
153A153LEU0-0.062-0.0416.780-0.260-0.2600.0000.0000.0000.000
154A154ILE00.0360.0142.158-0.560-1.4413.954-0.581-2.4910.000
155A155PRO0-0.115-0.0506.466-0.468-0.4680.0000.0000.0000.000
156A156GLY0-0.0150.0058.986-0.118-0.1180.0000.0000.0000.000
157A170SER00.0240.00623.349-0.002-0.0020.0000.0000.0000.000
158A171ASP-1-0.856-0.92924.9710.1990.1990.0000.0000.0000.000
159A172GLY00.000-0.01027.635-0.011-0.0110.0000.0000.0000.000
160A173LEU0-0.031-0.01029.347-0.011-0.0110.0000.0000.0000.000
161A174LEU0-0.0030.00128.9570.0100.0100.0000.0000.0000.000
162A175GLU-1-0.917-0.95725.0840.1890.1890.0000.0000.0000.000
163A176PHE0-0.043-0.01729.688-0.011-0.0110.0000.0000.0000.000
164A177PRO0-0.036-0.01231.4210.0030.0030.0000.0000.0000.000
165A178GLN00.015-0.00227.458-0.009-0.0090.0000.0000.0000.000
166A179TYR00.0280.00032.859-0.003-0.0030.0000.0000.0000.000
167A180THR00.0200.01132.9880.0020.0020.0000.0000.0000.000
168A181ARG10.9020.97635.279-0.069-0.0690.0000.0000.0000.000
169A182PRO00.0570.01937.0720.0010.0010.0000.0000.0000.000
170A183ARG10.9710.97440.503-0.045-0.0450.0000.0000.0000.000
171A184GLU-1-0.897-0.94742.5330.0430.0430.0000.0000.0000.000
172A185PHE00.008-0.00239.468-0.003-0.0030.0000.0000.0000.000
173A186LYS10.9580.97942.798-0.035-0.0350.0000.0000.0000.000
174A187GLY00.0600.03345.3450.0000.0000.0000.0000.0000.000
175A188LEU0-0.067-0.02941.1850.0020.0020.0000.0000.0000.000
176A189THR00.0160.00042.877-0.001-0.0010.0000.0000.0000.000
177A190VAL0-0.054-0.01839.2600.0030.0030.0000.0000.0000.000
178A191PRO0-0.011-0.01039.858-0.003-0.0030.0000.0000.0000.000
179A192ASP-1-0.839-0.92242.5330.0580.0580.0000.0000.0000.000
180A193VAL0-0.0060.00341.3820.0000.0000.0000.0000.0000.000
181A194LEU0-0.0210.00637.3450.0020.0020.0000.0000.0000.000
182A195LEU0-0.050-0.03140.4590.0010.0010.0000.0000.0000.000
183A196SER0-0.053-0.04742.972-0.002-0.0020.0000.0000.0000.000
184A197GLY00.0140.01742.431-0.002-0.0020.0000.0000.0000.000
185A198ASN0-0.025-0.00343.4550.0050.0050.0000.0000.0000.000
186A199HIS00.0880.00838.3130.0050.0050.0000.0000.0000.000
187A200ALA00.0570.05840.0700.0040.0040.0000.0000.0000.000
188A201ASN00.016-0.01241.8860.0030.0030.0000.0000.0000.000
189A202ILE0-0.042-0.00937.4320.0010.0010.0000.0000.0000.000
190A203ASP-1-0.904-0.95236.5630.1220.1220.0000.0000.0000.000
191A204ALA0-0.0030.00237.9460.0040.0040.0000.0000.0000.000
192A205TRP00.0520.01737.2480.0030.0030.0000.0000.0000.000
193A206ARG10.9160.95133.942-0.116-0.1160.0000.0000.0000.000
194A207HIS0-0.014-0.00836.0170.0070.0070.0000.0000.0000.000
195A208GLU-1-0.896-0.95837.0520.0890.0890.0000.0000.0000.000
196A209GLN0-0.035-0.01836.7750.0010.0010.0000.0000.0000.000
197A210LYS10.8160.91229.930-0.170-0.1700.0000.0000.0000.000
198A211LEU00.0190.04334.8970.0020.0020.0000.0000.0000.000
199A212ILE0-0.003-0.00137.399-0.001-0.0010.0000.0000.0000.000
200A213ARG10.8660.93534.331-0.106-0.1060.0000.0000.0000.000
201A214THR00.022-0.00232.7660.0030.0030.0000.0000.0000.000
202A215TYR00.0170.00534.920-0.002-0.0020.0000.0000.0000.000
203A216ASN0-0.043-0.04438.378-0.004-0.0040.0000.0000.0000.000
204A217LYS10.8970.94633.807-0.106-0.1060.0000.0000.0000.000
205A218ARG10.8150.88227.356-0.165-0.1650.0000.0000.0000.000
206A219PRO00.0970.05033.8000.0060.0060.0000.0000.0000.000
207A220ASP-1-0.755-0.85631.3120.1560.1560.0000.0000.0000.000
208A221LEU0-0.046-0.04528.6690.0050.0050.0000.0000.0000.000
209A222ILE0-0.024-0.00432.7520.0020.0020.0000.0000.0000.000
210A223GLU-1-0.936-0.96436.1470.1120.1120.0000.0000.0000.000
211A224LYS10.8380.94430.002-0.181-0.1810.0000.0000.0000.000
212A225TYR00.0110.00732.8110.0120.0120.0000.0000.0000.000
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