Manual

About

FMODB

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

Last updated: 2024-04-05

All entries: 36946

Number of unique PDB entries: 7781

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FMODB ID: PLN49

Calculation Name: 3CO1-A-Xray22

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3CO1

Chain ID: A

ChEMBL ID:

UniProt ID: Q9UPY8

Base Structure: X-ray

Registration Date: 2018-06-07

Reference:

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
Protonation MOE:Protonate 3D
Complement Missing residues were capped by ACE, NME. Missing atoms were corrected by Structure prepareation by MOE.
Water Apo structure with with a 3 angstrom solvent shell.
Procedure Auto-FMO protocol ver. 1.20180227
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 223
LigandCharge
Software MIZUHO/ABINIT-MP 3.0
Total energy (hartree)
FMO2-HF: Electronic energy -1533104.759966
FMO2-HF: Nuclear repulsion 1471567.771739
FMO2-HF: Total energy -61536.988227
FMO2-MP2: Total energy -61711.291298


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:GLY)


Summations of interaction energy for fragment #1(A:-1:GLY)
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.
0.3632.3391.034-1.494-1.516-0.008
Interaction energy analysis for fragmet #1(A:-1:GLY)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.029 / q_NPA : 0.009
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].
3A1MET00.0120.0153.796-0.7480.132-0.006-0.370-0.5040.001
4A2ALA00.0290.0286.6520.3640.3640.0000.0000.0000.000
5A3VAL0-0.0050.0189.3150.0650.0650.0000.0000.0000.000
6A4ASN00.0360.02712.3170.0450.0450.0000.0000.0000.000
7A5VAL00.0110.02515.3340.0420.0420.0000.0000.0000.000
8A6TYR0-0.035-0.05218.0730.0010.0010.0000.0000.0000.000
9A7SER0-0.021-0.03521.9000.0090.0090.0000.0000.0000.000
10A8THR00.0100.00224.7170.0090.0090.0000.0000.0000.000
11A9SER0-0.019-0.00819.8760.0090.0090.0000.0000.0000.000
12A10VAL00.0300.01122.8210.0110.0110.0000.0000.0000.000
13A11THR0-0.034-0.01021.407-0.021-0.0210.0000.0000.0000.000
14A12SER00.0240.02423.4050.0180.0180.0000.0000.0000.000
15A13GLU-1-0.919-0.94625.425-0.109-0.1090.0000.0000.0000.000
16A14ASN00.012-0.00927.266-0.014-0.0140.0000.0000.0000.000
17A15LEU00.0470.03625.4820.0090.0090.0000.0000.0000.000
18A16SER00.007-0.00329.061-0.005-0.0050.0000.0000.0000.000
19A17ARG10.9370.94830.4540.0790.0790.0000.0000.0000.000
20A18HIS00.0080.01830.849-0.002-0.0020.0000.0000.0000.000
21A19ASP-1-0.727-0.85429.060-0.077-0.0770.0000.0000.0000.000
22A20MET0-0.0240.01524.911-0.006-0.0060.0000.0000.0000.000
23A21LEU0-0.033-0.02826.109-0.007-0.0070.0000.0000.0000.000
24A22ALA00.0290.02927.4400.0000.0000.0000.0000.0000.000
25A23TRP00.0720.04318.478-0.001-0.0010.0000.0000.0000.000
26A24VAL0-0.032-0.01822.682-0.006-0.0060.0000.0000.0000.000
27A25ASN0-0.023-0.01623.342-0.007-0.0070.0000.0000.0000.000
28A26ASP-1-0.789-0.88224.423-0.063-0.0630.0000.0000.0000.000
29A27SER0-0.078-0.01619.3070.0050.0050.0000.0000.0000.000
30A28LEU0-0.053-0.03217.982-0.001-0.0010.0000.0000.0000.000
31A29HIS00.0070.02621.4400.0040.0040.0000.0000.0000.000
32A30LEU0-0.085-0.03123.3160.0010.0010.0000.0000.0000.000
33A31ASN00.0310.01226.6540.0070.0070.0000.0000.0000.000
34A32TYR0-0.041-0.03325.523-0.002-0.0020.0000.0000.0000.000
35A33THR00.0300.00430.1570.0030.0030.0000.0000.0000.000
36A34LYS10.9180.95732.2370.0800.0800.0000.0000.0000.000
37A35ILE00.0450.02628.388-0.004-0.0040.0000.0000.0000.000
38A36GLU-1-0.837-0.91629.037-0.107-0.1070.0000.0000.0000.000
39A37GLN0-0.0140.00929.282-0.001-0.0010.0000.0000.0000.000
40A38LEU00.0450.02923.502-0.003-0.0030.0000.0000.0000.000
41A39CYS0-0.073-0.02625.281-0.014-0.0140.0000.0000.0000.000
42A40SER0-0.013-0.01826.190-0.009-0.0090.0000.0000.0000.000
43A41GLY00.0240.01022.748-0.003-0.0030.0000.0000.0000.000
44A42ALA0-0.027-0.01520.973-0.024-0.0240.0000.0000.0000.000
45A43ALA00.0450.02320.136-0.014-0.0140.0000.0000.0000.000
46A44TYR00.013-0.02618.546-0.015-0.0150.0000.0000.0000.000
47A45CYS0-0.058-0.02316.341-0.049-0.0490.0000.0000.0000.000
48A46GLN00.008-0.02015.144-0.033-0.0330.0000.0000.0000.000
49A47PHE00.0530.02014.959-0.010-0.0100.0000.0000.0000.000
50A48MET0-0.018-0.00411.024-0.019-0.0190.0000.0000.0000.000
51A49ASP-1-0.802-0.88910.494-0.400-0.4000.0000.0000.0000.000
52A50MET0-0.0080.01410.6060.0050.0050.0000.0000.0000.000
53A51LEU0-0.0070.0099.8900.0430.0430.0000.0000.0000.000
54A52PHE00.012-0.0145.714-0.054-0.0540.0000.0000.0000.000
55A53PRO00.0550.0396.593-0.070-0.0700.0000.0000.0000.000
56A54GLY00.0400.0346.784-0.073-0.0730.0000.0000.0000.000
57A55CYS0-0.097-0.0287.562-0.027-0.0270.0000.0000.0000.000
58A56VAL00.0350.0269.0780.0540.0540.0000.0000.0000.000
59A57HIS0-0.034-0.02312.7860.0760.0760.0000.0000.0000.000
60A58LEU00.0820.02115.0120.0240.0240.0000.0000.0000.000
61A59ARG10.9961.00417.3930.1540.1540.0000.0000.0000.000
62A60LYS10.9020.96419.1780.2600.2600.0000.0000.0000.000
63A61VAL00.0090.02318.7410.0030.0030.0000.0000.0000.000
64A62LYS10.9340.97921.7050.1440.1440.0000.0000.0000.000
65A63PHE00.0930.03019.971-0.005-0.0050.0000.0000.0000.000
66A64GLN0-0.042-0.01025.6090.0040.0040.0000.0000.0000.000
67A65ALA0-0.037-0.00627.7090.0050.0050.0000.0000.0000.000
68A66LYS10.9550.95529.6010.0740.0740.0000.0000.0000.000
69A67LEU00.0040.01232.4010.0030.0030.0000.0000.0000.000
70A68GLU-1-0.801-0.90831.469-0.125-0.1250.0000.0000.0000.000
71A69HIS00.0400.01530.397-0.011-0.0110.0000.0000.0000.000
72A70GLU-1-0.872-0.94428.659-0.114-0.1140.0000.0000.0000.000
73A71TYR00.0290.02526.826-0.011-0.0110.0000.0000.0000.000
74A72ILE0-0.009-0.00425.654-0.019-0.0190.0000.0000.0000.000
75A73HIS0-0.079-0.03423.612-0.015-0.0150.0000.0000.0000.000
76A74ASN00.0380.00222.131-0.023-0.0230.0000.0000.0000.000
77A75PHE00.0420.01220.768-0.030-0.0300.0000.0000.0000.000
78A76LYS10.9140.98020.7900.1950.1950.0000.0000.0000.000
79A77VAL00.0250.02317.216-0.035-0.0350.0000.0000.0000.000
80A78LEU00.0450.02515.859-0.054-0.0540.0000.0000.0000.000
81A79GLN00.0190.06216.078-0.026-0.0260.0000.0000.0000.000
82A80ALA0-0.025-0.01315.765-0.046-0.0460.0000.0000.0000.000
83A81ALA00.0380.01912.203-0.086-0.0860.0000.0000.0000.000
84A82PHE00.026-0.00411.562-0.149-0.1490.0000.0000.0000.000
85A83LYS10.9410.98712.8750.3660.3660.0000.0000.0000.000
86A84LYS10.8280.9227.9780.9360.9360.0000.0000.0000.000
87A85MET0-0.0030.0124.964-0.234-0.2340.0000.0000.0000.000
88A86GLY00.0470.0399.108-0.092-0.0920.0000.0000.0000.000
89A87VAL0-0.0080.00411.7990.0870.0870.0000.0000.0000.000
90A88ASP-1-0.812-0.89713.965-0.403-0.4030.0000.0000.0000.000
91A89LYS10.9020.96417.4750.3230.3230.0000.0000.0000.000
92A90ILE00.0130.01119.530-0.015-0.0150.0000.0000.0000.000
93A91ILE00.0470.02418.5520.0220.0220.0000.0000.0000.000
94A92PRO0-0.0170.01822.7280.0110.0110.0000.0000.0000.000
95A93VAL00.022-0.01423.9260.0160.0160.0000.0000.0000.000
96A94GLU-1-0.950-0.97826.482-0.137-0.1370.0000.0000.0000.000
97A95LYS10.9190.96029.8350.1460.1460.0000.0000.0000.000
98A96LEU00.0040.01624.7730.0100.0100.0000.0000.0000.000
99A97VAL00.0080.00627.6680.0090.0090.0000.0000.0000.000
100A98LYS10.8540.93029.9450.1220.1220.0000.0000.0000.000
101A99GLY00.0170.01331.7730.0070.0070.0000.0000.0000.000
102A100LYS10.9390.98832.7820.1250.1250.0000.0000.0000.000
103A101PHE00.0680.02432.322-0.008-0.0080.0000.0000.0000.000
104A102GLN00.0140.01032.133-0.002-0.0020.0000.0000.0000.000
105A103ASP-1-0.832-0.92629.873-0.142-0.1420.0000.0000.0000.000
106A104ASN0-0.014-0.01027.878-0.024-0.0240.0000.0000.0000.000
107A105PHE00.0040.00627.366-0.010-0.0100.0000.0000.0000.000
108A106GLU-1-0.922-0.96527.791-0.151-0.1510.0000.0000.0000.000
109A107PHE00.0030.00420.067-0.013-0.0130.0000.0000.0000.000
110A108ILE00.0450.01822.167-0.019-0.0190.0000.0000.0000.000
111A109GLN0-0.021-0.00623.174-0.012-0.0120.0000.0000.0000.000
112A110TRP00.0190.01716.9260.0060.0060.0000.0000.0000.000
113A111PHE0-0.004-0.01115.589-0.022-0.0220.0000.0000.0000.000
114A112LYS10.8270.90618.3420.1390.1390.0000.0000.0000.000
115A113LYS10.8430.92619.3390.1740.1740.0000.0000.0000.000
116A114PHE0-0.023-0.01611.983-0.023-0.0230.0000.0000.0000.000
117A115PHE00.019-0.00114.727-0.062-0.0620.0000.0000.0000.000
118A116ASP-1-0.714-0.82614.758-0.206-0.2060.0000.0000.0000.000
119A117ALA0-0.0360.00515.3140.0190.0190.0000.0000.0000.000
120A118ASN00.0100.00310.481-0.227-0.2270.0000.0000.0000.000
121A119TYR0-0.0220.00610.458-0.052-0.0520.0000.0000.0000.000
122A120ASP-1-0.757-0.8569.1190.0130.0130.0000.0000.0000.000
123A121GLY00.0360.01711.9220.0730.0730.0000.0000.0000.000
124A122LYS10.7520.9058.2960.2110.2110.0000.0000.0000.000
125A123ASP-1-0.831-0.91513.3960.0090.0090.0000.0000.0000.000
126A124TYR0-0.066-0.03113.796-0.008-0.0080.0000.0000.0000.000
127A125ASN00.0440.01716.250-0.010-0.0100.0000.0000.0000.000
128A126PRO00.0380.01818.369-0.012-0.0120.0000.0000.0000.000
129A127LEU0-0.028-0.03020.243-0.009-0.0090.0000.0000.0000.000
130A128LEU0-0.0310.00616.9420.0020.0020.0000.0000.0000.000
131A129ALA0-0.047-0.01617.742-0.005-0.0050.0000.0000.0000.000
132A130ARG00.0210.04719.3490.0290.0290.0000.0000.0000.000
133A131HOH0-0.021-0.01822.923-0.008-0.0080.0000.0000.0000.000
134A132HOH0-0.008-0.01724.1510.0020.0020.0000.0000.0000.000
135A133HOH0-0.020-0.02314.6860.0210.0210.0000.0000.0000.000
136A137HOH00.0230.00424.637-0.008-0.0080.0000.0000.0000.000
137A138HOH0-0.023-0.01827.322-0.001-0.0010.0000.0000.0000.000
138A139HOH0-0.024-0.02216.5440.0040.0040.0000.0000.0000.000
139A140HOH0-0.014-0.00425.846-0.007-0.0070.0000.0000.0000.000
140A141HOH0-0.040-0.02322.685-0.005-0.0050.0000.0000.0000.000
141A142HOH0-0.046-0.02617.033-0.008-0.0080.0000.0000.0000.000
142A143HOH00.0300.01924.004-0.003-0.0030.0000.0000.0000.000
143A144HOH0-0.022-0.01812.5150.0430.0430.0000.0000.0000.000
144A145HOH0-0.036-0.02713.1540.0420.0420.0000.0000.0000.000
145A147HOH00.0150.01224.607-0.003-0.0030.0000.0000.0000.000
146A148HOH0-0.025-0.0238.7380.0730.0730.0000.0000.0000.000
147A149HOH0-0.020-0.03020.7180.0100.0100.0000.0000.0000.000
148A151HOH0-0.021-0.01415.4530.0120.0120.0000.0000.0000.000
149A152HOH0-0.021-0.01618.7490.0150.0150.0000.0000.0000.000
150A153HOH0-0.005-0.02616.895-0.003-0.0030.0000.0000.0000.000
151A156HOH00.0230.01324.7110.0010.0010.0000.0000.0000.000
152A158HOH0-0.012-0.00831.541-0.001-0.0010.0000.0000.0000.000
153A159HOH0-0.001-0.01132.834-0.002-0.0020.0000.0000.0000.000
154A160HOH0-0.020-0.0242.651-1.103-0.6921.016-0.739-0.687-0.008
155A162HOH00.000-0.01226.255-0.003-0.0030.0000.0000.0000.000
156A164HOH0-0.059-0.04511.687-0.024-0.0240.0000.0000.0000.000
157A167HOH0-0.0030.00919.0790.0040.0040.0000.0000.0000.000
158A168HOH0-0.009-0.00717.6850.0210.0210.0000.0000.0000.000
159A169HOH0-0.046-0.03922.484-0.003-0.0030.0000.0000.0000.000
160A170HOH00.0200.0148.3060.0210.0210.0000.0000.0000.000
161A172HOH0-0.003-0.00631.452-0.002-0.0020.0000.0000.0000.000
162A173HOH0-0.049-0.03013.3860.0240.0240.0000.0000.0000.000
163A174HOH00.0340.02025.699-0.002-0.0020.0000.0000.0000.000
164A175HOH0-0.039-0.02419.6820.0040.0040.0000.0000.0000.000
165A177HOH0-0.053-0.03510.2270.0880.0880.0000.0000.0000.000
166A179HOH0-0.031-0.01824.102-0.004-0.0040.0000.0000.0000.000
167A180HOH00.0020.00527.640-0.001-0.0010.0000.0000.0000.000
168A182HOH0-0.030-0.01831.9510.0010.0010.0000.0000.0000.000
169A183HOH0-0.030-0.02531.4970.0000.0000.0000.0000.0000.000
170A186HOH00.0310.02014.261-0.013-0.0130.0000.0000.0000.000
171A187HOH00.001-0.01423.1530.0060.0060.0000.0000.0000.000
172A188HOH0-0.015-0.01529.6310.0000.0000.0000.0000.0000.000
173A189HOH00.0400.02414.6640.0000.0000.0000.0000.0000.000
174A190HOH00.0060.01315.033-0.002-0.0020.0000.0000.0000.000
175A191HOH00.0380.02826.981-0.003-0.0030.0000.0000.0000.000
176A192HOH0-0.040-0.03717.2630.0080.0080.0000.0000.0000.000
177A193HOH0-0.0040.00814.7090.0110.0110.0000.0000.0000.000
178A195HOH0-0.0010.00430.0120.0020.0020.0000.0000.0000.000
179A196HOH0-0.035-0.02914.2770.0020.0020.0000.0000.0000.000
180A198HOH0-0.051-0.04912.9310.0170.0170.0000.0000.0000.000
181A199HOH0-0.040-0.04417.6260.0060.0060.0000.0000.0000.000
182A200HOH0-0.003-0.01125.4270.0040.0040.0000.0000.0000.000
183A202HOH00.009-0.00517.3690.0000.0000.0000.0000.0000.000
184A204HOH0-0.023-0.02327.673-0.006-0.0060.0000.0000.0000.000
185A206HOH0-0.001-0.00232.3210.0010.0010.0000.0000.0000.000
186A207HOH0-0.060-0.04328.0860.0010.0010.0000.0000.0000.000
187A209HOH0-0.046-0.02711.092-0.048-0.0480.0000.0000.0000.000
188A210HOH00.0190.01214.1980.0060.0060.0000.0000.0000.000
189A211HOH0-0.019-0.01630.0140.0010.0010.0000.0000.0000.000
190A212HOH00.0380.04625.942-0.003-0.0030.0000.0000.0000.000
191A213HOH0-0.026-0.02628.6480.0020.0020.0000.0000.0000.000
192A214HOH0-0.069-0.0599.1760.0500.0500.0000.0000.0000.000
193A215HOH00.0130.01215.353-0.023-0.0230.0000.0000.0000.000
194A216HOH0-0.043-0.0288.8110.0990.0990.0000.0000.0000.000
195A218HOH0-0.042-0.03221.679-0.005-0.0050.0000.0000.0000.000
196A220HOH0-0.059-0.0677.9840.0920.0920.0000.0000.0000.000
197A228HOH00.0210.01234.1700.0030.0030.0000.0000.0000.000
198A231HOH0-0.024-0.01734.9210.0030.0030.0000.0000.0000.000
199A233HOH0-0.040-0.03924.3710.0020.0020.0000.0000.0000.000
200A234HOH00.0330.03229.324-0.006-0.0060.0000.0000.0000.000
201A235HOH0-0.014-0.00223.9280.0030.0030.0000.0000.0000.000
202A236HOH0-0.016-0.01222.6360.0040.0040.0000.0000.0000.000
203A237HOH00.007-0.00319.231-0.007-0.0070.0000.0000.0000.000
204A238HOH0-0.017-0.01222.382-0.004-0.0040.0000.0000.0000.000
205A239HOH0-0.004-0.0087.136-0.326-0.3260.0000.0000.0000.000
206A241HOH00.0170.02525.509-0.008-0.0080.0000.0000.0000.000
207A243HOH00.0290.02022.9420.0000.0000.0000.0000.0000.000
208A248HOH00.0070.00634.3040.0010.0010.0000.0000.0000.000
209A249HOH0-0.039-0.02032.5950.0010.0010.0000.0000.0000.000
210A250HOH0-0.031-0.02315.7810.0060.0060.0000.0000.0000.000
211A251HOH00.0050.00731.021-0.001-0.0010.0000.0000.0000.000
212A252HOH0-0.003-0.00326.2000.0050.0050.0000.0000.0000.000
213A254HOH0-0.036-0.02027.9480.0000.0000.0000.0000.0000.000
214A259HOH0-0.031-0.04034.053-0.002-0.0020.0000.0000.0000.000
215A262HOH0-0.056-0.0477.3640.0690.0690.0000.0000.0000.000
216A263HOH00.0290.03034.049-0.001-0.0010.0000.0000.0000.000
217A265HOH00.0310.01424.066-0.006-0.0060.0000.0000.0000.000
218A269HOH0-0.075-0.05022.7550.0050.0050.0000.0000.0000.000
219A270HOH0-0.020-0.04920.8640.0090.0090.0000.0000.0000.000
220A272HOH00.0080.00723.0600.0020.0020.0000.0000.0000.000
221A273HOH00.0040.0085.8960.3370.3370.0000.0000.0000.000
222A279HOH0-0.038-0.04423.7220.0030.0030.0000.0000.0000.000
223A280HOH0-0.037-0.0332.8530.8561.5410.024-0.385-0.325-0.001