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: LNM79

Calculation Name: 1ZZG-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1ZZG

Chain ID: A

ChEMBL ID:

UniProt ID: Q5SLL6

Base Structure: X-ray

Registration Date: 2023-09-20

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 415
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -7228788.683137
FMO2-HF: Nuclear repulsion 7069944.162656
FMO2-HF: Total energy -158844.520481
FMO2-MP2: Total energy -159317.669897


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.
-10.994-6.03312.977-7.313-10.625-0.037
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 : -0.031 / q_NPA : -0.032
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].
3A3ARG10.9090.9422.378-4.143-1.2882.212-2.216-2.851-0.020
4A4LEU0-0.0170.0004.5640.7490.864-0.001-0.019-0.0950.000
5A5ASP-1-0.826-0.8747.918-0.679-0.6790.0000.0000.0000.000
6A6THR00.0630.00610.8600.0580.0580.0000.0000.0000.000
7A7ARG10.8320.91412.5320.7840.7840.0000.0000.0000.000
8A8PHE00.0290.01916.0320.0550.0550.0000.0000.0000.000
9A9LEU0-0.047-0.02216.1210.0400.0400.0000.0000.0000.000
10A10PRO00.0410.01017.806-0.015-0.0150.0000.0000.0000.000
11A11GLY00.0110.00219.6990.0150.0150.0000.0000.0000.000
12A12PHE00.0040.00111.9720.0160.0160.0000.0000.0000.000
13A13PRO00.0480.01614.9650.0060.0060.0000.0000.0000.000
14A14GLU-1-0.820-0.89916.428-0.148-0.1480.0000.0000.0000.000
15A15ALA00.0300.02118.5990.0170.0170.0000.0000.0000.000
16A16LEU00.0150.01312.3180.0100.0100.0000.0000.0000.000
17A17SER0-0.007-0.00616.6040.0260.0260.0000.0000.0000.000
18A18ARG10.8510.92218.5680.1740.1740.0000.0000.0000.000
19A19HIS0-0.107-0.07419.0960.0260.0260.0000.0000.0000.000
20A20GLY00.0590.03717.620-0.004-0.0040.0000.0000.0000.000
21A21PRO00.017-0.01118.6570.0010.0010.0000.0000.0000.000
22A22LEU0-0.0100.00721.2000.0090.0090.0000.0000.0000.000
23A23LEU00.006-0.00414.9250.0040.0040.0000.0000.0000.000
24A24GLU-1-0.850-0.92415.928-0.117-0.1170.0000.0000.0000.000
25A25GLU-1-0.764-0.84818.405-0.034-0.0340.0000.0000.0000.000
26A26ALA0-0.023-0.00519.0380.0130.0130.0000.0000.0000.000
27A27ARG10.8410.89011.7090.1660.1660.0000.0000.0000.000
28A28ARG10.8210.88918.1160.0540.0540.0000.0000.0000.000
29A29ARG10.8410.90720.7720.0780.0780.0000.0000.0000.000
30A30LEU00.0150.02017.6120.0110.0110.0000.0000.0000.000
31A31LEU0-0.009-0.02116.3640.0190.0190.0000.0000.0000.000
32A32ALA0-0.055-0.02220.6290.0150.0150.0000.0000.0000.000
33A33LYS10.8360.90323.8590.0420.0420.0000.0000.0000.000
34A34ARG10.9340.98017.824-0.092-0.0920.0000.0000.0000.000
35A35GLY0-0.0250.00224.1650.0000.0000.0000.0000.0000.000
36A36GLU-1-0.938-0.97726.8610.0270.0270.0000.0000.0000.000
37A37PRO0-0.063-0.03828.8010.0000.0000.0000.0000.0000.000
38A38GLY0-0.016-0.01930.049-0.006-0.0060.0000.0000.0000.000
39A39SER0-0.0190.01025.973-0.006-0.0060.0000.0000.0000.000
40A40MET0-0.092-0.04925.733-0.005-0.0050.0000.0000.0000.000
41A41LEU00.0420.00721.171-0.005-0.0050.0000.0000.0000.000
42A42GLY00.0380.01420.8970.0120.0120.0000.0000.0000.000
43A43TRP0-0.026-0.01515.3620.0250.0250.0000.0000.0000.000
44A44MET0-0.032-0.00816.3860.0310.0310.0000.0000.0000.000
45A45ASP-1-0.846-0.94016.5040.1780.1780.0000.0000.0000.000
46A46LEU0-0.042-0.00817.9160.0170.0170.0000.0000.0000.000
47A47PRO0-0.029-0.01713.4650.0170.0170.0000.0000.0000.000
48A48GLU-1-0.920-0.97215.6300.4580.4580.0000.0000.0000.000
49A49ASP-1-0.817-0.82917.8520.1780.1780.0000.0000.0000.000
50A50THR0-0.059-0.05018.5010.0080.0080.0000.0000.0000.000
51A51GLU-1-0.972-0.98320.9180.1490.1490.0000.0000.0000.000
52A52THR00.030-0.04823.178-0.014-0.0140.0000.0000.0000.000
53A53LEU0-0.0070.00618.228-0.018-0.0180.0000.0000.0000.000
54A54ARG10.9250.96521.769-0.253-0.2530.0000.0000.0000.000
55A55GLU-1-0.895-0.93624.3600.1140.1140.0000.0000.0000.000
56A56VAL0-0.041-0.02223.802-0.015-0.0150.0000.0000.0000.000
57A57ARG10.8760.93118.434-0.308-0.3080.0000.0000.0000.000
58A58ARG10.8040.87524.874-0.185-0.1850.0000.0000.0000.000
59A59TYR00.0330.01728.796-0.013-0.0130.0000.0000.0000.000
60A60ARG10.9370.98526.221-0.126-0.1260.0000.0000.0000.000
61A61GLU-1-0.812-0.89026.2520.1510.1510.0000.0000.0000.000
62A62ALA0-0.0180.01229.894-0.008-0.0080.0000.0000.0000.000
63A63ASN0-0.069-0.05232.160-0.016-0.0160.0000.0000.0000.000
64A64PRO00.008-0.00531.9350.0000.0000.0000.0000.0000.000
65A65TRP0-0.042-0.02332.990-0.004-0.0040.0000.0000.0000.000
66A66VAL0-0.058-0.01731.545-0.005-0.0050.0000.0000.0000.000
67A67GLU-1-0.813-0.91332.1700.0430.0430.0000.0000.0000.000
68A68ASP-1-0.785-0.84032.2250.0300.0300.0000.0000.0000.000
69A69PHE00.0350.01628.4830.0030.0030.0000.0000.0000.000
70A70VAL0-0.029-0.02430.866-0.004-0.0040.0000.0000.0000.000
71A71LEU00.0090.00826.7460.0040.0040.0000.0000.0000.000
72A72ILE0-0.042-0.00430.939-0.008-0.0080.0000.0000.0000.000
73A73GLY00.0420.00330.7000.0050.0050.0000.0000.0000.000
74A74ILE00.0370.01530.450-0.003-0.0030.0000.0000.0000.000
75A75GLY00.0420.02728.0730.0030.0030.0000.0000.0000.000
76A76GLY00.0400.02024.9300.0030.0030.0000.0000.0000.000
77A77SER0-0.063-0.03524.8780.0100.0100.0000.0000.0000.000
78A78ALA0-0.010-0.00626.5730.0070.0070.0000.0000.0000.000
79A79LEU00.0170.00623.0380.0060.0060.0000.0000.0000.000
80A80GLY00.0230.02520.1350.0000.0000.0000.0000.0000.000
81A81PRO0-0.009-0.02320.1790.0160.0160.0000.0000.0000.000
82A82LYS10.9210.98221.7760.0150.0150.0000.0000.0000.000
83A83ALA0-0.023-0.01118.025-0.002-0.0020.0000.0000.0000.000
84A84LEU0-0.019-0.01115.2610.0120.0120.0000.0000.0000.000
85A85GLU-1-0.799-0.87818.0920.0740.0740.0000.0000.0000.000
86A86ALA0-0.0080.00120.387-0.002-0.0020.0000.0000.0000.000
87A87ALA0-0.012-0.00115.288-0.014-0.0140.0000.0000.0000.000
88A88PHE0-0.055-0.04412.0840.0330.0330.0000.0000.0000.000
89A89ASN0-0.063-0.03017.6110.0220.0220.0000.0000.0000.000
90A90GLU-1-0.890-0.94417.9570.1340.1340.0000.0000.0000.000
91A91SER0-0.122-0.08121.840-0.015-0.0150.0000.0000.0000.000
92A92GLY00.0430.02925.296-0.009-0.0090.0000.0000.0000.000
93A93VAL0-0.089-0.03727.072-0.009-0.0090.0000.0000.0000.000
94A94ARG10.8120.87727.614-0.034-0.0340.0000.0000.0000.000
95A95PHE00.0180.01625.5480.0020.0020.0000.0000.0000.000
96A96HIS10.7800.87229.043-0.035-0.0350.0000.0000.0000.000
97A97TYR0-0.006-0.04224.9490.0050.0050.0000.0000.0000.000
98A98LEU0-0.024-0.00731.000-0.006-0.0060.0000.0000.0000.000
99A99ASP-1-0.888-0.95030.283-0.003-0.0030.0000.0000.0000.000
100A100HIS0-0.002-0.00232.710-0.008-0.0080.0000.0000.0000.000
101A101VAL0-0.019-0.02436.1040.0040.0040.0000.0000.0000.000
102A102GLU-1-0.919-0.94139.339-0.020-0.0200.0000.0000.0000.000
103A103PRO00.018-0.01040.9710.0020.0020.0000.0000.0000.000
104A104GLU-1-0.859-0.93443.021-0.009-0.0090.0000.0000.0000.000
105A105PRO00.003-0.00237.8350.0030.0030.0000.0000.0000.000
106A106ILE00.0210.01038.7390.0040.0040.0000.0000.0000.000
107A107LEU0-0.002-0.00740.4110.0030.0030.0000.0000.0000.000
108A108ARG10.9450.97239.0930.0090.0090.0000.0000.0000.000
109A109LEU00.0090.01735.7470.0020.0020.0000.0000.0000.000
110A110LEU0-0.028-0.01439.7210.0020.0020.0000.0000.0000.000
111A111ARG10.9000.94842.7210.0000.0000.0000.0000.0000.000
112A112THR0-0.061-0.03240.0440.0000.0000.0000.0000.0000.000
113A113LEU0-0.0190.00736.1370.0010.0010.0000.0000.0000.000
114A114ASP-1-0.801-0.90039.6160.0270.0270.0000.0000.0000.000
115A115PRO00.007-0.00239.9860.0040.0040.0000.0000.0000.000
116A116ARG10.9580.96740.461-0.031-0.0310.0000.0000.0000.000
117A117LYS10.8860.95937.011-0.030-0.0300.0000.0000.0000.000
118A118THR00.009-0.00535.8890.0020.0020.0000.0000.0000.000
119A119LEU0-0.0380.00631.3570.0000.0000.0000.0000.0000.000
120A120VAL0-0.028-0.02033.814-0.001-0.0010.0000.0000.0000.000
121A121ASN00.0660.02628.6080.0010.0010.0000.0000.0000.000
122A122ALA0-0.0120.00732.299-0.004-0.0040.0000.0000.0000.000
123A123VAL00.0100.00027.7930.0050.0050.0000.0000.0000.000
124A124SER00.005-0.00131.238-0.008-0.0080.0000.0000.0000.000
125A125LYS10.8470.94327.819-0.048-0.0480.0000.0000.0000.000
126A126SER00.0190.00531.0530.0020.0020.0000.0000.0000.000
127A127GLY00.0700.03034.3390.0000.0000.0000.0000.0000.000
128A128SER0-0.013-0.03236.062-0.001-0.0010.0000.0000.0000.000
129A129THR0-0.046-0.01434.118-0.004-0.0040.0000.0000.0000.000
130A130ALA00.0420.01036.7640.0020.0020.0000.0000.0000.000
131A131GLU-1-0.832-0.92536.093-0.003-0.0030.0000.0000.0000.000
132A132THR00.0090.00034.3860.0010.0010.0000.0000.0000.000
133A133LEU0-0.0160.00336.7640.0030.0030.0000.0000.0000.000
134A134ALA0-0.0070.00640.0700.0010.0010.0000.0000.0000.000
135A135GLY00.0450.01438.6480.0000.0000.0000.0000.0000.000
136A136LEU00.007-0.00338.0700.0020.0020.0000.0000.0000.000
137A137ALA0-0.019-0.00239.9610.0010.0010.0000.0000.0000.000
138A138VAL0-0.022-0.01142.3970.0000.0000.0000.0000.0000.000
139A139PHE00.0520.00738.4050.0000.0000.0000.0000.0000.000
140A140LEU0-0.0010.01441.8280.0010.0010.0000.0000.0000.000
141A141LYS10.9220.96943.571-0.012-0.0120.0000.0000.0000.000
142A142TRP0-0.020-0.01139.9790.0010.0010.0000.0000.0000.000
143A143LEU00.0180.00139.6300.0000.0000.0000.0000.0000.000
144A144LYS10.9350.96643.998-0.025-0.0250.0000.0000.0000.000
145A145ALA0-0.044-0.01847.2320.0000.0000.0000.0000.0000.000
146A146HIS0-0.032-0.01145.835-0.002-0.0020.0000.0000.0000.000
147A147LEU0-0.026-0.00741.9390.0010.0010.0000.0000.0000.000
148A148GLY00.0090.02346.5100.0010.0010.0000.0000.0000.000
149A149GLU-1-0.911-0.98547.6700.0320.0320.0000.0000.0000.000
150A150ASP-1-0.941-0.96143.1440.0470.0470.0000.0000.0000.000
151A151TRP0-0.033-0.02142.3580.0030.0030.0000.0000.0000.000
152A152ARG10.8820.95141.444-0.035-0.0350.0000.0000.0000.000
153A153ARG10.9490.99237.074-0.060-0.0600.0000.0000.0000.000
154A154HIS10.7900.89137.509-0.041-0.0410.0000.0000.0000.000
155A155LEU0-0.0090.00936.564-0.002-0.0020.0000.0000.0000.000
156A156VAL0-0.047-0.00431.8400.0020.0020.0000.0000.0000.000
157A157VAL00.0170.00333.872-0.003-0.0030.0000.0000.0000.000
158A158THR00.0000.01627.4920.0110.0110.0000.0000.0000.000
159A159THR0-0.013-0.04330.870-0.008-0.0080.0000.0000.0000.000
160A160ASP-1-0.780-0.85931.3780.0620.0620.0000.0000.0000.000
161A161PRO0-0.061-0.03130.757-0.001-0.0010.0000.0000.0000.000
162A162LYS10.9230.93933.451-0.054-0.0540.0000.0000.0000.000
163A163GLU-1-0.927-0.94935.8320.0320.0320.0000.0000.0000.000
164A164GLY00.0290.00936.7240.0020.0020.0000.0000.0000.000
165A165PRO0-0.060-0.04038.6760.0020.0020.0000.0000.0000.000
166A166LEU00.0060.00534.8790.0010.0010.0000.0000.0000.000
167A167ARG10.9040.96732.803-0.064-0.0640.0000.0000.0000.000
168A168ALA00.0600.02837.9210.0010.0010.0000.0000.0000.000
169A169PHE0-0.050-0.03340.4840.0000.0000.0000.0000.0000.000
170A170ALA00.0280.00337.8710.0000.0000.0000.0000.0000.000
171A171GLU-1-0.930-0.95839.6630.0520.0520.0000.0000.0000.000
172A172ARG10.8750.94741.716-0.030-0.0300.0000.0000.0000.000
173A173GLU-1-0.912-0.97842.9120.0320.0320.0000.0000.0000.000
174A174GLY0-0.0020.02142.1490.0000.0000.0000.0000.0000.000
175A175LEU0-0.059-0.02838.3500.0010.0010.0000.0000.0000.000
176A176LYS10.9190.97731.484-0.098-0.0980.0000.0000.0000.000
177A177ALA00.014-0.01733.689-0.003-0.0030.0000.0000.0000.000
178A178PHE0-0.010-0.01428.2770.0050.0050.0000.0000.0000.000
179A179ALA00.027-0.00228.994-0.009-0.0090.0000.0000.0000.000
180A180ILE0-0.0250.01625.9820.0100.0100.0000.0000.0000.000
181A181PRO00.0410.00324.138-0.011-0.0110.0000.0000.0000.000
182A182LYS11.0521.01227.213-0.049-0.0490.0000.0000.0000.000
183A183GLU-1-0.799-0.89925.7270.0370.0370.0000.0000.0000.000
184A184VAL00.0080.03122.475-0.003-0.0030.0000.0000.0000.000
185A185GLY00.0590.03124.591-0.003-0.0030.0000.0000.0000.000
186A186GLY00.027-0.00424.3240.0070.0070.0000.0000.0000.000
187A187ARG10.7680.86623.0300.0490.0490.0000.0000.0000.000
188A188PHE00.0160.00919.108-0.003-0.0030.0000.0000.0000.000
189A189SER0-0.041-0.03220.3760.0260.0260.0000.0000.0000.000
190A190ALA00.0480.02217.8810.0120.0120.0000.0000.0000.000
191A191LEU00.0260.01413.7630.0150.0150.0000.0000.0000.000
192A192SER00.0150.02118.2810.0090.0090.0000.0000.0000.000
193A193PRO00.042-0.01021.8160.0080.0080.0000.0000.0000.000
194A194VAL0-0.040-0.01223.405-0.004-0.0040.0000.0000.0000.000
195A195GLY00.0240.01720.720-0.014-0.0140.0000.0000.0000.000
196A196LEU00.0060.00018.2070.0050.0050.0000.0000.0000.000
197A197LEU00.001-0.00421.4110.0010.0010.0000.0000.0000.000
198A198PRO0-0.039-0.01923.103-0.002-0.0020.0000.0000.0000.000
199A199LEU00.0750.02417.249-0.002-0.0020.0000.0000.0000.000
200A200ALA0-0.0010.01421.4080.0060.0060.0000.0000.0000.000
201A201PHE0-0.056-0.03923.120-0.005-0.0050.0000.0000.0000.000
202A202ALA00.0290.04021.538-0.014-0.0140.0000.0000.0000.000
203A203GLY0-0.041-0.00422.262-0.005-0.0050.0000.0000.0000.000
204A204ALA00.0480.04017.0570.0130.0130.0000.0000.0000.000
205A205ASP-1-0.890-0.96414.2700.5030.5030.0000.0000.0000.000
206A206LEU0-0.013-0.02714.8230.0750.0750.0000.0000.0000.000
207A207ASP-1-0.811-0.91015.3680.4260.4260.0000.0000.0000.000
208A208ALA00.0300.01610.7310.0980.0980.0000.0000.0000.000
209A209LEU0-0.024-0.00410.5090.2450.2450.0000.0000.0000.000
210A210LEU0-0.015-0.01411.6680.0850.0850.0000.0000.0000.000
211A211MET0-0.027-0.0029.192-0.019-0.0190.0000.0000.0000.000
212A212GLY00.0390.0227.1910.2100.2100.0000.0000.0000.000
213A213ALA0-0.013-0.0047.621-0.055-0.0550.0000.0000.0000.000
214A214ARG10.9340.96710.310-0.751-0.7510.0000.0000.0000.000
215A215LYS10.8730.9445.180-1.961-1.9610.0000.0000.0000.000
216A216ALA00.0250.0256.541-0.395-0.3950.0000.0000.0000.000
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