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: ZN6NN

Calculation Name: 4Q20-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4Q20

Chain ID: A

ChEMBL ID:

UniProt ID: Q9RQQ9

Base Structure: X-ray

Registration Date: 2023-09-26

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 OptAll
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 233
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2568994.573107
FMO2-HF: Nuclear repulsion 2481691.626434
FMO2-HF: Total energy -87302.946673
FMO2-MP2: Total energy -87560.132107


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:526:ALA)


Summations of interaction energy for fragment #1(A:526:ALA)
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.
-34.547-36.0217.348-8.112-7.7630.014
Interaction energy analysis for fragmet #1(A:526:ALA)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.039 / q_NPA : 0.029
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].
3A528ALA00.0370.0193.496-0.2311.223-0.003-0.654-0.7970.000
4A529ASP-1-0.837-0.9212.447-10.494-8.0351.969-2.024-2.404-0.026
5A530ARG10.9030.9282.016-25.240-30.62615.382-5.434-4.5620.040
6A531SER0-0.0150.0025.5970.5840.5840.0000.0000.0000.000
7A532ALA00.0320.0128.1170.3000.3000.0000.0000.0000.000
8A533ALA00.0090.0078.0760.2470.2470.0000.0000.0000.000
9A534LEU0-0.024-0.0149.6200.1900.1900.0000.0000.0000.000
10A535ALA0-0.0040.00011.6300.0720.0720.0000.0000.0000.000
11A536GLU-1-0.829-0.90913.020-0.312-0.3120.0000.0000.0000.000
12A537ALA00.0250.01413.7990.0620.0620.0000.0000.0000.000
13A538GLU-1-0.810-0.88115.565-0.051-0.0510.0000.0000.0000.000
14A539ARG10.7710.86717.2900.2870.2870.0000.0000.0000.000
15A540LEU00.0410.01818.2460.0260.0260.0000.0000.0000.000
16A541LYS10.8620.93019.8470.0530.0530.0000.0000.0000.000
17A542ARG10.8130.87519.0830.1760.1760.0000.0000.0000.000
18A543ASP-1-0.820-0.88823.121-0.174-0.1740.0000.0000.0000.000
19A544PHE00.0160.01924.5400.0100.0100.0000.0000.0000.000
20A545VAL00.001-0.00725.8010.0090.0090.0000.0000.0000.000
21A546GLY0-0.006-0.00427.4390.0070.0070.0000.0000.0000.000
22A547ASN0-0.036-0.02928.2740.0060.0060.0000.0000.0000.000
23A548VAL00.0750.03930.5110.0050.0050.0000.0000.0000.000
24A549SER0-0.0050.00631.7690.0050.0050.0000.0000.0000.000
25A550TYR0-0.037-0.02033.5500.0030.0030.0000.0000.0000.000
26A551GLU-1-0.808-0.90235.005-0.044-0.0440.0000.0000.0000.000
27A552LEU0-0.0040.00335.0350.0040.0040.0000.0000.0000.000
28A553ARG10.9160.93633.7970.0460.0460.0000.0000.0000.000
29A554THR0-0.0030.01539.0340.0010.0010.0000.0000.0000.000
30A555PRO00.0230.01341.0200.0010.0010.0000.0000.0000.000
31A556LEU00.0140.01341.4890.0020.0020.0000.0000.0000.000
32A557THR0-0.019-0.02642.8290.0020.0020.0000.0000.0000.000
33A558THR0-0.031-0.01245.4020.0000.0000.0000.0000.0000.000
34A559ILE0-0.024-0.00945.8390.0010.0010.0000.0000.0000.000
35A560ILE00.0180.03147.0550.0020.0020.0000.0000.0000.000
36A561GLY00.0380.02949.6220.0010.0010.0000.0000.0000.000
37A562TYR0-0.009-0.02151.5760.0010.0010.0000.0000.0000.000
38A563SER0-0.040-0.04051.9310.0010.0010.0000.0000.0000.000
39A564GLU-1-0.794-0.88252.291-0.012-0.0120.0000.0000.0000.000
40A565LEU0-0.054-0.02755.5250.0010.0010.0000.0000.0000.000
41A566LEU0-0.065-0.03856.8220.0000.0000.0000.0000.0000.000
42A567GLU-1-0.917-0.94357.240-0.005-0.0050.0000.0000.0000.000
43A568ARG10.7730.87455.8400.0120.0120.0000.0000.0000.000
44A569ALA0-0.0170.00262.348-0.001-0.0010.0000.0000.0000.000
45A570ASP-1-0.867-0.93464.115-0.008-0.0080.0000.0000.0000.000
46A571GLY0-0.0210.00367.4140.0000.0000.0000.0000.0000.000
47A572ILE0-0.015-0.02364.5870.0000.0000.0000.0000.0000.000
48A573SER0-0.005-0.00365.322-0.001-0.0010.0000.0000.0000.000
49A574GLU-1-0.749-0.85464.990-0.014-0.0140.0000.0000.0000.000
50A575ARG10.8480.93361.8050.0120.0120.0000.0000.0000.000
51A576GLY00.0610.03761.498-0.001-0.0010.0000.0000.0000.000
52A577ARG10.8390.88560.6540.0120.0120.0000.0000.0000.000
53A578ASN0-0.009-0.01959.467-0.001-0.0010.0000.0000.0000.000
54A579HIS00.0070.00756.979-0.001-0.0010.0000.0000.0000.000
55A580VAL00.0280.01155.8480.0000.0000.0000.0000.0000.000
56A581ALA0-0.028-0.01155.5280.0000.0000.0000.0000.0000.000
57A582ALA00.0670.03553.161-0.001-0.0010.0000.0000.0000.000
58A583VAL0-0.008-0.00451.385-0.001-0.0010.0000.0000.0000.000
59A584ARG10.7740.85250.5800.0170.0170.0000.0000.0000.000
60A585ALA00.0270.03450.6220.0000.0000.0000.0000.0000.000
61A586ALA0-0.017-0.00247.062-0.001-0.0010.0000.0000.0000.000
62A587ALA00.015-0.00546.0100.0000.0000.0000.0000.0000.000
63A588THR0-0.014-0.02546.3100.0020.0020.0000.0000.0000.000
64A589GLN0-0.042-0.02143.176-0.002-0.0020.0000.0000.0000.000
65A590LEU0-0.006-0.00440.555-0.001-0.0010.0000.0000.0000.000
66A591ALA0-0.013-0.00641.4030.0010.0010.0000.0000.0000.000
67A592ARG10.9250.96041.9280.0230.0230.0000.0000.0000.000
68A593SER00.020-0.00337.8940.0000.0000.0000.0000.0000.000
69A594ILE0-0.063-0.03337.1620.0000.0000.0000.0000.0000.000
70A595ASP-1-0.893-0.94737.525-0.003-0.0030.0000.0000.0000.000
71A596ASP-1-0.837-0.90736.656-0.029-0.0290.0000.0000.0000.000
72A597VAL0-0.058-0.04132.638-0.002-0.0020.0000.0000.0000.000
73A598LEU0-0.0260.00132.8400.0030.0030.0000.0000.0000.000
74A599ASP-1-0.720-0.85734.444-0.002-0.0020.0000.0000.0000.000
75A600MET0-0.048-0.01531.028-0.005-0.0050.0000.0000.0000.000
76A601ALA00.0140.00829.791-0.001-0.0010.0000.0000.0000.000
77A602GLN00.0350.01830.3450.0030.0030.0000.0000.0000.000
78A603ILE0-0.010-0.01231.6720.0020.0020.0000.0000.0000.000
79A604ASP-1-0.826-0.86826.919-0.044-0.0440.0000.0000.0000.000
80A605ALA0-0.052-0.02127.4330.0020.0020.0000.0000.0000.000
81A606GLY0-0.038-0.01828.8420.0070.0070.0000.0000.0000.000
82A607GLU-1-0.966-0.98531.3580.0390.0390.0000.0000.0000.000
83A608MET0-0.098-0.02934.012-0.001-0.0010.0000.0000.0000.000
84A609ALA0-0.0030.00336.616-0.004-0.0040.0000.0000.0000.000
85A610LEU0-0.030-0.02139.199-0.002-0.0020.0000.0000.0000.000
86A611GLU-1-0.968-0.98642.3980.0090.0090.0000.0000.0000.000
87A612ILE0-0.072-0.03743.998-0.002-0.0020.0000.0000.0000.000
88A613GLU-1-0.872-0.93447.605-0.001-0.0010.0000.0000.0000.000
89A614ASP-1-0.857-0.91751.322-0.008-0.0080.0000.0000.0000.000
90A615ILE0-0.0160.00450.7880.0010.0010.0000.0000.0000.000
91A616ARG10.8610.90854.1380.0080.0080.0000.0000.0000.000
92A617VAL00.0260.00553.8130.0000.0000.0000.0000.0000.000
93A618SER00.0570.01455.6720.0000.0000.0000.0000.0000.000
94A619ASP-1-0.841-0.91357.516-0.012-0.0120.0000.0000.0000.000
95A620LEU00.0400.03550.3750.0000.0000.0000.0000.0000.000
96A621LEU0-0.021-0.01452.810-0.001-0.0010.0000.0000.0000.000
97A622LEU00.0080.00755.0210.0000.0000.0000.0000.0000.000
98A623ASN0-0.042-0.04154.5380.0000.0000.0000.0000.0000.000
99A624ALA0-0.003-0.00651.4380.0000.0000.0000.0000.0000.000
100A625GLN0-0.054-0.02552.9820.0000.0000.0000.0000.0000.000
101A626GLU-1-0.913-0.95855.801-0.011-0.0110.0000.0000.0000.000
102A627ARG10.8000.87350.4380.0160.0160.0000.0000.0000.000
103A628ALA00.0100.01551.6930.0000.0000.0000.0000.0000.000
104A629LEU00.0010.01253.536-0.001-0.0010.0000.0000.0000.000
105A630LYS10.9680.97056.2100.0100.0100.0000.0000.0000.000
106A631ASP-1-0.770-0.85352.140-0.020-0.0200.0000.0000.0000.000
107A632ALA00.0380.02454.256-0.002-0.0020.0000.0000.0000.000
108A633GLN0-0.032-0.02155.7470.0000.0000.0000.0000.0000.000
109A634LEU0-0.051-0.01853.8090.0000.0000.0000.0000.0000.000
110A635GLY00.0010.00754.811-0.001-0.0010.0000.0000.0000.000
111A636GLY0-0.006-0.00455.600-0.001-0.0010.0000.0000.0000.000
112A637VAL0-0.053-0.02154.611-0.001-0.0010.0000.0000.0000.000
113A638THR0-0.029-0.02057.9010.0020.0020.0000.0000.0000.000
114A639LEU00.0080.00553.927-0.001-0.0010.0000.0000.0000.000
115A640ALA0-0.056-0.01757.4420.0020.0020.0000.0000.0000.000
116A641VAL00.0190.00856.836-0.001-0.0010.0000.0000.0000.000
117A642GLU-1-0.831-0.88158.148-0.027-0.0270.0000.0000.0000.000
118A643CYS0-0.039-0.03257.822-0.001-0.0010.0000.0000.0000.000
119A644GLU-1-0.896-0.92059.728-0.021-0.0210.0000.0000.0000.000
120A645GLU-1-0.903-0.96561.313-0.016-0.0160.0000.0000.0000.000
121A646ASP-1-0.965-0.98061.211-0.020-0.0200.0000.0000.0000.000
122A647VAL00.0230.00356.3440.0000.0000.0000.0000.0000.000
123A648GLY0-0.0100.01557.5750.0000.0000.0000.0000.0000.000
124A649LEU0-0.043-0.02656.4680.0000.0000.0000.0000.0000.000
125A650ILE00.0060.01350.026-0.001-0.0010.0000.0000.0000.000
126A651ARG10.8020.87750.2520.0080.0080.0000.0000.0000.000
127A652GLY00.005-0.00647.095-0.002-0.0020.0000.0000.0000.000
128A653ASP-1-0.785-0.88044.215-0.003-0.0030.0000.0000.0000.000
129A654GLY00.0930.03346.713-0.002-0.0020.0000.0000.0000.000
130A655LYS10.8470.93441.9770.0040.0040.0000.0000.0000.000
131A656ARG10.8260.89039.6390.0030.0030.0000.0000.0000.000
132A657LEU00.0360.03444.193-0.004-0.0040.0000.0000.0000.000
133A658ALA00.0030.00046.755-0.002-0.0020.0000.0000.0000.000
134A659GLN0-0.008-0.00740.6210.0000.0000.0000.0000.0000.000
135A660THR0-0.013-0.01342.827-0.004-0.0040.0000.0000.0000.000
136A661LEU00.0220.00644.241-0.003-0.0030.0000.0000.0000.000
137A662ASP-1-0.798-0.86846.705-0.021-0.0210.0000.0000.0000.000
138A663HIS10.7420.84540.6450.0290.0290.0000.0000.0000.000
139A664LEU00.0160.01543.588-0.003-0.0030.0000.0000.0000.000
140A665VAL00.0370.01745.865-0.002-0.0020.0000.0000.0000.000
141A666GLU-1-0.804-0.88945.607-0.030-0.0300.0000.0000.0000.000
142A667ASN0-0.036-0.00942.995-0.003-0.0030.0000.0000.0000.000
143A668ALA00.0310.02345.414-0.002-0.0020.0000.0000.0000.000
144A669LEU0-0.021-0.00548.6560.0000.0000.0000.0000.0000.000
145A670ARG10.8600.91742.9730.0390.0390.0000.0000.0000.000
146A671GLN0-0.032-0.01244.667-0.006-0.0060.0000.0000.0000.000
147A672THR0-0.013-0.02348.447-0.001-0.0010.0000.0000.0000.000
148A673PRO0-0.0450.00152.2910.0000.0000.0000.0000.0000.000
149A674PRO00.0340.01754.7660.0010.0010.0000.0000.0000.000
150A675GLY0-0.034-0.02657.841-0.001-0.0010.0000.0000.0000.000
151A676GLY0-0.0200.00457.0180.0000.0000.0000.0000.0000.000
152A677ARG10.8120.86356.9320.0300.0300.0000.0000.0000.000
153A678VAL00.0080.00352.026-0.002-0.0020.0000.0000.0000.000
154A679THR0-0.026-0.02654.5330.0020.0020.0000.0000.0000.000
155A680LEU0-0.0070.00852.452-0.002-0.0020.0000.0000.0000.000
156A681SER0-0.007-0.01553.6180.0010.0010.0000.0000.0000.000
157A682ALA00.012-0.00353.512-0.001-0.0010.0000.0000.0000.000
158A683ARG10.9240.95653.5910.0360.0360.0000.0000.0000.000
159A684ARG10.8260.90354.2690.0190.0190.0000.0000.0000.000
160A685ALA0-0.007-0.01954.6270.0000.0000.0000.0000.0000.000
161A686LEU0-0.050-0.03252.665-0.001-0.0010.0000.0000.0000.000
162A687GLY00.0440.04552.175-0.001-0.0010.0000.0000.0000.000
163A688GLU-1-0.845-0.90248.372-0.040-0.0400.0000.0000.0000.000
164A689VAL00.0260.01250.8180.0010.0010.0000.0000.0000.000
165A690ARG10.7940.87949.6020.0400.0400.0000.0000.0000.000
166A691LEU00.0190.00448.5440.0020.0020.0000.0000.0000.000
167A692ASP-1-0.759-0.83348.973-0.043-0.0430.0000.0000.0000.000
168A693VAL00.002-0.00548.5380.0030.0030.0000.0000.0000.000
169A694SER00.002-0.00449.340-0.003-0.0030.0000.0000.0000.000
170A695ASP-1-0.764-0.88448.640-0.046-0.0460.0000.0000.0000.000
171A696THR00.0150.00852.098-0.001-0.0010.0000.0000.0000.000
172A697GLY00.007-0.00750.7490.0010.0010.0000.0000.0000.000
173A698ARG10.7980.88844.2900.0660.0660.0000.0000.0000.000
174A699GLY00.0180.02547.828-0.001-0.0010.0000.0000.0000.000
175A700VAL0-0.014-0.01241.253-0.002-0.0020.0000.0000.0000.000
176A701PRO0-0.0140.00041.111-0.001-0.0010.0000.0000.0000.000
177A702PHE00.0490.00839.146-0.004-0.0040.0000.0000.0000.000
178A703HIS0-0.002-0.00536.3080.0000.0000.0000.0000.0000.000
179A704VAL0-0.003-0.00935.875-0.007-0.0070.0000.0000.0000.000
180A705GLN0-0.054-0.03337.4110.0010.0010.0000.0000.0000.000
181A706ALA0-0.028-0.01534.9460.0030.0030.0000.0000.0000.000
182A707HIS0-0.033-0.01330.267-0.008-0.0080.0000.0000.0000.000
183A708ILE0-0.0190.00034.5730.0020.0020.0000.0000.0000.000
184A709PHE0-0.006-0.01335.7030.0050.0050.0000.0000.0000.000
185A710ASP-1-0.865-0.91930.669-0.118-0.1180.0000.0000.0000.000
186A711ARG10.7520.81428.2840.0680.0680.0000.0000.0000.000
187A712PHE0-0.040-0.02028.505-0.008-0.0080.0000.0000.0000.000
188A713VAL0-0.0130.02632.691-0.006-0.0060.0000.0000.0000.000
189A714GLY00.019-0.00133.5870.0070.0070.0000.0000.0000.000
190A715ARG10.8380.89535.3370.0710.0710.0000.0000.0000.000
191A716ASP-1-0.788-0.86639.157-0.070-0.0700.0000.0000.0000.000
192A717ARG10.8120.90741.5840.0480.0480.0000.0000.0000.000
193A718GLY00.0250.00842.1220.0050.0050.0000.0000.0000.000
194A719GLY0-0.0240.00038.480-0.002-0.0020.0000.0000.0000.000
195A720PRO00.0080.00536.8740.0050.0050.0000.0000.0000.000
196A721GLY00.0230.01235.6440.0040.0040.0000.0000.0000.000
197A722LEU00.025-0.00230.911-0.007-0.0070.0000.0000.0000.000
198A723GLY00.0340.03034.8590.0000.0000.0000.0000.0000.000
199A724LEU0-0.006-0.01237.8700.0030.0030.0000.0000.0000.000
200A725ALA00.0180.01632.950-0.001-0.0010.0000.0000.0000.000
201A726LEU0-0.019-0.00435.0830.0010.0010.0000.0000.0000.000
202A727VAL0-0.019-0.01036.7650.0030.0030.0000.0000.0000.000
203A728LYS10.8880.95332.7200.0870.0870.0000.0000.0000.000
204A729ALA00.0150.01234.1950.0020.0020.0000.0000.0000.000
205A730LEU00.0260.00436.0010.0040.0040.0000.0000.0000.000
206A731VAL0-0.0140.00639.3290.0030.0030.0000.0000.0000.000
207A732GLU-1-0.883-0.96135.031-0.066-0.0660.0000.0000.0000.000
208A733LEU0-0.039-0.00735.9070.0010.0010.0000.0000.0000.000
209A734HIS0-0.036-0.02338.3210.0070.0070.0000.0000.0000.000
210A735GLY0-0.035-0.00640.1830.0010.0010.0000.0000.0000.000
211A736GLY0-0.0010.00141.194-0.001-0.0010.0000.0000.0000.000
212A737TRP0-0.016-0.01940.151-0.005-0.0050.0000.0000.0000.000
213A738VAL00.0140.00938.9830.0030.0030.0000.0000.0000.000
214A739ALA0-0.044-0.02640.960-0.005-0.0050.0000.0000.0000.000
215A740LEU0-0.006-0.00641.6240.0030.0030.0000.0000.0000.000
216A741GLU-1-0.926-0.95143.883-0.053-0.0530.0000.0000.0000.000
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