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: 2LJLR

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 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 233
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2554618.094549
FMO2-HF: Nuclear repulsion 2467317.026494
FMO2-HF: Total energy -87301.068056
FMO2-MP2: Total energy -87558.190544


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.
-19.155-11.3962.21-4.492-5.476-0.028
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 : 0.030 / 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].
3A528ALA00.0390.0083.226-0.9940.4700.017-0.648-0.8320.001
4A529ASP-1-0.851-0.9272.463-12.258-7.9402.118-2.963-3.473-0.036
5A530ARG10.9330.9583.250-7.385-5.5230.076-0.875-1.0640.007
6A531SER0-0.020-0.0025.2300.6650.780-0.001-0.006-0.1070.000
7A532ALA00.0300.0127.4460.3350.3350.0000.0000.0000.000
8A533ALA00.0180.0167.7630.2700.2700.0000.0000.0000.000
9A534LEU0-0.012-0.0089.4380.2300.2300.0000.0000.0000.000
10A535ALA0-0.008-0.00411.5030.1140.1140.0000.0000.0000.000
11A536GLU-1-0.908-0.95712.661-0.447-0.4470.0000.0000.0000.000
12A537ALA00.0140.00113.6520.0760.0760.0000.0000.0000.000
13A538GLU-1-0.924-0.97315.427-0.116-0.1160.0000.0000.0000.000
14A539ARG10.8790.95317.2190.3640.3640.0000.0000.0000.000
15A540LEU00.0380.01517.5720.0340.0340.0000.0000.0000.000
16A541LYS10.9391.00519.9370.1440.1440.0000.0000.0000.000
17A542ARG10.9090.92319.0710.2660.2660.0000.0000.0000.000
18A543ASP-1-0.896-0.93723.042-0.210-0.2100.0000.0000.0000.000
19A544PHE00.0060.01824.4130.0150.0150.0000.0000.0000.000
20A545VAL0-0.010-0.01925.7740.0140.0140.0000.0000.0000.000
21A546GLY00.0030.00127.3550.0110.0110.0000.0000.0000.000
22A547ASN0-0.018-0.01428.0890.0110.0110.0000.0000.0000.000
23A548VAL00.0600.02930.2480.0080.0080.0000.0000.0000.000
24A549SER0-0.013-0.00831.6700.0080.0080.0000.0000.0000.000
25A550TYR0-0.044-0.02033.3460.0060.0060.0000.0000.0000.000
26A551GLU-1-0.822-0.93035.159-0.077-0.0770.0000.0000.0000.000
27A552LEU0-0.032-0.00335.1150.0060.0060.0000.0000.0000.000
28A553ARG10.9270.94634.0090.0800.0800.0000.0000.0000.000
29A554THR00.0020.00638.7830.0030.0030.0000.0000.0000.000
30A555PRO0-0.019-0.00940.8560.0030.0030.0000.0000.0000.000
31A556LEU00.0340.01541.8310.0030.0030.0000.0000.0000.000
32A557THR0-0.013-0.00142.9250.0030.0030.0000.0000.0000.000
33A558THR0-0.028-0.01145.4890.0020.0020.0000.0000.0000.000
34A559ILE0-0.0010.00545.8800.0020.0020.0000.0000.0000.000
35A560ILE00.0160.02546.8610.0020.0020.0000.0000.0000.000
36A561GLY00.0470.02649.5110.0020.0020.0000.0000.0000.000
37A562TYR0-0.032-0.03151.4520.0020.0020.0000.0000.0000.000
38A563SER0-0.045-0.03751.8840.0020.0020.0000.0000.0000.000
39A564GLU-1-0.879-0.94052.081-0.027-0.0270.0000.0000.0000.000
40A565LEU0-0.112-0.06055.4280.0010.0010.0000.0000.0000.000
41A566LEU0-0.072-0.03956.6770.0010.0010.0000.0000.0000.000
42A567GLU-1-0.927-0.95656.889-0.019-0.0190.0000.0000.0000.000
43A568ARG10.8760.95956.3890.0270.0270.0000.0000.0000.000
44A569ALA0-0.042-0.02862.173-0.001-0.0010.0000.0000.0000.000
45A570ASP-1-0.899-0.93364.209-0.018-0.0180.0000.0000.0000.000
46A571GLY0-0.049-0.03067.425-0.001-0.0010.0000.0000.0000.000
47A572ILE00.0280.00564.6970.0000.0000.0000.0000.0000.000
48A573SER0-0.043-0.01965.251-0.001-0.0010.0000.0000.0000.000
49A574GLU-1-0.866-0.94565.068-0.026-0.0260.0000.0000.0000.000
50A575ARG10.9310.96961.6090.0240.0240.0000.0000.0000.000
51A576GLY00.0730.03661.467-0.001-0.0010.0000.0000.0000.000
52A577ARG10.9790.98860.5850.0230.0230.0000.0000.0000.000
53A578ASN00.0330.00959.212-0.001-0.0010.0000.0000.0000.000
54A579HIS0-0.013-0.00256.827-0.001-0.0010.0000.0000.0000.000
55A580VAL00.0440.02455.680-0.001-0.0010.0000.0000.0000.000
56A581ALA0-0.046-0.01655.286-0.001-0.0010.0000.0000.0000.000
57A582ALA00.0340.02752.812-0.001-0.0010.0000.0000.0000.000
58A583VAL0-0.0010.00251.348-0.002-0.0020.0000.0000.0000.000
59A584ARG10.8270.89350.5890.0340.0340.0000.0000.0000.000
60A585ALA00.0400.01850.458-0.001-0.0010.0000.0000.0000.000
61A586ALA0-0.033-0.01346.978-0.002-0.0020.0000.0000.0000.000
62A587ALA00.022-0.00245.801-0.002-0.0020.0000.0000.0000.000
63A588THR0-0.012-0.00245.9640.0000.0000.0000.0000.0000.000
64A589GLN0-0.027-0.02342.676-0.005-0.0050.0000.0000.0000.000
65A590LEU0-0.0070.00940.093-0.003-0.0030.0000.0000.0000.000
66A591ALA00.000-0.00541.024-0.002-0.0020.0000.0000.0000.000
67A592ARG10.9380.97241.7610.0470.0470.0000.0000.0000.000
68A593SER00.0310.03537.688-0.003-0.0030.0000.0000.0000.000
69A594ILE0-0.033-0.02837.018-0.003-0.0030.0000.0000.0000.000
70A595ASP-1-0.900-0.95037.132-0.041-0.0410.0000.0000.0000.000
71A596ASP-1-0.826-0.90036.514-0.066-0.0660.0000.0000.0000.000
72A597VAL0-0.061-0.03132.572-0.005-0.0050.0000.0000.0000.000
73A598LEU0-0.031-0.01032.768-0.002-0.0020.0000.0000.0000.000
74A599ASP-1-0.832-0.90834.413-0.047-0.0470.0000.0000.0000.000
75A600MET0-0.035-0.02431.040-0.001-0.0010.0000.0000.0000.000
76A601ALA0-0.0070.00329.680-0.005-0.0050.0000.0000.0000.000
77A602GLN00.0270.00830.2330.0020.0020.0000.0000.0000.000
78A603ILE0-0.010-0.00931.8080.0020.0020.0000.0000.0000.000
79A604ASP-1-0.825-0.87627.068-0.114-0.1140.0000.0000.0000.000
80A605ALA0-0.048-0.01327.589-0.005-0.0050.0000.0000.0000.000
81A606GLY0-0.036-0.01128.9230.0060.0060.0000.0000.0000.000
82A607GLU-1-0.997-1.00331.392-0.024-0.0240.0000.0000.0000.000
83A608MET0-0.062-0.01434.0480.0030.0030.0000.0000.0000.000
84A609ALA0-0.028-0.01336.767-0.003-0.0030.0000.0000.0000.000
85A610LEU0-0.048-0.03039.4310.0010.0010.0000.0000.0000.000
86A611GLU-1-0.970-0.98942.557-0.022-0.0220.0000.0000.0000.000
87A612ILE0-0.087-0.04444.4690.0000.0000.0000.0000.0000.000
88A613GLU-1-0.914-0.95447.963-0.024-0.0240.0000.0000.0000.000
89A614ASP-1-0.938-0.98851.724-0.027-0.0270.0000.0000.0000.000
90A615ILE0-0.016-0.00450.7820.0010.0010.0000.0000.0000.000
91A616ARG10.9300.97354.2910.0240.0240.0000.0000.0000.000
92A617VAL00.0490.01853.707-0.001-0.0010.0000.0000.0000.000
93A618SER00.0560.00555.727-0.001-0.0010.0000.0000.0000.000
94A619ASP-1-0.912-0.95456.487-0.029-0.0290.0000.0000.0000.000
95A620LEU00.0390.02850.384-0.001-0.0010.0000.0000.0000.000
96A621LEU0-0.040-0.02753.359-0.001-0.0010.0000.0000.0000.000
97A622LEU00.000-0.00255.192-0.001-0.0010.0000.0000.0000.000
98A623ASN0-0.040-0.02454.7060.0000.0000.0000.0000.0000.000
99A624ALA00.002-0.00151.6410.0000.0000.0000.0000.0000.000
100A625GLN0-0.046-0.02253.2290.0000.0000.0000.0000.0000.000
101A626GLU-1-0.914-0.96256.080-0.028-0.0280.0000.0000.0000.000
102A627ARG10.8010.88850.2730.0380.0380.0000.0000.0000.000
103A628ALA00.0310.02551.9950.0000.0000.0000.0000.0000.000
104A629LEU00.0040.00353.671-0.001-0.0010.0000.0000.0000.000
105A630LYS10.9550.96256.2800.0270.0270.0000.0000.0000.000
106A631ASP-1-0.783-0.89051.407-0.039-0.0390.0000.0000.0000.000
107A632ALA00.0060.01654.170-0.001-0.0010.0000.0000.0000.000
108A633GLN0-0.027-0.01355.8440.0000.0000.0000.0000.0000.000
109A634LEU0-0.061-0.01953.5900.0010.0010.0000.0000.0000.000
110A635GLY00.0080.00754.8070.0000.0000.0000.0000.0000.000
111A636GLY0-0.007-0.00255.716-0.001-0.0010.0000.0000.0000.000
112A637VAL0-0.032-0.00754.4290.0000.0000.0000.0000.0000.000
113A638THR0-0.045-0.01957.7340.0020.0020.0000.0000.0000.000
114A639LEU00.0260.01053.831-0.001-0.0010.0000.0000.0000.000
115A640ALA0-0.038-0.01457.6050.0020.0020.0000.0000.0000.000
116A641VAL00.0130.00157.238-0.002-0.0020.0000.0000.0000.000
117A642GLU-1-0.961-0.97958.320-0.037-0.0370.0000.0000.0000.000
118A643CYS0-0.063-0.04257.973-0.002-0.0020.0000.0000.0000.000
119A644GLU-1-0.902-0.92559.807-0.030-0.0300.0000.0000.0000.000
120A645GLU-1-0.923-0.97561.499-0.027-0.0270.0000.0000.0000.000
121A646ASP-1-0.970-0.98461.947-0.031-0.0310.0000.0000.0000.000
122A647VAL0-0.006-0.00356.473-0.001-0.0010.0000.0000.0000.000
123A648GLY0-0.010-0.00658.0430.0000.0000.0000.0000.0000.000
124A649LEU0-0.045-0.03656.8000.0000.0000.0000.0000.0000.000
125A650ILE0-0.002-0.00249.9810.0000.0000.0000.0000.0000.000
126A651ARG10.9360.97049.6720.0300.0300.0000.0000.0000.000
127A652GLY0-0.011-0.00747.362-0.002-0.0020.0000.0000.0000.000
128A653ASP-1-0.732-0.85244.671-0.034-0.0340.0000.0000.0000.000
129A654GLY00.1040.03546.978-0.002-0.0020.0000.0000.0000.000
130A655LYS10.9420.98343.0760.0330.0330.0000.0000.0000.000
131A656ARG10.9140.95640.3740.0410.0410.0000.0000.0000.000
132A657LEU00.0460.02544.320-0.004-0.0040.0000.0000.0000.000
133A658ALA0-0.011-0.00146.669-0.002-0.0020.0000.0000.0000.000
134A659GLN00.006-0.01740.6870.0000.0000.0000.0000.0000.000
135A660THR0-0.010-0.00243.230-0.004-0.0040.0000.0000.0000.000
136A661LEU00.020-0.00144.336-0.003-0.0030.0000.0000.0000.000
137A662ASP-1-0.816-0.88346.516-0.042-0.0420.0000.0000.0000.000
138A663HIS10.6910.82040.6250.0590.0590.0000.0000.0000.000
139A664LEU0-0.0030.00043.423-0.003-0.0030.0000.0000.0000.000
140A665VAL00.0580.02745.806-0.001-0.0010.0000.0000.0000.000
141A666GLU-1-0.879-0.95246.015-0.047-0.0470.0000.0000.0000.000
142A667ASN0-0.090-0.04542.999-0.004-0.0040.0000.0000.0000.000
143A668ALA00.0310.02745.265-0.001-0.0010.0000.0000.0000.000
144A669LEU0-0.015-0.00748.5350.0000.0000.0000.0000.0000.000
145A670ARG10.9380.98243.1240.0640.0640.0000.0000.0000.000
146A671GLN00.0200.01045.180-0.005-0.0050.0000.0000.0000.000
147A672THR00.002-0.01748.3250.0000.0000.0000.0000.0000.000
148A673PRO0-0.050-0.00452.1750.0000.0000.0000.0000.0000.000
149A674PRO00.0270.01054.4800.0010.0010.0000.0000.0000.000
150A675GLY0-0.038-0.02657.7890.0000.0000.0000.0000.0000.000
151A676GLY0-0.041-0.00756.7780.0000.0000.0000.0000.0000.000
152A677ARG10.9490.94856.8570.0400.0400.0000.0000.0000.000
153A678VAL00.0240.01252.076-0.002-0.0020.0000.0000.0000.000
154A679THR0-0.023-0.01454.2740.0030.0030.0000.0000.0000.000
155A680LEU0-0.0120.00752.645-0.002-0.0020.0000.0000.0000.000
156A681SER00.0230.00953.7400.0020.0020.0000.0000.0000.000
157A682ALA00.0350.00953.522-0.002-0.0020.0000.0000.0000.000
158A683ARG10.9700.98753.7170.0470.0470.0000.0000.0000.000
159A684ARG10.8920.95354.3330.0330.0330.0000.0000.0000.000
160A685ALA0-0.021-0.02354.6980.0010.0010.0000.0000.0000.000
161A686LEU0-0.047-0.03052.745-0.001-0.0010.0000.0000.0000.000
162A687GLY00.0340.03052.196-0.002-0.0020.0000.0000.0000.000
163A688GLU-1-0.868-0.92548.456-0.057-0.0570.0000.0000.0000.000
164A689VAL00.003-0.00450.5470.0020.0020.0000.0000.0000.000
165A690ARG10.8270.93049.6690.0530.0530.0000.0000.0000.000
166A691LEU00.0120.00048.3110.0020.0020.0000.0000.0000.000
167A692ASP-1-0.821-0.92548.968-0.056-0.0560.0000.0000.0000.000
168A693VAL0-0.014-0.01348.4760.0030.0030.0000.0000.0000.000
169A694SER0-0.0060.00649.407-0.002-0.0020.0000.0000.0000.000
170A695ASP-1-0.835-0.93648.925-0.059-0.0590.0000.0000.0000.000
171A696THR0-0.0130.00152.351-0.001-0.0010.0000.0000.0000.000
172A697GLY00.000-0.01251.0550.0010.0010.0000.0000.0000.000
173A698ARG10.8020.89743.8090.0770.0770.0000.0000.0000.000
174A699GLY00.0140.02247.467-0.001-0.0010.0000.0000.0000.000
175A700VAL0-0.013-0.02141.011-0.002-0.0020.0000.0000.0000.000
176A701PRO0-0.023-0.00840.5370.0000.0000.0000.0000.0000.000
177A702PHE00.0600.00738.135-0.004-0.0040.0000.0000.0000.000
178A703HIS00.0160.00635.994-0.001-0.0010.0000.0000.0000.000
179A704VAL0-0.017-0.01835.703-0.007-0.0070.0000.0000.0000.000
180A705GLN0-0.045-0.02637.074-0.001-0.0010.0000.0000.0000.000
181A706ALA0-0.0110.00234.6140.0020.0020.0000.0000.0000.000
182A707HIS0-0.051-0.01230.103-0.003-0.0030.0000.0000.0000.000
183A708ILE0-0.0070.00334.0580.0010.0010.0000.0000.0000.000
184A709PHE0-0.024-0.02735.4890.0040.0040.0000.0000.0000.000
185A710ASP-1-0.874-0.93030.490-0.155-0.1550.0000.0000.0000.000
186A711ARG10.7710.83328.1230.1320.1320.0000.0000.0000.000
187A712PHE0-0.075-0.04029.218-0.010-0.0100.0000.0000.0000.000
188A713VAL00.0120.04031.664-0.008-0.0080.0000.0000.0000.000
189A714GLY00.012-0.01233.1830.0090.0090.0000.0000.0000.000
190A715ARG10.8270.90234.8640.0890.0890.0000.0000.0000.000
191A716ASP-1-0.795-0.86038.672-0.084-0.0840.0000.0000.0000.000
192A717ARG10.8400.92741.1640.0630.0630.0000.0000.0000.000
193A718GLY00.0420.00641.9170.0040.0040.0000.0000.0000.000
194A719GLY0-0.0250.00038.204-0.002-0.0020.0000.0000.0000.000
195A720PRO0-0.0010.00337.2550.0050.0050.0000.0000.0000.000
196A721GLY00.0400.02735.1720.0030.0030.0000.0000.0000.000
197A722LEU00.0360.00431.058-0.008-0.0080.0000.0000.0000.000
198A723GLY00.0430.02535.0770.0010.0010.0000.0000.0000.000
199A724LEU0-0.016-0.01837.7060.0030.0030.0000.0000.0000.000
200A725ALA00.0150.01832.9640.0000.0000.0000.0000.0000.000
201A726LEU00.0130.00835.0550.0000.0000.0000.0000.0000.000
202A727VAL0-0.025-0.00836.9380.0030.0030.0000.0000.0000.000
203A728LYS10.9280.96833.3200.1180.1180.0000.0000.0000.000
204A729ALA00.0310.01934.2270.0010.0010.0000.0000.0000.000
205A730LEU00.0180.00436.0170.0040.0040.0000.0000.0000.000
206A731VAL0-0.0120.00139.4020.0040.0040.0000.0000.0000.000
207A732GLU-1-0.938-0.97534.968-0.096-0.0960.0000.0000.0000.000
208A733LEU0-0.036-0.00435.9010.0010.0010.0000.0000.0000.000
209A734HIS0-0.067-0.04138.7760.0070.0070.0000.0000.0000.000
210A735GLY0-0.0230.00240.7000.0030.0030.0000.0000.0000.000
211A736GLY0-0.003-0.00441.6740.0000.0000.0000.0000.0000.000
212A737TRP0-0.004-0.00540.106-0.005-0.0050.0000.0000.0000.000
213A738VAL0-0.0090.00039.2110.0040.0040.0000.0000.0000.000
214A739ALA0-0.027-0.01940.834-0.005-0.0050.0000.0000.0000.000
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