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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: XN3QQ

Calculation Name: 2GZQ-A-Xray13

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2GZQ

Chain ID: A

ChEMBL ID:

UniProt ID: A5K000

Base Structure: X-ray

Registration Date: 2018-03-01

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 No
Procedure Auto-FMO protocol ver. 1.20181228
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 192
LigandCharge
Software MIZUHO/ABINIT-MP 3.0
Total energy (hartree)
FMO2-HF: Electronic energy -2264301.498929
FMO2-HF: Nuclear repulsion 2187216.942667
FMO2-HF: Total energy -77084.556262
FMO2-MP2: Total energy -77307.308614


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:ACE)


Summations of interaction energy for fragment #1(A:1:ACE)
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.
0.6941.636.055-3.794-3.198-0.012
Interaction energy analysis for fragmet #1(A:1:ACE)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.004 / q_NPA : -0.024
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].
3A3GLY00.0420.0443.2960.5331.8100.001-0.606-0.6720.000
4A4PRO00.013-0.0084.176-0.587-0.5650.004-0.0930.0680.000
5A5PRO0-0.058-0.0295.308-0.348-0.3480.0000.0000.0000.000
6A6THR00.0730.0557.3600.1820.1820.0000.0000.0000.000
7A7ILE00.0590.01110.7340.0410.0410.0000.0000.0000.000
8A8GLU-1-0.939-0.96913.226-0.383-0.3830.0000.0000.0000.000
9A9GLU-1-0.774-0.8737.192-1.049-1.0490.0000.0000.0000.000
10A10LEU0-0.014-0.0199.8360.0680.0680.0000.0000.0000.000
11A11LYS10.8620.91412.9310.1560.1560.0000.0000.0000.000
12A12ARG10.8460.93610.4460.4280.4280.0000.0000.0000.000
13A13GLU-1-0.890-0.93811.878-0.148-0.1480.0000.0000.0000.000
14A14LYS10.8850.93115.1130.1190.1190.0000.0000.0000.000
15A15ILE00.0160.01411.7730.0250.0250.0000.0000.0000.000
16A16ILE00.0220.06715.5500.0190.0190.0000.0000.0000.000
17A17PRO0-0.028-0.03917.709-0.016-0.0160.0000.0000.0000.000
18A18HIS0-0.063-0.04318.8040.0140.0140.0000.0000.0000.000
19A19VAL0-0.017-0.00215.3570.0110.0110.0000.0000.0000.000
20A20PHE00.0250.01012.8850.0140.0140.0000.0000.0000.000
21A21PRO00.009-0.00718.462-0.017-0.0170.0000.0000.0000.000
22A22ASP-1-0.882-0.94320.606-0.026-0.0260.0000.0000.0000.000
23A23GLU-1-0.888-0.93418.311-0.081-0.0810.0000.0000.0000.000
24A24ASN0-0.034-0.00718.495-0.023-0.0230.0000.0000.0000.000
25A25VAL0-0.041-0.01414.7870.0130.0130.0000.0000.0000.000
26A26ASP-1-0.814-0.90216.044-0.050-0.0500.0000.0000.0000.000
27A27LEU0-0.077-0.04010.2510.0420.0420.0000.0000.0000.000
28A28THR00.0460.01411.308-0.056-0.0560.0000.0000.0000.000
29A29VAL0-0.0250.00910.1030.0000.0000.0000.0000.0000.000
30A30ASP-1-0.898-0.9653.7420.7871.4670.015-0.360-0.336-0.002
31A31MET0-0.030-0.0165.430-0.191-0.1910.0000.0000.0000.000
32A32TYR0-0.044-0.0045.3510.4810.4810.0000.0000.0000.000
33A33ILE00.024-0.0026.200-0.622-0.6220.0000.0000.0000.000
34A34SER00.0350.0248.5070.0290.0290.0000.0000.0000.000
35A35PHE0-0.015-0.02610.882-0.098-0.0980.0000.0000.0000.000
36A36LYS10.8740.94113.631-0.317-0.3170.0000.0000.0000.000
37A37SER00.0160.01513.4860.0540.0540.0000.0000.0000.000
38A38GLY00.0780.04012.172-0.041-0.0410.0000.0000.0000.000
39A39LYS10.7840.89611.993-0.299-0.2990.0000.0000.0000.000
40A40GLU-1-0.828-0.9206.6900.9810.9810.0000.0000.0000.000
41A41VAL0-0.069-0.0267.066-0.236-0.2360.0000.0000.0000.000
42A42ASN0-0.003-0.0152.5242.7981.7164.418-1.976-1.361-0.011
43A43HIS10.8690.9292.511-0.038-0.1271.616-0.714-0.8130.001
44A44GLY0-0.0020.0075.586-0.191-0.1910.0000.0000.0000.000
45A45ASN00.0360.0327.931-0.006-0.0060.0000.0000.0000.000
46A46ILE0-0.011-0.0129.7130.0550.0550.0000.0000.0000.000
47A47LEU0-0.011-0.00110.6860.0060.0060.0000.0000.0000.000
48A48ASP-1-0.912-0.95513.9070.0910.0910.0000.0000.0000.000
49A49LEU00.0440.00717.0660.0270.0270.0000.0000.0000.000
50A50ALA00.0200.03519.3070.0100.0100.0000.0000.0000.000
51A51GLY0-0.008-0.02218.7750.0180.0180.0000.0000.0000.000
52A52THR00.002-0.02516.0700.0210.0210.0000.0000.0000.000
53A53GLY00.0130.01718.3490.0020.0020.0000.0000.0000.000
54A54SER0-0.035-0.01520.096-0.016-0.0160.0000.0000.0000.000
55A55VAL00.0300.02717.5920.0200.0200.0000.0000.0000.000
56A56PRO0-0.011-0.00313.124-0.012-0.0120.0000.0000.0000.000
57A57ARG10.9470.98615.293-0.282-0.2820.0000.0000.0000.000
58A58ASN0-0.011-0.01412.923-0.063-0.0630.0000.0000.0000.000
59A59ILE00.0180.01410.4180.1070.1070.0000.0000.0000.000
60A60LYS10.9190.9658.921-0.641-0.6410.0000.0000.0000.000
61A61PHE00.0300.0148.5070.2450.2450.0000.0000.0000.000
62A62SER00.0100.0037.922-0.040-0.0400.0000.0000.0000.000
63A63GLU-1-0.976-0.9879.7690.0370.0370.0000.0000.0000.000
64A64GLU-1-0.959-0.97113.4460.2040.2040.0000.0000.0000.000
65A65PRO0-0.058-0.00116.521-0.011-0.0110.0000.0000.0000.000
66A66PRO00.0400.00718.263-0.009-0.0090.0000.0000.0000.000
67A67GLU-1-0.900-0.95121.2410.0670.0670.0000.0000.0000.000
68A68ASP-1-0.904-0.95024.5330.0650.0650.0000.0000.0000.000
69A69TYR0-0.049-0.01521.758-0.003-0.0030.0000.0000.0000.000
70A70CYS0-0.077-0.01920.5840.0080.0080.0000.0000.0000.000
71A71TYR00.002-0.03114.121-0.007-0.0070.0000.0000.0000.000
72A72ILE0-0.011-0.00618.201-0.003-0.0030.0000.0000.0000.000
73A73LEU0-0.032-0.01212.6550.0220.0220.0000.0000.0000.000
74A74PHE00.0240.01215.911-0.020-0.0200.0000.0000.0000.000
75A75MET0-0.053-0.01614.4680.0390.0390.0000.0000.0000.000
76A76ILE00.019-0.00215.753-0.032-0.0320.0000.0000.0000.000
77A77ASP-1-0.771-0.87216.3870.1300.1300.0000.0000.0000.000
78A78PRO00.0400.04216.754-0.015-0.0150.0000.0000.0000.000
79A79ASP-1-0.797-0.87618.3240.0350.0350.0000.0000.0000.000
80A80PHE00.0160.03321.256-0.002-0.0020.0000.0000.0000.000
81A81PRO00.0320.01323.813-0.004-0.0040.0000.0000.0000.000
82A82SER0-0.059-0.05224.4850.0000.0000.0000.0000.0000.000
83A83ARG10.9550.98117.770-0.007-0.0070.0000.0000.0000.000
84A84ARG10.9110.94523.197-0.007-0.0070.0000.0000.0000.000
85A85ARG10.9860.99626.577-0.022-0.0220.0000.0000.0000.000
86A86PRO00.0160.03123.9170.0040.0040.0000.0000.0000.000
87A87ASP-1-0.873-0.94625.8410.0320.0320.0000.0000.0000.000
88A88GLY0-0.077-0.05527.089-0.001-0.0010.0000.0000.0000.000
89A89ARG10.8390.94321.790-0.028-0.0280.0000.0000.0000.000
90A90ASP-1-0.797-0.91420.7470.0830.0830.0000.0000.0000.000
91A91TYR0-0.043-0.03521.963-0.001-0.0010.0000.0000.0000.000
92A92VAL00.0190.01420.5920.0170.0170.0000.0000.0000.000
93A93HIS0-0.046-0.03018.584-0.014-0.0140.0000.0000.0000.000
94A94TRP0-0.031-0.02514.6490.0130.0130.0000.0000.0000.000
95A95ALA00.0470.02919.2500.0080.0080.0000.0000.0000.000
96A96VAL0-0.039-0.00218.307-0.015-0.0150.0000.0000.0000.000
97A97SER00.0360.00119.7150.0170.0170.0000.0000.0000.000
98A98GLY00.0930.01921.642-0.007-0.0070.0000.0000.0000.000
99A99ILE0-0.050-0.00816.219-0.003-0.0030.0000.0000.0000.000
100A100LYS10.9620.97219.513-0.129-0.1290.0000.0000.0000.000
101A101SER00.0480.04718.000-0.007-0.0070.0000.0000.0000.000
102A102LYS10.9940.99212.737-0.214-0.2140.0000.0000.0000.000
103A103GLU-1-0.951-0.97712.8650.4480.4480.0000.0000.0000.000
104A104LEU0-0.0140.00414.329-0.050-0.0500.0000.0000.0000.000
105A105VAL00.021-0.00215.3660.0480.0480.0000.0000.0000.000
106A106LYS10.9000.92617.808-0.230-0.2300.0000.0000.0000.000
107A107GLY00.0100.00117.952-0.025-0.0250.0000.0000.0000.000
108A108THR00.0280.00718.970-0.014-0.0140.0000.0000.0000.000
109A109ASP-1-0.827-0.90821.0350.2040.2040.0000.0000.0000.000
110A110LYS10.9520.96623.312-0.123-0.1230.0000.0000.0000.000
111A111ASN0-0.0140.00222.911-0.025-0.0250.0000.0000.0000.000
112A112CYS0-0.083-0.02221.3200.0040.0040.0000.0000.0000.000
113A113ILE00.0500.03023.908-0.010-0.0100.0000.0000.0000.000
114A114THR0-0.025-0.02523.4680.0170.0170.0000.0000.0000.000
115A115LEU0-0.0070.00523.883-0.010-0.0100.0000.0000.0000.000
116A116LEU00.0270.00823.435-0.011-0.0110.0000.0000.0000.000
117A117PRO00.0300.02422.9750.0210.0210.0000.0000.0000.000
118A118TYR00.002-0.02416.8310.0070.0070.0000.0000.0000.000
119A119VAL0-0.0090.01121.671-0.013-0.0130.0000.0000.0000.000
120A120GLY00.0200.00819.9140.0120.0120.0000.0000.0000.000
121A121PRO0-0.011-0.01617.559-0.020-0.0200.0000.0000.0000.000
122A122SER00.0210.02620.320-0.013-0.0130.0000.0000.0000.000
123A123ILE00.0240.01618.980-0.010-0.0100.0000.0000.0000.000
124A124LYS10.9711.00023.622-0.079-0.0790.0000.0000.0000.000
125A125LYS11.0391.01425.779-0.032-0.0320.0000.0000.0000.000
126A126GLY0-0.062-0.02726.492-0.003-0.0030.0000.0000.0000.000
127A127THR0-0.0070.00224.586-0.002-0.0020.0000.0000.0000.000
128A128GLY00.0130.00722.9990.0010.0010.0000.0000.0000.000
129A129LEU0-0.013-0.00416.8880.0110.0110.0000.0000.0000.000
130A130HIS10.7710.85118.027-0.100-0.1000.0000.0000.0000.000
131A131ARG10.7840.86014.026-0.001-0.0010.0000.0000.0000.000
132A132ILE0-0.0280.00113.676-0.002-0.0020.0000.0000.0000.000
133A133SER00.009-0.01411.6790.0430.0430.0000.0000.0000.000
134A134PHE0-0.026-0.01710.016-0.015-0.0150.0000.0000.0000.000
135A135ILE00.0250.00911.0300.0310.0310.0000.0000.0000.000
136A136LEU00.0180.01611.4450.0050.0050.0000.0000.0000.000
137A137SER00.0210.00613.905-0.039-0.0390.0000.0000.0000.000
138A138LEU0-0.0070.00917.1400.0180.0180.0000.0000.0000.000
139A139VAL00.011-0.00319.718-0.014-0.0140.0000.0000.0000.000
140A140LYS11.0241.01123.182-0.047-0.0470.0000.0000.0000.000
141A141GLU-1-0.819-0.92825.8070.1150.1150.0000.0000.0000.000
142A142GLU-1-0.974-0.99026.8110.0590.0590.0000.0000.0000.000
143A143ASN00.000-0.00827.806-0.005-0.0050.0000.0000.0000.000
144A144LYS10.8280.93325.064-0.113-0.1130.0000.0000.0000.000
145A145GLY0-0.006-0.01226.2160.0090.0090.0000.0000.0000.000
146A146ASN0-0.076-0.03528.869-0.005-0.0050.0000.0000.0000.000
147A147VAL00.0450.03825.126-0.001-0.0010.0000.0000.0000.000
148A148THR00.0540.02028.198-0.002-0.0020.0000.0000.0000.000
149A149GLY00.0330.00028.5230.0020.0020.0000.0000.0000.000
150A150VAL0-0.061-0.03824.8630.0030.0030.0000.0000.0000.000
151A151PRO0-0.0020.00928.1400.0030.0030.0000.0000.0000.000
152A152LEU00.0550.02629.6620.0070.0070.0000.0000.0000.000
153A153TYR0-0.055-0.05228.654-0.006-0.0060.0000.0000.0000.000
154A154ARG10.9500.97130.713-0.066-0.0660.0000.0000.0000.000
155A155GLY00.0330.01132.116-0.005-0.0050.0000.0000.0000.000
156A156GLU-1-0.765-0.86528.7850.1060.1060.0000.0000.0000.000
157A157HIS0-0.0340.00032.224-0.003-0.0030.0000.0000.0000.000
158A158TYR0-0.056-0.03034.293-0.005-0.0050.0000.0000.0000.000
159A159ILE0-0.0240.01128.5970.0000.0000.0000.0000.0000.000
160A160THR00.0160.01030.0090.0000.0000.0000.0000.0000.000
161A161ARG10.7850.86023.405-0.130-0.1300.0000.0000.0000.000
162A162VAL0-0.020-0.00625.4330.0050.0050.0000.0000.0000.000
163A163LYS10.9600.99026.424-0.046-0.0460.0000.0000.0000.000
164A164PHE00.022-0.00120.424-0.001-0.0010.0000.0000.0000.000
165A165ASN00.0300.00825.471-0.005-0.0050.0000.0000.0000.000
166A166ASN0-0.034-0.00928.667-0.005-0.0050.0000.0000.0000.000
167A167CYS0-0.0200.01827.220-0.006-0.0060.0000.0000.0000.000
168A168GLN0-0.027-0.00927.251-0.003-0.0030.0000.0000.0000.000
169A169SER00.0340.00222.2990.0040.0040.0000.0000.0000.000
170A170ALA00.0360.01119.1120.0000.0000.0000.0000.0000.000
171A171TYR00.0300.01319.4580.0020.0020.0000.0000.0000.000
172A172ASN0-0.022-0.01621.186-0.009-0.0090.0000.0000.0000.000
173A173VAL00.0200.00523.388-0.002-0.0020.0000.0000.0000.000
174A174ILE00.0160.00318.4030.0010.0010.0000.0000.0000.000
175A175GLN0-0.0150.00222.661-0.006-0.0060.0000.0000.0000.000
176A176MET0-0.048-0.01624.853-0.005-0.0050.0000.0000.0000.000
177A177ASN0-0.096-0.06625.535-0.002-0.0020.0000.0000.0000.000
178A178ASP-1-0.893-0.92126.3480.0440.0440.0000.0000.0000.000
179A179MET0-0.098-0.03521.4260.0080.0080.0000.0000.0000.000
180A180LYS10.8740.93418.118-0.036-0.0360.0000.0000.0000.000
181A181ILE0-0.032-0.02014.6110.0200.0200.0000.0000.0000.000
182A182VAL00.017-0.00713.641-0.021-0.0210.0000.0000.0000.000
183A183GLY00.0680.04410.316-0.002-0.0020.0000.0000.0000.000
184A184PHE00.002-0.0168.691-0.024-0.0240.0000.0000.0000.000
185A185ASN00.0250.0173.652-0.673-0.5450.001-0.045-0.0840.000
186A186TRP00.0270.0156.987-0.091-0.0910.0000.0000.0000.000
187A187CYS0-0.0210.0197.7840.0490.0490.0000.0000.0000.000
188A188GLN0-0.024-0.03610.308-0.051-0.0510.0000.0000.0000.000
189A189MET00.0060.02113.6960.0160.0160.0000.0000.0000.000
190A190ARG10.9920.98316.538-0.060-0.0600.0000.0000.0000.000
191A191ARG10.8700.91320.172-0.079-0.0790.0000.0000.0000.000
192A192LYS00.0660.03920.887-0.013-0.0130.0000.0000.0000.000