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: 7JLLK

Calculation Name: 2AJ2-A-Xray307

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2AJ2

Chain ID: A

ChEMBL ID:

UniProt ID: Q9KUP8

Base Structure: X-ray

Registration Date: 2021-09-06

Reference: C. Watanabe, S. Koyama, K. Kamisaka, D. Takaya, T. Honma et. al., Interaction energy analysis of Apo structure dataset on FMODB, To be pubulished.

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. 1.20200116
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 189
LigandCharge
Software ABINIT-MP - Open Ver.1 Rev. 15 / 20190524
Total energy (hartree)
FMO2-HF: Electronic energy -1977611.913674
FMO2-HF: Nuclear repulsion 1903452.335847
FMO2-HF: Total energy -74159.577827
FMO2-MP2: Total energy -74373.069121


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:5:ACE )


Summations of interaction energy for fragment #1(A:5: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.
-0.8880.284-0.005-0.525-0.642-0.002
Interaction energy analysis for fragmet #1(A:5:ACE )
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.021 / q_NPA : -0.026
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].
3A7ASP -1-0.933-0.9573.846-1.0070.165-0.005-0.525-0.642-0.002
4A8ILE 0-0.0020.0215.2490.2280.2280.0000.0000.0000.000
5A9GLU -1-0.904-0.9567.625-0.141-0.1410.0000.0000.0000.000
6A10VAL 0-0.058-0.02210.1440.0290.0290.0000.0000.0000.000
7A11GLY 00.0180.00412.1690.0100.0100.0000.0000.0000.000
8A12HIS 0-0.046-0.04415.1060.0110.0110.0000.0000.0000.000
9A13SER 0-0.024-0.00318.691-0.005-0.0050.0000.0000.0000.000
10A14MET 00.0400.03221.1350.0070.0070.0000.0000.0000.000
11A15ASN 0-0.0230.00224.143-0.002-0.0020.0000.0000.0000.000
12A16LEU 00.022-0.00226.8210.0060.0060.0000.0000.0000.000
13A17THR 00.008-0.01029.9920.0010.0010.0000.0000.0000.000
14A18ASN 00.0460.02731.8300.0010.0010.0000.0000.0000.000
15A19HIS 0-0.034-0.01629.4240.0070.0070.0000.0000.0000.000
16A20PHE 0-0.039-0.01433.763-0.003-0.0030.0000.0000.0000.000
17A21LEU 00.0060.00933.6450.0020.0020.0000.0000.0000.000
18A22VAL 0-0.036-0.02436.007-0.001-0.0010.0000.0000.0000.000
19A23ALA 00.0090.01937.0900.0010.0010.0000.0000.0000.000
20A24MET 00.0160.00935.7690.0030.0030.0000.0000.0000.000
21A25PRO 0-0.022-0.02638.957-0.002-0.0020.0000.0000.0000.000
22A26SER 0-0.040-0.01138.0620.0000.0000.0000.0000.0000.000
23A27MET 0-0.0130.02438.451-0.002-0.0020.0000.0000.0000.000
24A28LYS 10.9370.96936.222-0.003-0.0030.0000.0000.0000.000
25A29ASP -1-0.777-0.91741.754-0.004-0.0040.0000.0000.0000.000
26A30PRO 0-0.057-0.03743.5310.0010.0010.0000.0000.0000.000
27A31TYR 00.0130.01844.6930.0010.0010.0000.0000.0000.000
28A32PHE 00.0510.02041.7170.0010.0010.0000.0000.0000.000
29A33LYS 10.8250.91643.067-0.002-0.0020.0000.0000.0000.000
30A34ARG 10.8980.95243.879-0.008-0.0080.0000.0000.0000.000
31A35SER 00.0150.01542.2210.0000.0000.0000.0000.0000.000
32A36VAL 00.008-0.00940.1050.0010.0010.0000.0000.0000.000
33A37ILE 00.0020.01138.516-0.001-0.0010.0000.0000.0000.000
34A38TYR 00.0030.00737.3430.0010.0010.0000.0000.0000.000
35A39ILE 0-0.018-0.00233.030-0.003-0.0030.0000.0000.0000.000
36A40CYS 0-0.044-0.03235.9100.0020.0020.0000.0000.0000.000
37A41GLU -1-0.894-0.96334.093-0.018-0.0180.0000.0000.0000.000
38A42HIS 0-0.045-0.01927.4900.0030.0030.0000.0000.0000.000
39A43ASN 00.0420.00928.507-0.002-0.0020.0000.0000.0000.000
40A44GLN 00.021-0.00223.8290.0020.0020.0000.0000.0000.000
41A45ASP -1-0.896-0.93428.267-0.044-0.0440.0000.0000.0000.000
42A46GLY 0-0.057-0.02931.3000.0010.0010.0000.0000.0000.000
43A47ALA 0-0.026-0.00732.0990.0020.0020.0000.0000.0000.000
44A48MET 00.0160.03334.0760.0000.0000.0000.0000.0000.000
45A49GLY 00.0320.00337.1260.0020.0020.0000.0000.0000.000
46A50LEU 0-0.0110.01639.158-0.001-0.0010.0000.0000.0000.000
47A51MET 0-0.028-0.00542.0400.0020.0020.0000.0000.0000.000
48A52ILE 00.0050.00842.3570.0000.0000.0000.0000.0000.000
49A53ASN 0-0.040-0.05145.2260.0000.0000.0000.0000.0000.000
50A54ALA 00.0300.01947.7340.0000.0000.0000.0000.0000.000
51A55PRO 0-0.057-0.01049.667-0.001-0.0010.0000.0000.0000.000
52A56ILE 00.018-0.00253.0200.0000.0000.0000.0000.0000.000
53A57ASP -1-0.958-0.97855.2560.0010.0010.0000.0000.0000.000
54A58ILE 0-0.031-0.00957.0750.0000.0000.0000.0000.0000.000
55A59THR 00.0290.01558.2380.0000.0000.0000.0000.0000.000
56A60VAL 00.0000.01456.643-0.001-0.0010.0000.0000.0000.000
57A61GLY 00.0580.01158.323-0.001-0.0010.0000.0000.0000.000
58A62GLY 0-0.060-0.02561.9010.0000.0000.0000.0000.0000.000
59A63MET 00.0080.01355.6870.0000.0000.0000.0000.0000.000
60A64LEU 00.0510.02658.374-0.001-0.0010.0000.0000.0000.000
61A65LYS 10.9730.97361.1350.0000.0000.0000.0000.0000.000
62A66GLN 0-0.087-0.02761.6870.0000.0000.0000.0000.0000.000
63A67VAL 0-0.079-0.04558.7020.0000.0000.0000.0000.0000.000
64A68ASP -1-0.960-0.98061.830-0.004-0.0040.0000.0000.0000.000
65A69ILE 0-0.078-0.03259.3700.0000.0000.0000.0000.0000.000
66A70GLU -1-0.948-0.97062.685-0.002-0.0020.0000.0000.0000.000
67A71PRO 0-0.066-0.02362.6580.0000.0000.0000.0000.0000.000
68A72ALA 00.0280.01361.7510.0000.0000.0000.0000.0000.000
69A73TYR 0-0.033-0.02960.6000.0000.0000.0000.0000.0000.000
70A74PRO 00.004-0.00365.1160.0000.0000.0000.0000.0000.000
71A75GLN 00.0300.01363.8970.0000.0000.0000.0000.0000.000
72A76SER 00.0360.01164.3970.0000.0000.0000.0000.0000.000
73A77HIS 10.8130.92658.551-0.005-0.0050.0000.0000.0000.000
74A78GLN 0-0.064-0.06462.1020.0000.0000.0000.0000.0000.000
75A79GLU -1-0.858-0.93262.4530.0050.0050.0000.0000.0000.000
76A80ASN 0-0.052-0.05256.5990.0000.0000.0000.0000.0000.000
77A81LEU 00.0790.02758.6440.0000.0000.0000.0000.0000.000
78A82LYS 10.9280.95861.083-0.004-0.0040.0000.0000.0000.000
79A83LYS 10.9040.99354.853-0.006-0.0060.0000.0000.0000.000
80A84PRO 00.0400.01854.753-0.001-0.0010.0000.0000.0000.000
81A85VAL 00.0190.01553.6750.0000.0000.0000.0000.0000.000
82A86PHE 0-0.020-0.04149.4120.0010.0010.0000.0000.0000.000
83A87ASN 0-0.0070.00048.741-0.001-0.0010.0000.0000.0000.000
84A88GLY 00.0250.00146.2110.0010.0010.0000.0000.0000.000
85A89GLY 00.032-0.01244.4810.0000.0000.0000.0000.0000.000
86A90PRO 0-0.0120.01143.7900.0000.0000.0000.0000.0000.000
87A91VAL 0-0.0130.00742.195-0.001-0.0010.0000.0000.0000.000
88A92SER 00.000-0.01745.6250.0000.0000.0000.0000.0000.000
89A93GLU -1-0.879-0.95048.290-0.006-0.0060.0000.0000.0000.000
90A94ASP -1-0.950-0.95150.595-0.009-0.0090.0000.0000.0000.000
91A95ARG 10.9110.95347.0280.0090.0090.0000.0000.0000.000
92A96GLY 0-0.022-0.00550.1560.0010.0010.0000.0000.0000.000
93A97PHE 0-0.008-0.01944.990-0.001-0.0010.0000.0000.0000.000
94A98ILE 0-0.0150.00647.9240.0010.0010.0000.0000.0000.000
95A99LEU 00.0240.03042.3150.0000.0000.0000.0000.0000.000
96A100HIS 00.0350.00145.6830.0000.0000.0000.0000.0000.000
97A101ARG 10.9230.97945.082-0.012-0.0120.0000.0000.0000.000
98A102PRO 0-0.131-0.04043.209-0.001-0.0010.0000.0000.0000.000
99A103ARG 10.8740.95946.436-0.004-0.0040.0000.0000.0000.000
100A104ASP -1-0.897-0.94250.0160.0030.0030.0000.0000.0000.000
101A105HIS 0-0.081-0.04247.4460.0000.0000.0000.0000.0000.000
102A106TYR 00.0350.00148.7050.0000.0000.0000.0000.0000.000
103A107GLU -1-0.981-1.00248.554-0.007-0.0070.0000.0000.0000.000
104A108SER 0-0.034-0.02346.543-0.001-0.0010.0000.0000.0000.000
105A109SER 0-0.012-0.00544.9890.0010.0010.0000.0000.0000.000
106A110MET 00.0310.02337.7450.0000.0000.0000.0000.0000.000
107A111LYS 10.9270.95139.911-0.004-0.0040.0000.0000.0000.000
108A112MET 0-0.028-0.00335.251-0.001-0.0010.0000.0000.0000.000
109A113THR 00.0180.00636.0310.0010.0010.0000.0000.0000.000
110A114ASP -1-0.937-0.96938.3050.0130.0130.0000.0000.0000.000
111A115ASP -1-0.915-0.97540.8730.0150.0150.0000.0000.0000.000
112A116ILE 0-0.021-0.01839.311-0.001-0.0010.0000.0000.0000.000
113A117ALA 0-0.0180.00040.8640.0000.0000.0000.0000.0000.000
114A118VAL 00.0310.01241.5880.0010.0010.0000.0000.0000.000
115A119THR 0-0.005-0.00243.994-0.001-0.0010.0000.0000.0000.000
116A120THR 0-0.068-0.03445.4290.0000.0000.0000.0000.0000.000
117A121SER 0-0.030-0.05248.235-0.001-0.0010.0000.0000.0000.000
118A122LYS 11.0330.99851.0840.0050.0050.0000.0000.0000.000
119A123ASP -1-0.773-0.81452.502-0.003-0.0030.0000.0000.0000.000
120A124ILE 00.0440.02150.4270.0010.0010.0000.0000.0000.000
121A125LEU 0-0.020-0.02454.0710.0010.0010.0000.0000.0000.000
122A126THR 0-0.062-0.03656.6770.0000.0000.0000.0000.0000.000
123A127VAL 00.0470.03255.1530.0000.0000.0000.0000.0000.000
124A128LEU 00.0400.06554.2900.0010.0010.0000.0000.0000.000
125A129GLY 0-0.0110.00258.0780.0000.0000.0000.0000.0000.000
126A130THR 0-0.082-0.07659.6410.0000.0000.0000.0000.0000.000
127A131GLU -1-0.863-0.95759.4470.0050.0050.0000.0000.0000.000
128A132ALA 0-0.014-0.01057.9070.0010.0010.0000.0000.0000.000
129A133GLU -1-0.800-0.87055.6420.0030.0030.0000.0000.0000.000
130A134PRO 0-0.023-0.01150.6080.0010.0010.0000.0000.0000.000
131A135GLU -1-0.902-0.96251.4120.0080.0080.0000.0000.0000.000
132A136GLY 0-0.050-0.04549.9360.0010.0010.0000.0000.0000.000
133A137TYR 0-0.071-0.04849.185-0.001-0.0010.0000.0000.0000.000
134A138ILE 0-0.0250.00546.1950.0000.0000.0000.0000.0000.000
135A139VAL 00.0060.02249.287-0.001-0.0010.0000.0000.0000.000
136A140ALA 00.0110.00747.4770.0000.0000.0000.0000.0000.000
137A141LEU 0-0.016-0.01149.497-0.001-0.0010.0000.0000.0000.000
138A142GLY 00.0870.04747.7030.0000.0000.0000.0000.0000.000
139A143TYR 0-0.039-0.03840.4710.0010.0010.0000.0000.0000.000
140A144SER 0-0.044-0.03140.2150.0000.0000.0000.0000.0000.000
141A145GLY 0-0.0050.01138.5610.0000.0000.0000.0000.0000.000
142A146TRP 0-0.053-0.02634.0090.0010.0010.0000.0000.0000.000
143A147SER 00.006-0.01734.548-0.001-0.0010.0000.0000.0000.000
144A148ALA 00.0900.04130.1020.0020.0020.0000.0000.0000.000
145A149GLY 0-0.0190.01327.977-0.002-0.0020.0000.0000.0000.000
146A150GLN 00.002-0.04528.7570.0030.0030.0000.0000.0000.000
147A151LEU 0-0.0010.01130.7430.0030.0030.0000.0000.0000.000
148A152GLU -1-0.847-0.93225.649-0.020-0.0200.0000.0000.0000.000
149A153VAL 0-0.023-0.00327.4350.0030.0030.0000.0000.0000.000
150A154GLU -1-0.808-0.90328.980-0.002-0.0020.0000.0000.0000.000
151A155LEU 0-0.065-0.02127.7790.0040.0040.0000.0000.0000.000
152A156THR 0-0.130-0.04625.6190.0030.0030.0000.0000.0000.000
153A157GLU -1-0.906-0.93528.226-0.006-0.0060.0000.0000.0000.000
154A158ASN 0-0.029-0.03231.8610.0040.0040.0000.0000.0000.000
155A159SER 0-0.049-0.03534.1200.0000.0000.0000.0000.0000.000
156A160TRP 00.0330.00333.5140.0020.0020.0000.0000.0000.000
157A161LEU 0-0.0030.00131.8190.0020.0020.0000.0000.0000.000
158A162THR 0-0.017-0.01330.238-0.002-0.0020.0000.0000.0000.000
159A163ILE 0-0.023-0.00631.6220.0050.0050.0000.0000.0000.000
160A164GLU -1-0.922-0.94431.7690.0270.0270.0000.0000.0000.000
161A165ALA 0-0.012-0.02033.3730.0000.0000.0000.0000.0000.000
162A166ASP -1-0.833-0.94136.9390.0220.0220.0000.0000.0000.000
163A167PRO 00.0350.00839.786-0.002-0.0020.0000.0000.0000.000
164A168GLU -1-0.812-0.91742.9050.0160.0160.0000.0000.0000.000
165A169LEU 0-0.093-0.04741.558-0.001-0.0010.0000.0000.0000.000
166A170ILE 00.002-0.01241.104-0.001-0.0010.0000.0000.0000.000
167A171PHE 0-0.041-0.02044.631-0.001-0.0010.0000.0000.0000.000
168A172ASN 0-0.055-0.01747.8910.0000.0000.0000.0000.0000.000
169A173THR 0-0.0390.01946.1040.0000.0000.0000.0000.0000.000
170A174PRO 00.0210.00549.396-0.001-0.0010.0000.0000.0000.000
171A175VAL 00.0690.01949.8330.0010.0010.0000.0000.0000.000
172A176HIS 0-0.030-0.02249.3660.0010.0010.0000.0000.0000.000
173A177GLU -1-0.918-0.95949.0290.0140.0140.0000.0000.0000.000
174A178LYS 10.7880.93645.361-0.008-0.0080.0000.0000.0000.000
175A179TRP 00.0310.00541.6060.0010.0010.0000.0000.0000.000
176A180GLN 0-0.018-0.00843.2350.0020.0020.0000.0000.0000.000
177A181LYS 11.0150.99543.286-0.019-0.0190.0000.0000.0000.000
178A182ALA 0-0.0040.00239.8650.0020.0020.0000.0000.0000.000
179A183ILE 00.0510.01338.9010.0020.0020.0000.0000.0000.000
180A184GLN 00.0080.01539.1350.0010.0010.0000.0000.0000.000
181A185LYS 10.8910.95837.326-0.023-0.0230.0000.0000.0000.000
182A186LEU 0-0.061-0.03233.7010.0030.0030.0000.0000.0000.000
183A187GLY 0-0.0070.00735.8990.0020.0020.0000.0000.0000.000
184A188ILE 0-0.030-0.00936.7300.0000.0000.0000.0000.0000.000
185A189SER 0-0.025-0.04039.559-0.001-0.0010.0000.0000.0000.000
186A190PRO 0-0.047-0.02342.8860.0000.0000.0000.0000.0000.000
187A191ALA 00.017-0.00144.3170.0000.0000.0000.0000.0000.000
188A192GLN 0-0.0360.00045.2050.0010.0010.0000.0000.0000.000
189A193NME 00.0400.03747.7640.0010.0010.0000.0000.0000.000