Manual

About

FMODB

FMODB: The database of quantum mechanical data based on the FMO method

Last updated: 2024-05-02

All entries: 37386

Number of unique PDB entries: 7781

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FMODB ID: QV7KY

Calculation Name: 2AH5-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2AH5

Chain ID: A

ChEMBL ID:

UniProt ID: A0A0H2

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 210
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2458751.901533
FMO2-HF: Nuclear repulsion 2377213.285792
FMO2-HF: Total energy -81538.615741
FMO2-MP2: Total energy -81778.929944


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.
-24.94-14.1626.638-5.43-11.99-0.05
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 : 0.011 / q_NPA : 0.011
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].
3A3SER0-0.031-0.0173.243-2.467-0.8040.014-0.465-1.2120.002
4A4ILE0-0.0350.0112.625-0.951-0.0640.425-0.383-0.930-0.001
5A5THR0-0.014-0.0205.705-0.185-0.1850.0000.0000.0000.000
6A6ALA0-0.013-0.0028.6160.1090.1090.0000.0000.0000.000
7A7ILE00.0090.0197.465-0.144-0.1440.0000.0000.0000.000
8A8PHE0-0.033-0.01610.1210.2030.2030.0000.0000.0000.000
9A9PHE00.0370.00712.378-0.085-0.0850.0000.0000.0000.000
10A10ASP-1-0.790-0.89415.110-0.355-0.3550.0000.0000.0000.000
11A11LEU0-0.067-0.04018.136-0.027-0.0270.0000.0000.0000.000
12A12ASP-1-0.815-0.92121.050-0.307-0.3070.0000.0000.0000.000
13A13GLY00.0210.01822.110-0.008-0.0080.0000.0000.0000.000
14A14THR0-0.0020.00116.140-0.026-0.0260.0000.0000.0000.000
15A15LEU00.0100.00416.571-0.008-0.0080.0000.0000.0000.000
16A16VAL0-0.011-0.02519.8870.0250.0250.0000.0000.0000.000
17A17ASP-1-0.801-0.87923.610-0.257-0.2570.0000.0000.0000.000
18A18SER0-0.032-0.06626.0110.0200.0200.0000.0000.0000.000
19A19SER0-0.027-0.03528.4250.0260.0260.0000.0000.0000.000
20A20ILE00.0010.00030.2040.0170.0170.0000.0000.0000.000
21A21GLY00.0510.03032.8060.0130.0130.0000.0000.0000.000
22A22ILE0-0.063-0.03628.5140.0120.0120.0000.0000.0000.000
23A23HIS00.0120.00833.0640.0090.0090.0000.0000.0000.000
24A24ASN0-0.034-0.03935.2810.0150.0150.0000.0000.0000.000
25A25ALA0-0.0040.01035.8800.0090.0090.0000.0000.0000.000
26A26PHE0-0.003-0.00933.0160.0090.0090.0000.0000.0000.000
27A27THR0-0.034-0.01438.3010.0100.0100.0000.0000.0000.000
28A28TYR0-0.037-0.01240.9610.0070.0070.0000.0000.0000.000
29A29THR00.010-0.00540.4080.0050.0050.0000.0000.0000.000
30A30PHE00.029-0.00139.2490.0040.0040.0000.0000.0000.000
31A31LYS10.9250.96944.3890.0980.0980.0000.0000.0000.000
32A32GLU-1-0.978-0.99046.210-0.086-0.0860.0000.0000.0000.000
33A33LEU0-0.032-0.01444.3230.0030.0030.0000.0000.0000.000
34A34GLY0-0.0400.00348.1490.0040.0040.0000.0000.0000.000
35A35VAL0-0.046-0.02045.2290.0040.0040.0000.0000.0000.000
36A36PRO0-0.023-0.02546.411-0.003-0.0030.0000.0000.0000.000
37A37SER00.0130.00241.168-0.004-0.0040.0000.0000.0000.000
38A38PRO0-0.0110.00938.6960.0040.0040.0000.0000.0000.000
39A39ASP-1-0.842-0.91437.827-0.108-0.1080.0000.0000.0000.000
40A40ALA00.056-0.00235.636-0.005-0.0050.0000.0000.0000.000
41A41LYS10.8890.95332.7340.1110.1110.0000.0000.0000.000
42A42THR00.0280.00432.958-0.006-0.0060.0000.0000.0000.000
43A43ILE0-0.0040.00433.711-0.006-0.0060.0000.0000.0000.000
44A44ARG10.9550.97129.6400.1550.1550.0000.0000.0000.000
45A45GLY00.0240.02829.173-0.014-0.0140.0000.0000.0000.000
46A46PHE0-0.037-0.02829.7130.0010.0010.0000.0000.0000.000
47A47MET0-0.103-0.03427.684-0.007-0.0070.0000.0000.0000.000
48A48GLY00.0730.03425.165-0.016-0.0160.0000.0000.0000.000
49A49PRO0-0.057-0.01725.894-0.001-0.0010.0000.0000.0000.000
50A50PRO00.0190.01227.872-0.001-0.0010.0000.0000.0000.000
51A51LEU00.0220.00630.2040.0080.0080.0000.0000.0000.000
52A52GLU-1-0.901-0.96333.359-0.131-0.1310.0000.0000.0000.000
53A53SER0-0.040-0.01531.8210.0120.0120.0000.0000.0000.000
54A54SER00.0590.03032.1160.0070.0070.0000.0000.0000.000
55A55PHE00.0240.02034.6130.0070.0070.0000.0000.0000.000
56A56ALA0-0.018-0.00737.2300.0070.0070.0000.0000.0000.000
57A57THR0-0.109-0.06835.2530.0060.0060.0000.0000.0000.000
58A58CYS0-0.071-0.03338.4770.0030.0030.0000.0000.0000.000
59A59LEU00.0080.01941.4220.0020.0020.0000.0000.0000.000
60A60SER00.0270.02043.2350.0010.0010.0000.0000.0000.000
61A61LYS10.9960.98342.5630.0590.0590.0000.0000.0000.000
62A62ASP-1-0.968-0.99344.112-0.069-0.0690.0000.0000.0000.000
63A63GLN00.0440.01745.7020.0000.0000.0000.0000.0000.000
64A64ILE0-0.0360.01038.973-0.004-0.0040.0000.0000.0000.000
65A65SER0-0.008-0.00941.122-0.007-0.0070.0000.0000.0000.000
66A66GLU-1-0.867-0.93842.431-0.086-0.0860.0000.0000.0000.000
67A67ALA00.0390.01541.173-0.004-0.0040.0000.0000.0000.000
68A68VAL0-0.014-0.00837.056-0.007-0.0070.0000.0000.0000.000
69A69GLN0-0.013-0.00739.231-0.006-0.0060.0000.0000.0000.000
70A70ILE00.0190.01541.529-0.005-0.0050.0000.0000.0000.000
71A71TYR00.0650.05032.680-0.005-0.0050.0000.0000.0000.000
72A72ARG10.9360.95532.4000.1610.1610.0000.0000.0000.000
73A73SER0-0.092-0.05538.071-0.004-0.0040.0000.0000.0000.000
74A74TYR0-0.036-0.03137.6880.0040.0040.0000.0000.0000.000
75A75TYR00.007-0.01030.452-0.010-0.0100.0000.0000.0000.000
76A76LYS10.9090.94833.5910.1810.1810.0000.0000.0000.000
77A77ALA0-0.0050.00736.909-0.004-0.0040.0000.0000.0000.000
78A78LYS10.9100.95238.5150.1390.1390.0000.0000.0000.000
79A79GLY00.0280.01135.529-0.005-0.0050.0000.0000.0000.000
80A80ILE0-0.040-0.01330.989-0.009-0.0090.0000.0000.0000.000
81A81TYR0-0.011-0.01131.730-0.016-0.0160.0000.0000.0000.000
82A82GLU-1-0.855-0.88333.910-0.160-0.1600.0000.0000.0000.000
83A83ALA0-0.001-0.00928.646-0.002-0.0020.0000.0000.0000.000
84A84GLN0-0.0130.00827.9130.0200.0200.0000.0000.0000.000
85A85LEU00.0440.03122.560-0.008-0.0080.0000.0000.0000.000
86A86PHE00.0140.01721.2820.0320.0320.0000.0000.0000.000
87A87PRO00.006-0.02022.537-0.017-0.0170.0000.0000.0000.000
88A88GLN0-0.030-0.02618.5410.0120.0120.0000.0000.0000.000
89A89ILE00.0110.03017.753-0.066-0.0660.0000.0000.0000.000
90A90ILE0-0.0020.00117.827-0.057-0.0570.0000.0000.0000.000
91A91ASP-1-0.839-0.92116.889-0.648-0.6480.0000.0000.0000.000
92A92LEU0-0.035-0.01211.599-0.073-0.0730.0000.0000.0000.000
93A93LEU0-0.023-0.01913.295-0.146-0.1460.0000.0000.0000.000
94A94GLU-1-0.913-0.95614.555-0.605-0.6050.0000.0000.0000.000
95A95GLU-1-0.944-0.97111.066-1.004-1.0040.0000.0000.0000.000
96A96LEU0-0.036-0.0228.059-0.186-0.1860.0000.0000.0000.000
97A97SER0-0.013-0.01710.440-0.095-0.0950.0000.0000.0000.000
98A98SER0-0.067-0.02111.7930.0480.0480.0000.0000.0000.000
99A99SER0-0.079-0.0457.157-0.023-0.0230.0000.0000.0000.000
100A100TYR0-0.068-0.0324.020-0.992-0.7450.000-0.043-0.2050.000
101A101PRO00.0250.04710.3980.1230.1230.0000.0000.0000.000
102A102LEU00.013-0.00411.833-0.149-0.1490.0000.0000.0000.000
103A103TYR0-0.0090.00113.9330.1210.1210.0000.0000.0000.000
104A104ILE0-0.022-0.00315.761-0.044-0.0440.0000.0000.0000.000
105A105THR0-0.001-0.01016.8090.0230.0230.0000.0000.0000.000
106A106THR00.0120.01218.9320.0060.0060.0000.0000.0000.000
107A107THR00.0260.00021.8440.0100.0100.0000.0000.0000.000
108A108LYS10.8130.92524.8870.3000.3000.0000.0000.0000.000
109A109ASP-1-0.867-0.92126.549-0.206-0.2060.0000.0000.0000.000
110A110THR00.0320.00226.325-0.016-0.0160.0000.0000.0000.000
111A111SER0-0.012-0.00527.637-0.014-0.0140.0000.0000.0000.000
112A112THR00.0430.02229.7490.0040.0040.0000.0000.0000.000
113A113ALA00.0390.01924.391-0.005-0.0050.0000.0000.0000.000
114A114GLN0-0.004-0.00125.900-0.014-0.0140.0000.0000.0000.000
115A115ASP-1-0.905-0.95127.244-0.231-0.2310.0000.0000.0000.000
116A116MET0-0.056-0.02126.173-0.003-0.0030.0000.0000.0000.000
117A117ALA00.0320.01523.769-0.007-0.0070.0000.0000.0000.000
118A118LYS10.9350.95725.4480.2710.2710.0000.0000.0000.000
119A119ASN0-0.043-0.03128.2600.0060.0060.0000.0000.0000.000
120A120LEU0-0.041-0.01426.1480.0100.0100.0000.0000.0000.000
121A121GLU-1-0.970-0.97526.145-0.303-0.3030.0000.0000.0000.000
122A122ILE00.0320.00920.828-0.022-0.0220.0000.0000.0000.000
123A123HIS0-0.091-0.04721.687-0.047-0.0470.0000.0000.0000.000
124A124HIS0-0.012-0.01721.819-0.002-0.0020.0000.0000.0000.000
125A125PHE0-0.0140.01117.6040.0000.0000.0000.0000.0000.000
126A126PHE0-0.047-0.02616.198-0.077-0.0770.0000.0000.0000.000
127A127ASP-1-0.872-0.93117.573-0.592-0.5920.0000.0000.0000.000
128A128GLY0-0.063-0.04619.3640.0570.0570.0000.0000.0000.000
129A129ILE0-0.044-0.02119.659-0.039-0.0390.0000.0000.0000.000
130A130TYR0-0.049-0.04319.6220.0560.0560.0000.0000.0000.000
131A131GLY00.034-0.00322.164-0.026-0.0260.0000.0000.0000.000
132A132SER0-0.0120.00224.8290.0070.0070.0000.0000.0000.000
133A133SER0-0.024-0.02727.2120.0110.0110.0000.0000.0000.000
134A134PRO0-0.032-0.03529.7680.0030.0030.0000.0000.0000.000
135A135GLU-1-0.944-0.96726.578-0.194-0.1940.0000.0000.0000.000
136A136ALA00.005-0.00124.4910.0010.0010.0000.0000.0000.000
137A137PRO0-0.0180.00226.463-0.012-0.0120.0000.0000.0000.000
138A138HIS0-0.029-0.01424.588-0.013-0.0130.0000.0000.0000.000
139A139LYS10.9280.96218.3920.3690.3690.0000.0000.0000.000
140A140ALA00.0470.02319.170-0.029-0.0290.0000.0000.0000.000
141A141ASP-1-0.849-0.91420.083-0.189-0.1890.0000.0000.0000.000
142A142VAL0-0.013-0.00120.319-0.009-0.0090.0000.0000.0000.000
143A143ILE0-0.027-0.00415.196-0.022-0.0220.0000.0000.0000.000
144A144HIS00.016-0.00317.680-0.029-0.0290.0000.0000.0000.000
145A145GLN00.0030.01519.555-0.003-0.0030.0000.0000.0000.000
146A146ALA0-0.0030.00417.2220.0040.0040.0000.0000.0000.000
147A147LEU0-0.014-0.01413.057-0.021-0.0210.0000.0000.0000.000
148A148GLN0-0.020-0.01216.9840.0240.0240.0000.0000.0000.000
149A149THR0-0.060-0.02520.3050.0260.0260.0000.0000.0000.000
150A150HIS0-0.0150.01317.2020.0130.0130.0000.0000.0000.000
151A151GLN0-0.090-0.03517.579-0.002-0.0020.0000.0000.0000.000
152A152LEU0-0.0180.00312.401-0.006-0.0060.0000.0000.0000.000
153A153ALA0-0.005-0.00613.0210.0390.0390.0000.0000.0000.000
154A154PRO00.0150.00512.146-0.098-0.0980.0000.0000.0000.000
155A155GLU-1-0.871-0.9578.894-0.072-0.0720.0000.0000.0000.000
156A156GLN0-0.027-0.0117.2930.0630.0630.0000.0000.0000.000
157A157ALA00.0310.0278.764-0.318-0.3180.0000.0000.0000.000
158A158ILE00.0000.0015.233-0.039-0.0390.0000.0000.0000.000
159A159ILE0-0.0150.0008.4480.0690.0690.0000.0000.0000.000
160A160ILE0-0.030-0.0119.304-0.041-0.0410.0000.0000.0000.000
161A161GLY00.0370.00612.3410.0850.0850.0000.0000.0000.000
162A162ASP-1-0.742-0.87015.751-0.399-0.3990.0000.0000.0000.000
163A163THR00.0050.00418.5920.0720.0720.0000.0000.0000.000
164A164LYS10.9880.97518.5530.1360.1360.0000.0000.0000.000
165A165PHE0-0.011-0.02219.6900.0180.0180.0000.0000.0000.000
166A166ASP-1-0.769-0.87815.942-0.453-0.4530.0000.0000.0000.000
167A167MET0-0.041-0.01313.562-0.018-0.0180.0000.0000.0000.000
168A168LEU0-0.047-0.03615.6960.0280.0280.0000.0000.0000.000
169A169GLY00.0600.04217.7950.0230.0230.0000.0000.0000.000
170A170ALA00.0120.01512.0420.0180.0180.0000.0000.0000.000
171A171ARG10.9180.96313.7800.0730.0730.0000.0000.0000.000
172A172GLU-1-0.996-1.01715.277-0.125-0.1250.0000.0000.0000.000
173A173THR0-0.055-0.03915.1560.0130.0130.0000.0000.0000.000
174A174GLY0-0.014-0.00113.2630.0200.0200.0000.0000.0000.000
175A175ILE0-0.0430.01510.0780.0400.0400.0000.0000.0000.000
176A176GLN00.0640.0472.857-1.499-0.9780.024-0.186-0.3600.000
177A177LYS10.8460.9177.9900.2900.2900.0000.0000.0000.000
178A178LEU0-0.0150.0107.246-0.014-0.0140.0000.0000.0000.000
179A179ALA00.001-0.00310.0890.0890.0890.0000.0000.0000.000
180A180ILE0-0.005-0.00313.669-0.037-0.0370.0000.0000.0000.000
181A181THR0-0.014-0.03315.8520.0680.0680.0000.0000.0000.000
182A182TRP0-0.069-0.02414.7800.0280.0280.0000.0000.0000.000
183A183GLY00.0080.01020.7770.0140.0140.0000.0000.0000.000
184A184PHE0-0.087-0.03822.1510.0290.0290.0000.0000.0000.000
185A185GLY0-0.0210.00822.1120.0290.0290.0000.0000.0000.000
186A186GLU-1-0.925-0.96022.517-0.189-0.1890.0000.0000.0000.000
187A187GLN00.005-0.01918.663-0.004-0.0040.0000.0000.0000.000
188A188ALA0-0.026-0.01720.0050.0010.0010.0000.0000.0000.000
189A189ASP-1-0.910-0.95021.755-0.145-0.1450.0000.0000.0000.000
190A190LEU0-0.023-0.01016.7670.0120.0120.0000.0000.0000.000
191A191LEU00.025-0.00115.639-0.009-0.0090.0000.0000.0000.000
192A192ASN0-0.053-0.01617.5050.0430.0430.0000.0000.0000.000
193A193TYR0-0.034-0.01216.3080.0320.0320.0000.0000.0000.000
194A194GLN0-0.082-0.04513.584-0.013-0.0130.0000.0000.0000.000
195A195PRO0-0.020-0.00611.2880.0160.0160.0000.0000.0000.000
196A196ASP-1-0.845-0.9245.866-0.381-0.3810.0000.0000.0000.000
197A197TYR0-0.046-0.0306.597-0.042-0.0420.0000.0000.0000.000
198A198ILE0-0.034-0.0208.6140.0690.0690.0000.0000.0000.000
199A199ALA00.0090.02012.1150.0010.0010.0000.0000.0000.000
200A200HIS0-0.062-0.04614.0960.0580.0580.0000.0000.0000.000
201A201LYS10.9300.95816.3340.3510.3510.0000.0000.0000.000
202A202PRO00.0540.02715.322-0.059-0.0590.0000.0000.0000.000
203A203LEU00.0290.00213.535-0.092-0.0920.0000.0000.0000.000
204A204GLU-1-0.866-0.92612.139-0.508-0.5080.0000.0000.0000.000
205A205VAL0-0.0070.0019.358-0.057-0.0570.0000.0000.0000.000
206A206LEU00.0290.0148.042-0.387-0.3870.0000.0000.0000.000
207A207ALA0-0.028-0.0106.691-0.402-0.4020.0000.0000.0000.000
208A208TYR0-0.059-0.0383.047-2.1530.1230.375-0.897-1.754-0.008
209A209PHE0-0.012-0.0182.176-4.086-1.2261.794-1.806-2.848-0.015
210A210GLN0-0.033-0.0082.427-6.297-3.9734.006-1.650-4.681-0.028