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: 9GN92

Calculation Name: 2WUI-A-Xray320

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2WUI

Chain ID: A

ChEMBL ID:

UniProt ID: Q9RG61

Base Structure: X-ray

Registration Date: 2021-09-07

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. 1.20200129
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 202
LigandCharge
Software ABINIT-MP - Open Ver.1 Rev. 15 / 20190524
Total energy (hartree)
FMO2-HF: Electronic energy -2141863.792366
FMO2-HF: Nuclear repulsion 2061564.98555
FMO2-HF: Total energy -80298.806817
FMO2-MP2: Total energy -80530.173675


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:8:ACE )


Summations of interaction energy for fragment #1(A:8: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.
2.2963.46-0.002-0.434-0.7290
Interaction energy analysis for fragmet #1(A:8:ACE )
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.043 / 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].
3A10GLN 00.0890.0593.8090.9111.852-0.006-0.378-0.5570.000
4A11LYS 10.9570.9863.8740.4750.6980.004-0.056-0.1720.000
5A12THR 0-0.079-0.0755.7030.2490.2490.0000.0000.0000.000
6A13ARG 10.9500.9797.9300.4790.4790.0000.0000.0000.000
7A14ASP -1-0.859-0.9299.2490.0340.0340.0000.0000.0000.000
8A15GLY 00.0380.01810.2910.0120.0120.0000.0000.0000.000
9A16ILE 00.0480.02011.5660.0100.0100.0000.0000.0000.000
10A17LEU 0-0.0320.01113.8220.0280.0280.0000.0000.0000.000
11A18ASP -1-0.803-0.89014.152-0.101-0.1010.0000.0000.0000.000
12A19ALA 0-0.053-0.02116.0390.0100.0100.0000.0000.0000.000
13A20ALA 0-0.014-0.02417.7620.0130.0130.0000.0000.0000.000
14A21GLU -1-0.770-0.87518.846-0.020-0.0200.0000.0000.0000.000
15A22ARG 10.9180.96220.7500.0520.0520.0000.0000.0000.000
16A23VAL 00.0280.05721.1370.0050.0050.0000.0000.0000.000
17A24PHE 00.007-0.01821.5340.0030.0030.0000.0000.0000.000
18A25LEU 0-0.045-0.05625.3740.0070.0070.0000.0000.0000.000
19A26GLU -1-0.975-0.99226.693-0.068-0.0680.0000.0000.0000.000
20A27LYS 10.8420.91028.0590.0640.0640.0000.0000.0000.000
21A28GLY 00.0600.04028.507-0.002-0.0020.0000.0000.0000.000
22A29VAL 00.0450.00827.397-0.007-0.0070.0000.0000.0000.000
23A30GLY 0-0.019-0.00328.524-0.008-0.0080.0000.0000.0000.000
24A31THR 0-0.079-0.04731.194-0.001-0.0010.0000.0000.0000.000
25A32THR 0-0.0260.03325.030-0.005-0.0050.0000.0000.0000.000
26A33ALA 00.0320.01926.0570.0000.0000.0000.0000.0000.000
27A34MET 0-0.031-0.04018.8420.0010.0010.0000.0000.0000.000
28A35ALA 0-0.080-0.05020.914-0.020-0.0200.0000.0000.0000.000
29A36ASP -1-0.723-0.88021.334-0.126-0.1260.0000.0000.0000.000
30A37LEU 00.0140.02218.771-0.003-0.0030.0000.0000.0000.000
31A38ALA 0-0.041-0.03717.043-0.013-0.0130.0000.0000.0000.000
32A39ASP -1-0.934-0.94917.723-0.169-0.1690.0000.0000.0000.000
33A40ALA 00.0100.00819.278-0.004-0.0040.0000.0000.0000.000
34A41ALA 0-0.063-0.03614.5690.0000.0000.0000.0000.0000.000
35A42GLY 0-0.0110.01714.595-0.020-0.0200.0000.0000.0000.000
36A43VAL 0-0.076-0.02611.648-0.050-0.0500.0000.0000.0000.000
37A44SER 00.0490.01814.3420.0340.0340.0000.0000.0000.000
38A45ARG 11.0250.97715.9820.1600.1600.0000.0000.0000.000
39A46GLY 00.0060.00917.0400.0090.0090.0000.0000.0000.000
40A47ALA 00.0320.01412.060-0.016-0.0160.0000.0000.0000.000
41A48VAL 00.0280.00613.416-0.027-0.0270.0000.0000.0000.000
42A49TYR 0-0.028-0.02015.1430.0160.0160.0000.0000.0000.000
43A50GLY 0-0.0210.01213.6630.0160.0160.0000.0000.0000.000
44A51HIS 0-0.068-0.0347.9960.1580.1580.0000.0000.0000.000
45A52TYR 0-0.053-0.02813.3450.0600.0600.0000.0000.0000.000
46A53LYS 10.8850.94816.9840.1110.1110.0000.0000.0000.000
47A54ASN 00.0450.01220.471-0.006-0.0060.0000.0000.0000.000
48A55LYS 10.9650.96521.3770.0780.0780.0000.0000.0000.000
49A56ILE 00.0500.02422.6780.0020.0020.0000.0000.0000.000
50A57GLU -1-0.910-0.94919.378-0.099-0.0990.0000.0000.0000.000
51A58VAL 00.0170.00617.2770.0010.0010.0000.0000.0000.000
52A59CYS 0-0.035-0.00519.3760.0110.0110.0000.0000.0000.000
53A60LEU 0-0.003-0.00322.1000.0130.0130.0000.0000.0000.000
54A61ALA 00.0100.01016.8580.0100.0100.0000.0000.0000.000
55A62MET 0-0.014-0.01918.3290.0090.0090.0000.0000.0000.000
56A63CYS 0-0.044-0.02519.2660.0160.0160.0000.0000.0000.000
57A64ASP -1-0.837-0.88019.291-0.024-0.0240.0000.0000.0000.000
58A65ARG 10.7840.89313.9800.0480.0480.0000.0000.0000.000
59A66ALA 00.0210.00018.2320.0160.0160.0000.0000.0000.000
60A67PHE 00.028-0.00421.2790.0030.0030.0000.0000.0000.000
61A68GLY 0-0.031-0.00220.5490.0060.0060.0000.0000.0000.000
62A69GLN 0-0.059-0.03518.8500.0080.0080.0000.0000.0000.000
63A70ILE 0-0.0190.01122.2470.0000.0000.0000.0000.0000.000
64A71GLU -1-0.962-0.97226.0050.0460.0460.0000.0000.0000.000
65A72VAL 0-0.012-0.00726.590-0.006-0.0060.0000.0000.0000.000
66A73PRO 0-0.0010.00229.1870.0040.0040.0000.0000.0000.000
67A74ASP -1-0.859-0.94132.5430.0440.0440.0000.0000.0000.000
68A75GLU -1-0.854-0.93533.9870.0210.0210.0000.0000.0000.000
69A76ASN 0-0.110-0.04136.118-0.005-0.0050.0000.0000.0000.000
70A77ALA 00.1030.05936.9820.0020.0020.0000.0000.0000.000
71A78ARG 10.8810.93438.851-0.034-0.0340.0000.0000.0000.000
72A79VAL 0-0.005-0.00240.4470.0000.0000.0000.0000.0000.000
73A80PRO 00.0250.01843.188-0.001-0.0010.0000.0000.0000.000
74A81ALA 00.017-0.00542.5540.0010.0010.0000.0000.0000.000
75A82LEU 00.004-0.00942.1280.0000.0000.0000.0000.0000.000
76A83ASP -1-0.886-0.93741.6150.0240.0240.0000.0000.0000.000
77A84ILE 0-0.058-0.02136.9970.0010.0010.0000.0000.0000.000
78A85LEU 0-0.052-0.03338.0360.0000.0000.0000.0000.0000.000
79A86LEU 00.0030.00238.931-0.001-0.0010.0000.0000.0000.000
80A87ARG 10.9850.99732.307-0.041-0.0410.0000.0000.0000.000
81A88ALA 00.0460.02734.1130.0000.0000.0000.0000.0000.000
82A89GLY 0-0.0010.00634.548-0.001-0.0010.0000.0000.0000.000
83A90MET 0-0.0290.00536.662-0.002-0.0020.0000.0000.0000.000
84A91GLY 0-0.0080.00232.5750.0000.0000.0000.0000.0000.000
85A92PHE 00.027-0.00529.994-0.001-0.0010.0000.0000.0000.000
86A93LEU 00.0130.00532.054-0.002-0.0020.0000.0000.0000.000
87A94ARG 00.014-0.00130.761-0.001-0.0010.0000.0000.0000.000
88A95GLN 00.006-0.01025.629-0.003-0.0030.0000.0000.0000.000
89A96CYS 0-0.104-0.04128.723-0.004-0.0040.0000.0000.0000.000
90A97CYS 0-0.037-0.02131.182-0.004-0.0040.0000.0000.0000.000
91A98GLU -1-0.907-0.91727.3890.0290.0290.0000.0000.0000.000
92A99PRO 00.0020.01726.688-0.004-0.0040.0000.0000.0000.000
93A100GLY 0-0.020-0.04623.483-0.001-0.0010.0000.0000.0000.000
94A101SER 0-0.050-0.05120.053-0.006-0.0060.0000.0000.0000.000
95A102VAL 00.0370.02422.222-0.007-0.0070.0000.0000.0000.000
96A103GLN 00.0450.02824.798-0.004-0.0040.0000.0000.0000.000
97A104ARG 10.8240.89720.5550.0140.0140.0000.0000.0000.000
98A105VAL 0-0.0110.00522.661-0.004-0.0040.0000.0000.0000.000
99A106LEU 00.0200.01425.482-0.003-0.0030.0000.0000.0000.000
100A107GLU -1-0.817-0.90129.047-0.024-0.0240.0000.0000.0000.000
101A108ILE 0-0.072-0.00925.644-0.003-0.0030.0000.0000.0000.000
102A109LEU 0-0.030-0.03427.583-0.001-0.0010.0000.0000.0000.000
103A110TYR 0-0.101-0.06829.9390.0000.0000.0000.0000.0000.000
104A111LEU 0-0.033-0.00832.9070.0000.0000.0000.0000.0000.000
105A112LYS 10.8220.93630.1830.0320.0320.0000.0000.0000.000
106A113CYS 00.029-0.00930.428-0.007-0.0070.0000.0000.0000.000
107A114GLU -1-0.865-0.90932.180-0.049-0.0490.0000.0000.0000.000
108A115ARG 10.9520.95034.3930.0250.0250.0000.0000.0000.000
109A116SER 0-0.0290.01433.7070.0020.0020.0000.0000.0000.000
110A117ASP -1-0.794-0.91135.745-0.039-0.0390.0000.0000.0000.000
111A118GLU -1-0.981-0.99730.086-0.078-0.0780.0000.0000.0000.000
112A119ASN 0-0.084-0.06130.599-0.001-0.0010.0000.0000.0000.000
113A120GLU -1-0.831-0.89831.683-0.031-0.0310.0000.0000.0000.000
114A121PRO 0-0.045-0.03227.8800.0040.0040.0000.0000.0000.000
115A122LEU 00.0010.00325.9820.0020.0020.0000.0000.0000.000
116A123LEU 00.0150.01929.3050.0050.0050.0000.0000.0000.000
117A124ARG 10.9640.96531.2250.0310.0310.0000.0000.0000.000
118A125ARG 10.8320.90222.6870.0420.0420.0000.0000.0000.000
119A126ARG 11.0071.00529.4120.0290.0290.0000.0000.0000.000
120A127GLU -1-0.871-0.93331.398-0.014-0.0140.0000.0000.0000.000
121A128LEU 0-0.082-0.03228.6660.0040.0040.0000.0000.0000.000
122A129LEU 00.0330.03228.3780.0040.0040.0000.0000.0000.000
123A130GLU -1-0.810-0.90131.687-0.009-0.0090.0000.0000.0000.000
124A131LYS 10.8760.94135.2810.0150.0150.0000.0000.0000.000
125A132GLN 0-0.068-0.04128.5080.0000.0000.0000.0000.0000.000
126A133GLY 00.0580.03334.1240.0030.0030.0000.0000.0000.000
127A134GLN 00.0740.03035.5370.0020.0020.0000.0000.0000.000
128A135ARG 10.8270.89434.288-0.001-0.0010.0000.0000.0000.000
129A136PHE 00.0220.01535.6250.0010.0010.0000.0000.0000.000
130A137GLY 00.0620.02837.7670.0010.0010.0000.0000.0000.000
131A138LEU 00.051-0.03040.5850.0010.0010.0000.0000.0000.000
132A139ARG 10.7740.87635.324-0.021-0.0210.0000.0000.0000.000
133A140GLN 0-0.025-0.03238.9040.0010.0010.0000.0000.0000.000
134A141ILE 00.0040.06842.4420.0000.0000.0000.0000.0000.000
135A142ARG 10.9290.97145.079-0.008-0.0080.0000.0000.0000.000
136A143ARG 10.9130.96138.904-0.023-0.0230.0000.0000.0000.000
137A144ALA 00.0430.02946.1750.0000.0000.0000.0000.0000.000
138A145VAL 00.0020.00647.9960.0000.0000.0000.0000.0000.000
139A146GLU -1-0.950-0.96947.3840.0140.0140.0000.0000.0000.000
140A147ARG 10.7760.90243.905-0.020-0.0200.0000.0000.0000.000
141A148GLY 0-0.006-0.01249.9500.0010.0010.0000.0000.0000.000
142A149GLU -1-0.868-0.92947.0360.0190.0190.0000.0000.0000.000
143A150LEU 0-0.016-0.02149.134-0.001-0.0010.0000.0000.0000.000
144A151PRO 00.0340.02852.8540.0000.0000.0000.0000.0000.000
145A152ALA 00.0720.03755.2210.0000.0000.0000.0000.0000.000
146A153ARG 10.8520.90556.294-0.006-0.0060.0000.0000.0000.000
147A154LEU 00.0380.01951.383-0.001-0.0010.0000.0000.0000.000
148A155ASP -1-0.933-0.98353.6820.0030.0030.0000.0000.0000.000
149A156VAL 0-0.028-0.01948.0700.0000.0000.0000.0000.0000.000
150A157GLU -1-0.890-0.94547.3980.0020.0020.0000.0000.0000.000
151A158LEU 00.0460.05849.1160.0000.0000.0000.0000.0000.000
152A159ALA 00.0210.01449.3830.0000.0000.0000.0000.0000.000
153A160SER 0-0.065-0.06044.8900.0000.0000.0000.0000.0000.000
154A161ILE 00.0260.01846.0110.0000.0000.0000.0000.0000.000
155A162TYR 0-0.051-0.01447.353-0.001-0.0010.0000.0000.0000.000
156A163LEU 00.020-0.01244.1040.0000.0000.0000.0000.0000.000
157A164GLN 0-0.092-0.04940.0460.0010.0010.0000.0000.0000.000
158A165SER 0-0.0010.00743.051-0.001-0.0010.0000.0000.0000.000
159A166LEU 0-0.062-0.01344.7600.0000.0000.0000.0000.0000.000
160A167TRP 00.008-0.03335.045-0.001-0.0010.0000.0000.0000.000
161A168ASP -1-0.829-0.90840.613-0.002-0.0020.0000.0000.0000.000
162A169GLY 0-0.023-0.01041.658-0.001-0.0010.0000.0000.0000.000
163A170ILE 0-0.056-0.01741.0540.0000.0000.0000.0000.0000.000
164A171CYS 0-0.0050.00137.2650.0000.0000.0000.0000.0000.000
165A172GLY 00.0320.01639.426-0.001-0.0010.0000.0000.0000.000
166A173THR 0-0.157-0.09041.5160.0000.0000.0000.0000.0000.000
167A174LEU 0-0.029-0.01037.9630.0010.0010.0000.0000.0000.000
168A175ALA 00.0050.02536.570-0.001-0.0010.0000.0000.0000.000
169A176TRP 00.0540.01037.336-0.001-0.0010.0000.0000.0000.000
170A177THR 0-0.102-0.03840.8310.0000.0000.0000.0000.0000.000
171A178GLU -1-0.796-0.90541.992-0.001-0.0010.0000.0000.0000.000
172A179ARG 10.8430.90944.4870.0010.0010.0000.0000.0000.000
173A180LEU 0-0.058-0.02142.7460.0010.0010.0000.0000.0000.000
174A181ARG 11.0071.02641.748-0.001-0.0010.0000.0000.0000.000
175A182ASP -1-0.898-0.96342.0790.0060.0060.0000.0000.0000.000
176A183ASP -1-0.883-0.92742.6070.0150.0150.0000.0000.0000.000
177A184PRO 00.0610.03938.952-0.001-0.0010.0000.0000.0000.000
178A185TRP 00.0480.01935.4730.0000.0000.0000.0000.0000.000
179A186ASN 00.025-0.01039.9890.0020.0020.0000.0000.0000.000
180A187ARG 10.7830.90242.959-0.008-0.0080.0000.0000.0000.000
181A188ALA 00.0920.04141.0410.0000.0000.0000.0000.0000.000
182A189GLU -1-0.848-0.93941.6020.0200.0200.0000.0000.0000.000
183A190ARG 10.9180.95843.159-0.012-0.0120.0000.0000.0000.000
184A191MET 0-0.035-0.01545.654-0.001-0.0010.0000.0000.0000.000
185A192PHE 00.0720.01540.3030.0000.0000.0000.0000.0000.000
186A193ARG 10.8700.93843.511-0.020-0.0200.0000.0000.0000.000
187A194ALA 00.0120.00447.2110.0000.0000.0000.0000.0000.000
188A195GLY 00.0120.00848.123-0.001-0.0010.0000.0000.0000.000
189A196LEU 00.007-0.01644.3360.0000.0000.0000.0000.0000.000
190A197ASP -1-0.857-0.92148.7460.0120.0120.0000.0000.0000.000
191A198SER 0-0.095-0.02951.714-0.001-0.0010.0000.0000.0000.000
192A199LEU 00.0380.00248.3680.0000.0000.0000.0000.0000.000
193A200ARG 10.8500.93252.211-0.012-0.0120.0000.0000.0000.000
194A201SER 0-0.102-0.05254.1400.0000.0000.0000.0000.0000.000
195A202SER 00.0470.01356.580-0.001-0.0010.0000.0000.0000.000
196A203PRO 00.021-0.00257.8190.0000.0000.0000.0000.0000.000
197A204TYR 0-0.029-0.02258.5880.0000.0000.0000.0000.0000.000
198A205LEU 00.0610.04752.7160.0000.0000.0000.0000.0000.000
199A206LEU 0-0.0250.01255.7050.0000.0000.0000.0000.0000.000
200A207LEU 00.0500.03756.215-0.001-0.0010.0000.0000.0000.000
201A208ALA 0-0.082-0.04559.3780.0000.0000.0000.0000.0000.000
202A209NME 00.0050.02262.7750.0000.0000.0000.0000.0000.000