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

tag_button

FMODB ID: 7696K

Calculation Name: 2AUK-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2AUK

Chain ID: A

ChEMBL ID:

UniProt ID: P0A8T7

Base Structure: X-ray

Registration Date: 2023-09-24

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 189
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -1740344.378259
FMO2-HF: Nuclear repulsion 1670126.414476
FMO2-HF: Total energy -70217.963783
FMO2-MP2: Total energy -70423.760442


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:GLY)


Summations of interaction energy for fragment #1(A:1:GLY)
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.
-11.947-19.78727.876-11.289-8.745-0.048
Interaction energy analysis for fragmet #1(A:1:GLY)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.015 / q_NPA : -0.023
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].
3A3HIS00.0040.0062.468-5.113-1.8083.003-3.306-3.0020.003
4A4MET0-0.053-0.0092.4260.411-0.9565.732-1.966-2.399-0.007
5A5ALA00.1120.0425.164-0.563-0.597-0.001-0.0040.0390.000
6A6ALA00.0400.0115.8090.0200.0200.0000.0000.0000.000
7A7ALA0-0.070-0.0213.970-0.0560.050-0.001-0.050-0.0540.000
8A8GLU-1-0.939-0.9635.728-0.941-0.9410.0000.0000.0000.000
9A9SER0-0.054-0.0229.2380.2580.2580.0000.0000.0000.000
10A10SER0-0.060-0.0286.9640.0050.0050.0000.0000.0000.000
11A11ILE00.0010.0068.307-0.276-0.2760.0000.0000.0000.000
12A12GLN0-0.033-0.0091.744-6.267-16.11719.143-5.963-3.329-0.044
13A13VAL0-0.0300.0025.921-0.113-0.1130.0000.0000.0000.000
14A14LYS10.9520.9586.9261.3961.3960.0000.0000.0000.000
15A15ASN0-0.114-0.0588.2840.3990.3990.0000.0000.0000.000
16A16LYS10.9460.97111.540-0.182-0.1820.0000.0000.0000.000
17A17GLY00.0060.00114.029-0.030-0.0300.0000.0000.0000.000
18A18SER0-0.045-0.01216.8590.0180.0180.0000.0000.0000.000
19A19ILE00.0490.02513.694-0.042-0.0420.0000.0000.0000.000
20A20LYS10.9320.98317.5340.2430.2430.0000.0000.0000.000
21A21LEU0-0.009-0.00917.828-0.046-0.0460.0000.0000.0000.000
22A22SER0-0.037-0.02421.0450.0370.0370.0000.0000.0000.000
23A23ASN0-0.032-0.02223.481-0.001-0.0010.0000.0000.0000.000
24A24VAL00.0280.02121.999-0.016-0.0160.0000.0000.0000.000
25A25LYS10.9470.97324.4390.2220.2220.0000.0000.0000.000
26A26SER0-0.020-0.00523.138-0.019-0.0190.0000.0000.0000.000
27A27VAL00.0350.02524.5600.0180.0180.0000.0000.0000.000
28A28VAL00.0000.01624.429-0.019-0.0190.0000.0000.0000.000
29A29ASN00.0410.03922.4590.0220.0220.0000.0000.0000.000
30A30SER00.025-0.01726.1290.0110.0110.0000.0000.0000.000
31A31SER0-0.096-0.03422.5760.0110.0110.0000.0000.0000.000
32A32GLY0-0.028-0.02022.9400.0080.0080.0000.0000.0000.000
33A33LYS10.8850.94817.2180.1260.1260.0000.0000.0000.000
34A34LEU00.0370.03019.7680.0070.0070.0000.0000.0000.000
35A35VAL00.015-0.00119.669-0.044-0.0440.0000.0000.0000.000
36A36ILE00.0120.01518.0710.0300.0300.0000.0000.0000.000
37A37THR00.0260.00321.774-0.012-0.0120.0000.0000.0000.000
38A38SER0-0.062-0.04424.0600.0130.0130.0000.0000.0000.000
39A39ARG10.9810.97123.5370.2430.2430.0000.0000.0000.000
40A40ASN0-0.039-0.01723.642-0.029-0.0290.0000.0000.0000.000
41A41THR00.0550.04419.4830.0240.0240.0000.0000.0000.000
42A42GLU-1-0.964-0.97318.899-0.387-0.3870.0000.0000.0000.000
43A43LEU00.0220.01013.8700.0530.0530.0000.0000.0000.000
44A44LYS10.9420.96316.0520.2340.2340.0000.0000.0000.000
45A45LEU0-0.0030.01912.3410.0190.0190.0000.0000.0000.000
46A46ILE0-0.053-0.01515.8560.0060.0060.0000.0000.0000.000
47A47ASP-1-0.769-0.87418.448-0.083-0.0830.0000.0000.0000.000
48A48GLU-1-0.852-0.96419.284-0.015-0.0150.0000.0000.0000.000
49A49PHE0-0.092-0.04122.1760.0070.0070.0000.0000.0000.000
50A50GLY00.0000.00223.052-0.002-0.0020.0000.0000.0000.000
51A51ARG10.8430.91021.9840.0610.0610.0000.0000.0000.000
52A52THR0-0.018-0.01218.647-0.010-0.0100.0000.0000.0000.000
53A53LYS10.9420.97215.2070.1020.1020.0000.0000.0000.000
54A54GLU-1-0.748-0.82510.618-0.766-0.7660.0000.0000.0000.000
55A55SER00.006-0.00914.5980.0850.0850.0000.0000.0000.000
56A56TYR0-0.049-0.05610.023-0.163-0.1630.0000.0000.0000.000
57A57LYS10.9490.98415.2210.5180.5180.0000.0000.0000.000
58A58VAL00.015-0.00415.268-0.096-0.0960.0000.0000.0000.000
59A59PRO00.0160.01515.7120.0830.0830.0000.0000.0000.000
60A60TYR0-0.035-0.02418.7750.0150.0150.0000.0000.0000.000
61A61GLY00.005-0.01420.753-0.017-0.0170.0000.0000.0000.000
62A62ALA0-0.0410.00415.6160.0000.0000.0000.0000.0000.000
63A63VAL0-0.006-0.00215.6690.0680.0680.0000.0000.0000.000
64A64LEU0-0.033-0.02815.021-0.089-0.0890.0000.0000.0000.000
65A65ALA0-0.055-0.03412.9630.0540.0540.0000.0000.0000.000
66A66LYS10.8340.91214.3050.0730.0730.0000.0000.0000.000
67A67GLY00.006-0.00317.376-0.045-0.0450.0000.0000.0000.000
68A68ASP-1-0.871-0.95219.587-0.206-0.2060.0000.0000.0000.000
69A69GLY0-0.0010.00320.7510.0250.0250.0000.0000.0000.000
70A70GLU-1-0.876-0.91718.346-0.065-0.0650.0000.0000.0000.000
71A71GLN00.002-0.01617.729-0.008-0.0080.0000.0000.0000.000
72A72VAL0-0.034-0.01912.6630.0060.0060.0000.0000.0000.000
73A73ALA00.0030.00012.0950.0110.0110.0000.0000.0000.000
74A74GLY00.0360.0189.787-0.107-0.1070.0000.0000.0000.000
75A75GLY0-0.030-0.0145.5870.3510.3510.0000.0000.0000.000
76A76GLU-1-0.767-0.8665.5470.0010.0010.0000.0000.0000.000
77A77THR0-0.012-0.0155.912-0.539-0.5390.0000.0000.0000.000
78A78VAL00.002-0.0037.7920.2350.2350.0000.0000.0000.000
79A79ALA0-0.0050.00310.3530.1400.1400.0000.0000.0000.000
80A80ASN00.0260.00310.343-0.401-0.4010.0000.0000.0000.000
81A81TRP0-0.019-0.02012.1160.1170.1170.0000.0000.0000.000
82A82ASP-1-0.808-0.90313.500-0.561-0.5610.0000.0000.0000.000
83A83PRO0-0.012-0.01113.0370.0210.0210.0000.0000.0000.000
84A84HIS00.0520.01814.8050.0450.0450.0000.0000.0000.000
85A85THR0-0.029-0.00518.5400.0790.0790.0000.0000.0000.000
86A86MET0-0.0350.00320.287-0.038-0.0380.0000.0000.0000.000
87A87PRO0-0.018-0.00721.4610.0300.0300.0000.0000.0000.000
88A88VAL00.0150.01124.2370.0010.0010.0000.0000.0000.000
89A89ILE0-0.054-0.03523.6340.0050.0050.0000.0000.0000.000
90A90THR00.0020.01627.9420.0050.0050.0000.0000.0000.000
91A91GLU-1-0.926-0.99130.121-0.141-0.1410.0000.0000.0000.000
92A92VAL0-0.013-0.01232.2090.0050.0050.0000.0000.0000.000
93A93SER00.0160.01533.662-0.008-0.0080.0000.0000.0000.000
94A94GLY0-0.015-0.00234.9040.0020.0020.0000.0000.0000.000
95A95PHE0-0.029-0.00636.6570.0020.0020.0000.0000.0000.000
96A96VAL00.0070.01633.662-0.003-0.0030.0000.0000.0000.000
97A97ARG10.9240.98136.9470.0680.0680.0000.0000.0000.000
98A98PHE00.006-0.00235.283-0.005-0.0050.0000.0000.0000.000
99A99THR00.0020.00439.9830.0060.0060.0000.0000.0000.000
100A100ASP-1-0.813-0.92541.121-0.084-0.0840.0000.0000.0000.000
101A101MET0-0.0630.00235.224-0.006-0.0060.0000.0000.0000.000
102A102ILE0-0.003-0.00940.4400.0050.0050.0000.0000.0000.000
103A103ASP-1-0.858-0.94140.019-0.074-0.0740.0000.0000.0000.000
104A104GLY00.0020.00640.5160.0040.0040.0000.0000.0000.000
105A105GLN0-0.0580.00642.240-0.001-0.0010.0000.0000.0000.000
106A106THR0-0.052-0.05539.880-0.002-0.0020.0000.0000.0000.000
107A107ILE00.0120.01436.361-0.009-0.0090.0000.0000.0000.000
108A108THR00.0540.04034.8680.0100.0100.0000.0000.0000.000
109A109ARG10.8760.92733.0940.0700.0700.0000.0000.0000.000
110A110GLN0-0.009-0.00629.8170.0060.0060.0000.0000.0000.000
111A111THR0-0.021-0.03430.467-0.004-0.0040.0000.0000.0000.000
112A112ASP-1-0.879-0.92124.102-0.117-0.1170.0000.0000.0000.000
113A113GLU-1-0.931-0.98027.612-0.083-0.0830.0000.0000.0000.000
114A114LEU0-0.059-0.02622.5120.0160.0160.0000.0000.0000.000
115A115THR0-0.024-0.01423.0070.0150.0150.0000.0000.0000.000
116A116GLY0-0.0070.01226.0850.0090.0090.0000.0000.0000.000
117A117LEU0-0.031-0.01024.6980.0020.0020.0000.0000.0000.000
118A118SER00.0070.00828.633-0.003-0.0030.0000.0000.0000.000
119A119SER00.0030.00527.699-0.006-0.0060.0000.0000.0000.000
120A120LEU0-0.0050.01030.0850.0030.0030.0000.0000.0000.000
121A121VAL0-0.006-0.01029.841-0.012-0.0120.0000.0000.0000.000
122A122VAL0-0.034-0.01432.3010.0110.0110.0000.0000.0000.000
123A123LEU00.0340.03533.889-0.008-0.0080.0000.0000.0000.000
124A124ASP-1-0.833-0.94134.730-0.136-0.1360.0000.0000.0000.000
125A125SER0-0.009-0.01836.5970.0070.0070.0000.0000.0000.000
126A126ALA0-0.043-0.00338.8130.0080.0080.0000.0000.0000.000
127A127GLU-1-0.851-0.92735.533-0.118-0.1180.0000.0000.0000.000
128A128ARG10.7950.93037.8920.1130.1130.0000.0000.0000.000
129A129THR00.024-0.03042.1260.0010.0010.0000.0000.0000.000
130A130ALA00.010-0.01845.715-0.002-0.0020.0000.0000.0000.000
131A131GLY00.005-0.00448.560-0.001-0.0010.0000.0000.0000.000
132A132GLY00.0570.03744.8640.0000.0000.0000.0000.0000.000
133A133LYS10.7530.86743.1500.0870.0870.0000.0000.0000.000
134A134ASP-1-0.918-0.96444.475-0.082-0.0820.0000.0000.0000.000
135A135LEU0-0.0330.01144.015-0.001-0.0010.0000.0000.0000.000
136A136ARG10.8580.91641.0910.0950.0950.0000.0000.0000.000
137A137PRO00.0170.02837.6270.0010.0010.0000.0000.0000.000
138A138ALA00.010-0.00237.171-0.009-0.0090.0000.0000.0000.000
139A139LEU00.0100.01732.6410.0060.0060.0000.0000.0000.000
140A140LYS10.8820.94136.9050.0710.0710.0000.0000.0000.000
141A141ILE0-0.029-0.00834.7420.0010.0010.0000.0000.0000.000
142A142VAL0-0.026-0.00938.6520.0020.0020.0000.0000.0000.000
143A143ASP-1-0.749-0.89840.252-0.057-0.0570.0000.0000.0000.000
144A144ALA0-0.026-0.03242.1910.0010.0010.0000.0000.0000.000
145A145GLN0-0.058-0.02043.6130.0050.0050.0000.0000.0000.000
146A146GLY0-0.059-0.01645.0370.0010.0010.0000.0000.0000.000
147A147ASN0-0.063-0.03645.9730.0000.0000.0000.0000.0000.000
148A148ASP-1-0.810-0.90843.783-0.071-0.0710.0000.0000.0000.000
149A149VAL00.0340.03238.6710.0030.0030.0000.0000.0000.000
150A150LEU0-0.030-0.00441.080-0.004-0.0040.0000.0000.0000.000
151A151ILE0-0.0030.00836.979-0.002-0.0020.0000.0000.0000.000
152A152PRO0-0.026-0.02635.8430.0050.0050.0000.0000.0000.000
153A153GLY0-0.0080.00239.090-0.003-0.0030.0000.0000.0000.000
154A154THR0-0.044-0.01541.348-0.001-0.0010.0000.0000.0000.000
155A155ASP-1-0.867-0.93143.935-0.067-0.0670.0000.0000.0000.000
156A156MET0-0.037-0.03740.6230.0030.0030.0000.0000.0000.000
157A157PRO0-0.020-0.00741.753-0.003-0.0030.0000.0000.0000.000
158A158ALA00.000-0.00137.189-0.004-0.0040.0000.0000.0000.000
159A159GLN0-0.020-0.02338.6200.0060.0060.0000.0000.0000.000
160A160TYR0-0.0020.00233.123-0.004-0.0040.0000.0000.0000.000
161A161PHE00.0160.00735.7430.0010.0010.0000.0000.0000.000
162A162LEU0-0.017-0.01131.737-0.012-0.0120.0000.0000.0000.000
163A163PRO0-0.022-0.00631.0830.0080.0080.0000.0000.0000.000
164A164GLY00.028-0.00232.9700.0010.0010.0000.0000.0000.000
165A165LYS10.8840.91829.6080.1780.1780.0000.0000.0000.000
166A166ALA0-0.049-0.00728.764-0.011-0.0110.0000.0000.0000.000
167A167ILE00.0380.01024.8720.0150.0150.0000.0000.0000.000
168A168VAL00.004-0.00727.638-0.013-0.0130.0000.0000.0000.000
169A169GLN0-0.080-0.04424.8770.0020.0020.0000.0000.0000.000
170A170LEU0-0.019-0.00227.9630.0100.0100.0000.0000.0000.000
171A171GLU-1-0.864-0.94230.991-0.085-0.0850.0000.0000.0000.000
172A172ASP-1-0.851-0.94934.373-0.069-0.0690.0000.0000.0000.000
173A173GLY0-0.0070.00138.0000.0050.0050.0000.0000.0000.000
174A174VAL0-0.029-0.00332.1400.0050.0050.0000.0000.0000.000
175A175GLN0-0.0080.00234.5110.0000.0000.0000.0000.0000.000
176A176ILE0-0.019-0.01031.556-0.004-0.0040.0000.0000.0000.000
177A177SER0-0.024-0.03229.7680.0110.0110.0000.0000.0000.000
178A178SER0-0.0070.00230.090-0.008-0.0080.0000.0000.0000.000
179A179GLY00.001-0.01926.7880.0010.0010.0000.0000.0000.000
180A180ASP-1-0.747-0.86525.464-0.144-0.1440.0000.0000.0000.000
181A181THR0-0.088-0.05623.813-0.015-0.0150.0000.0000.0000.000
182A182LEU00.0390.02326.1780.0090.0090.0000.0000.0000.000
183A183ALA00.010-0.00427.8160.0110.0110.0000.0000.0000.000
184A184ARG10.9190.96320.8450.2500.2500.0000.0000.0000.000
185A185ILE0-0.0080.00125.2170.0180.0180.0000.0000.0000.000
186A186PRO00.0340.02223.749-0.030-0.0300.0000.0000.0000.000
187A187GLN0-0.0270.00218.9610.0090.0090.0000.0000.0000.000
188A188GLU-1-0.891-0.93524.222-0.195-0.1950.0000.0000.0000.000
189A189SER0-0.023-0.00524.506-0.019-0.0190.0000.0000.0000.000