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: LN6Y9

Calculation Name: 2AUA-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2AUA

Chain ID: A

ChEMBL ID:

UniProt ID: Q81DM5

Base Structure: X-ray

Registration Date: 2023-09-23

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 OptAll
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 207
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2374743.401174
FMO2-HF: Nuclear repulsion 2289667.591691
FMO2-HF: Total energy -85075.809483
FMO2-MP2: Total energy -85325.277731


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:-11:LEU)


Summations of interaction energy for fragment #1(A:-11:LEU)
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.
-2.611.7390.958-2.09-3.2160.002
Interaction energy analysis for fragmet #1(A:-11:LEU)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.057 / q_NPA : 0.016
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].
3A-9THR0-0.019-0.0052.211-2.7600.7910.872-1.924-2.4980.003
4A-8GLU-1-0.886-0.9384.891-0.285-0.117-0.001-0.009-0.1570.000
5A-7ASN0-0.041-0.0247.6500.2130.2130.0000.0000.0000.000
6A-6LEU0-0.036-0.0292.826-0.4800.1500.087-0.157-0.561-0.001
7A-5TYR00.0140.0146.7380.1720.1720.0000.0000.0000.000
8A-4PHE0-0.062-0.03110.398-0.027-0.0270.0000.0000.0000.000
9A-3GLN0-0.0070.00812.107-0.005-0.0050.0000.0000.0000.000
10A-2SER0-0.006-0.02812.2130.0780.0780.0000.0000.0000.000
11A-1ASN0-0.062-0.0359.7400.1590.1590.0000.0000.0000.000
12A0ALA0-0.0090.00113.0990.0510.0510.0000.0000.0000.000
13A1MET0-0.0120.00216.643-0.022-0.0220.0000.0000.0000.000
14A2ASN00.0120.00518.5740.0290.0290.0000.0000.0000.000
15A3GLU-1-0.894-0.91920.2360.0660.0660.0000.0000.0000.000
16A4THR0-0.062-0.03922.0910.0170.0170.0000.0000.0000.000
17A5GLU-1-0.793-0.87523.8470.0580.0580.0000.0000.0000.000
18A6PHE0-0.069-0.02826.4600.0030.0030.0000.0000.0000.000
19A7TYR0-0.008-0.01030.265-0.007-0.0070.0000.0000.0000.000
20A8ALA00.0050.00933.6950.0030.0030.0000.0000.0000.000
21A9TYR0-0.0050.01036.341-0.004-0.0040.0000.0000.0000.000
22A10HIS0-0.003-0.02039.059-0.001-0.0010.0000.0000.0000.000
23A11ILE00.0190.01941.046-0.001-0.0010.0000.0000.0000.000
24A12VAL00.0020.01942.202-0.001-0.0010.0000.0000.0000.000
25A13THR00.022-0.00744.609-0.001-0.0010.0000.0000.0000.000
26A14ARG10.8910.94643.640-0.002-0.0020.0000.0000.0000.000
27A15LYS10.9850.96844.2690.0080.0080.0000.0000.0000.000
28A16LYS10.8070.90544.217-0.001-0.0010.0000.0000.0000.000
29A17MET0-0.0250.00239.403-0.001-0.0010.0000.0000.0000.000
30A18HIS0-0.024-0.00937.852-0.001-0.0010.0000.0000.0000.000
31A19ILE00.0160.00236.9900.0000.0000.0000.0000.0000.000
32A20GLY00.0220.01133.917-0.003-0.0030.0000.0000.0000.000
33A21GLN0-0.022-0.00333.571-0.004-0.0040.0000.0000.0000.000
34A22MET00.0190.01427.7750.0050.0050.0000.0000.0000.000
35A23ILE0-0.085-0.05631.685-0.003-0.0030.0000.0000.0000.000
36A24PRO0-0.0080.01728.5680.0050.0050.0000.0000.0000.000
37A25PHE0-0.033-0.02529.001-0.003-0.0030.0000.0000.0000.000
38A26ASN00.0290.00724.0490.0030.0030.0000.0000.0000.000
39A27LYS10.9040.94422.5340.0490.0490.0000.0000.0000.000
40A28ASN0-0.0130.00026.3840.0000.0000.0000.0000.0000.000
41A29GLN00.0540.04327.7190.0020.0020.0000.0000.0000.000
42A30HIS00.0760.06031.9850.0030.0030.0000.0000.0000.000
43A31ASN0-0.012-0.01635.581-0.003-0.0030.0000.0000.0000.000
44A32THR0-0.013-0.02438.072-0.001-0.0010.0000.0000.0000.000
45A33LEU0-0.0070.01540.777-0.001-0.0010.0000.0000.0000.000
46A34TYR00.006-0.01438.9300.0010.0010.0000.0000.0000.000
47A35HIS0-0.026-0.03438.8740.0000.0000.0000.0000.0000.000
48A36PHE0-0.063-0.03742.916-0.001-0.0010.0000.0000.0000.000
49A37PHE0-0.033-0.03044.8380.0000.0000.0000.0000.0000.000
50A38PHE0-0.007-0.00541.2730.0010.0010.0000.0000.0000.000
51A39GLU-1-0.828-0.87240.610-0.008-0.0080.0000.0000.0000.000
52A40ARG10.7880.91745.181-0.003-0.0030.0000.0000.0000.000
53A41GLU-1-0.867-0.93348.596-0.003-0.0030.0000.0000.0000.000
54A42GLN0-0.069-0.04251.6940.0000.0000.0000.0000.0000.000
55A43LEU00.0230.02954.7580.0010.0010.0000.0000.0000.000
56A44ASN0-0.063-0.05457.9770.0000.0000.0000.0000.0000.000
57A45ALA00.006-0.01061.162-0.001-0.0010.0000.0000.0000.000
58A46ASN0-0.101-0.05063.551-0.001-0.0010.0000.0000.0000.000
59A47GLY0-0.0080.00659.116-0.001-0.0010.0000.0000.0000.000
60A48GLU-1-0.844-0.89858.271-0.001-0.0010.0000.0000.0000.000
61A49ASP-1-0.732-0.87855.3100.0010.0010.0000.0000.0000.000
62A50GLY00.007-0.01056.6830.0000.0000.0000.0000.0000.000
63A51ILE00.0100.00454.7610.0010.0010.0000.0000.0000.000
64A52GLN0-0.0020.01857.9830.0000.0000.0000.0000.0000.000
65A53ILE00.0110.01159.9250.0000.0000.0000.0000.0000.000
66A54LEU0-0.005-0.00559.2050.0000.0000.0000.0000.0000.000
67A55ASN0-0.046-0.03459.6590.0010.0010.0000.0000.0000.000
68A56ASN0-0.066-0.03863.3920.0000.0000.0000.0000.0000.000
69A57HIS0-0.068-0.04265.7660.0000.0000.0000.0000.0000.000
70A58TYR0-0.073-0.04865.7870.0000.0000.0000.0000.0000.000
71A59LYS10.8750.92667.668-0.001-0.0010.0000.0000.0000.000
72A60ASN0-0.042-0.02570.9340.0000.0000.0000.0000.0000.000
73A61ASP-1-0.861-0.89370.2490.0060.0060.0000.0000.0000.000
74A62GLU-1-0.894-0.93071.5540.0050.0050.0000.0000.0000.000
75A63LEU00.001-0.01865.1220.0000.0000.0000.0000.0000.000
76A64HIS0-0.033-0.00869.4830.0000.0000.0000.0000.0000.000
77A65ILE0-0.023-0.00664.716-0.001-0.0010.0000.0000.0000.000
78A66ASN0-0.020-0.01868.6790.0000.0000.0000.0000.0000.000
79A67ASN00.006-0.01168.2160.0000.0000.0000.0000.0000.000
80A68GLU-1-0.862-0.92663.565-0.001-0.0010.0000.0000.0000.000
81A69ASN00.0490.03363.7760.0000.0000.0000.0000.0000.000
82A70ALA00.0360.02063.5420.0000.0000.0000.0000.0000.000
83A71LYS10.9670.98261.0150.0000.0000.0000.0000.0000.000
84A72VAL0-0.0010.01358.3980.0010.0010.0000.0000.0000.000
85A73VAL00.0250.01758.5650.0000.0000.0000.0000.0000.000
86A74ILE0-0.0150.00058.6990.0010.0010.0000.0000.0000.000
87A75SER0-0.032-0.03756.6290.0010.0010.0000.0000.0000.000
88A76TYR00.0340.02252.1810.0010.0010.0000.0000.0000.000
89A77MET00.0060.02253.6840.0010.0010.0000.0000.0000.000
90A78ASP-1-0.814-0.89253.9090.0110.0110.0000.0000.0000.000
91A79GLN0-0.047-0.02448.4620.0010.0010.0000.0000.0000.000
92A80THR00.028-0.00449.6340.0010.0010.0000.0000.0000.000
93A81ILE0-0.037-0.01649.2680.0010.0010.0000.0000.0000.000
94A82ARG10.7930.86948.356-0.011-0.0110.0000.0000.0000.000
95A83ALA00.0480.02545.3510.0010.0010.0000.0000.0000.000
96A84ALA0-0.0130.01044.5010.0010.0010.0000.0000.0000.000
97A85ARG10.7840.88044.988-0.018-0.0180.0000.0000.0000.000
98A86GLU-1-0.715-0.83441.3720.0270.0270.0000.0000.0000.000
99A87THR0-0.022-0.02040.5300.0020.0020.0000.0000.0000.000
100A88ILE0-0.046-0.01640.2200.0020.0020.0000.0000.0000.000
101A89VAL00.005-0.00539.0670.0030.0030.0000.0000.0000.000
102A90GLU-1-0.734-0.81933.5760.0400.0400.0000.0000.0000.000
103A91MET0-0.040-0.01935.7390.0020.0020.0000.0000.0000.000
104A92VAL0-0.013-0.02436.1430.0030.0030.0000.0000.0000.000
105A93ARG10.7820.88929.576-0.047-0.0470.0000.0000.0000.000
106A94LEU0-0.025-0.02230.8290.0060.0060.0000.0000.0000.000
107A95GLN0-0.067-0.02331.5670.0040.0040.0000.0000.0000.000
108A96GLU-1-0.825-0.89232.8450.0610.0610.0000.0000.0000.000
109A97PHE0-0.025-0.00731.3740.0030.0030.0000.0000.0000.000
110A98PRO00.0050.01227.330-0.004-0.0040.0000.0000.0000.000
111A99GLU-1-0.872-0.94826.4890.0910.0910.0000.0000.0000.000
112A100TYR0-0.0100.00927.6490.0000.0000.0000.0000.0000.000
113A101PRO0-0.0150.00030.555-0.005-0.0050.0000.0000.0000.000
114A102SER00.001-0.01131.497-0.003-0.0030.0000.0000.0000.000
115A103ARG10.8410.86433.368-0.032-0.0320.0000.0000.0000.000
116A104LEU0-0.0290.00135.873-0.003-0.0030.0000.0000.0000.000
117A105SER0-0.068-0.05831.562-0.004-0.0040.0000.0000.0000.000
118A106CYS0-0.056-0.01232.0650.0040.0040.0000.0000.0000.000
119A107LEU00.0040.01934.016-0.005-0.0050.0000.0000.0000.000
120A108TYR0-0.025-0.02636.2310.0040.0040.0000.0000.0000.000
121A109ALA0-0.033-0.01337.513-0.003-0.0030.0000.0000.0000.000
122A110ALA00.0140.01039.5890.0010.0010.0000.0000.0000.000
123A111LYS10.8730.91738.105-0.054-0.0540.0000.0000.0000.000
124A112SER0-0.022-0.04338.9770.0010.0010.0000.0000.0000.000
125A113TYR00.011-0.02541.638-0.001-0.0010.0000.0000.0000.000
126A114GLU-1-0.838-0.90944.1530.0310.0310.0000.0000.0000.000
127A115ASP-1-0.818-0.88743.1580.0370.0370.0000.0000.0000.000
128A116ALA00.0110.00143.506-0.002-0.0020.0000.0000.0000.000
129A117LEU00.0190.00945.441-0.002-0.0020.0000.0000.0000.000
130A118LYS10.7790.88546.810-0.035-0.0350.0000.0000.0000.000
131A119TRP0-0.014-0.01944.312-0.003-0.0030.0000.0000.0000.000
132A120LYS10.7870.90448.675-0.014-0.0140.0000.0000.0000.000
133A121ALA00.0390.02050.357-0.001-0.0010.0000.0000.0000.000
134A122LEU0-0.0020.00550.339-0.001-0.0010.0000.0000.0000.000
135A123PHE00.007-0.01046.439-0.001-0.0010.0000.0000.0000.000
136A124ASP-1-0.778-0.87752.6040.0110.0110.0000.0000.0000.000
137A125SER0-0.092-0.04755.711-0.001-0.0010.0000.0000.0000.000
138A126TYR0-0.040-0.02654.900-0.001-0.0010.0000.0000.0000.000
139A127ASN0-0.085-0.04657.005-0.001-0.0010.0000.0000.0000.000
140A128ARG10.8520.95348.307-0.014-0.0140.0000.0000.0000.000
141A129GLU-1-0.877-0.93852.4910.0060.0060.0000.0000.0000.000
142A130VAL0-0.052-0.04148.2310.0010.0010.0000.0000.0000.000
143A131LEU0-0.083-0.03047.379-0.001-0.0010.0000.0000.0000.000
144A132GLN00.003-0.01844.1090.0000.0000.0000.0000.0000.000
145A133ILE0-0.0370.01343.9810.0010.0010.0000.0000.0000.000
146A134VAL0-0.028-0.01839.688-0.001-0.0010.0000.0000.0000.000
147A135LYS10.8050.89237.378-0.025-0.0250.0000.0000.0000.000
148A136LEU0-0.020-0.01434.390-0.003-0.0030.0000.0000.0000.000
149A137ARG10.8370.89926.228-0.045-0.0450.0000.0000.0000.000
150A138VAL0-0.017-0.00828.314-0.007-0.0070.0000.0000.0000.000
151A139ILE00.0130.00722.6020.0080.0080.0000.0000.0000.000
152A140GLY00.0200.00424.844-0.008-0.0080.0000.0000.0000.000
153A141SER00.0020.00425.7270.0140.0140.0000.0000.0000.000
154A142SER00.016-0.01428.014-0.008-0.0080.0000.0000.0000.000
155A143PHE00.0140.01331.7580.0050.0050.0000.0000.0000.000
156A144GLU-1-0.837-0.88834.6230.0510.0510.0000.0000.0000.000
157A145GLY00.0600.03838.1010.0020.0020.0000.0000.0000.000
158A146ASP-1-0.724-0.85540.6500.0330.0330.0000.0000.0000.000
159A147GLY00.0510.01644.4260.0000.0000.0000.0000.0000.000
160A148ASN0-0.074-0.06146.333-0.003-0.0030.0000.0000.0000.000
161A149LEU0-0.0090.00944.088-0.001-0.0010.0000.0000.0000.000
162A150LEU0-0.0230.02342.3400.0010.0010.0000.0000.0000.000
163A151PRO0-0.026-0.01844.506-0.001-0.0010.0000.0000.0000.000
164A152LYS10.8010.90047.668-0.027-0.0270.0000.0000.0000.000
165A153GLU-1-0.838-0.92850.5220.0190.0190.0000.0000.0000.000
166A154ASP-1-0.805-0.89253.1260.0200.0200.0000.0000.0000.000
167A155GLY00.0580.02154.0250.0000.0000.0000.0000.0000.000
168A156ILE0-0.077-0.01551.0240.0000.0000.0000.0000.0000.000
169A157PRO00.0370.00252.0340.0000.0000.0000.0000.0000.000
170A158PHE00.0900.02446.9920.0010.0010.0000.0000.0000.000
171A159SER00.0140.01746.4900.0010.0010.0000.0000.0000.000
172A160GLN00.0530.01746.7550.0010.0010.0000.0000.0000.000
173A161LYS10.7910.90247.233-0.019-0.0190.0000.0000.0000.000
174A162ILE00.0170.00641.8620.0020.0020.0000.0000.0000.000
175A163GLU-1-0.899-0.94143.0230.0390.0390.0000.0000.0000.000
176A164GLN0-0.009-0.00544.6120.0020.0020.0000.0000.0000.000
177A165ALA00.0510.02841.1610.0020.0020.0000.0000.0000.000
178A166ARG10.8260.89239.040-0.046-0.0460.0000.0000.0000.000
179A167LYS10.8230.89140.468-0.036-0.0360.0000.0000.0000.000
180A168TYR0-0.032-0.03838.8770.0020.0020.0000.0000.0000.000
181A169TRP0-0.009-0.02035.4890.0020.0020.0000.0000.0000.000
182A170LYS10.8130.91137.089-0.057-0.0570.0000.0000.0000.000
183A171GLY00.0420.04538.8820.0030.0030.0000.0000.0000.000
184A172ASN0-0.031-0.03240.4810.0000.0000.0000.0000.0000.000
185A173ILE0-0.015-0.00342.9490.0010.0010.0000.0000.0000.000
186A174ARG10.7590.84145.475-0.037-0.0370.0000.0000.0000.000
187A175ASN0-0.061-0.03043.533-0.002-0.0020.0000.0000.0000.000
188A176GLU-1-0.821-0.90045.6310.0330.0330.0000.0000.0000.000
189A177LEU00.0120.01145.6690.0000.0000.0000.0000.0000.000
190A178PRO0-0.0160.01140.845-0.001-0.0010.0000.0000.0000.000
191A179GLU-1-0.785-0.87040.7470.0290.0290.0000.0000.0000.000
192A180LEU0-0.029-0.01735.3320.0030.0030.0000.0000.0000.000
193A181LEU00.0090.01035.157-0.004-0.0040.0000.0000.0000.000
194A182ILE00.011-0.01232.3530.0060.0060.0000.0000.0000.000
195A183ASN00.0250.01228.092-0.001-0.0010.0000.0000.0000.000
196A184GLY00.0840.03925.8260.0090.0090.0000.0000.0000.000
197A185GLU-1-0.872-0.94524.667-0.018-0.0180.0000.0000.0000.000
198A186ILE0-0.022-0.00927.0460.0090.0090.0000.0000.0000.000
199A187GLU-1-0.859-0.94030.1620.0070.0070.0000.0000.0000.000
200A188VAL0-0.020-0.01032.0720.0050.0050.0000.0000.0000.000
201A189VAL00.0130.00333.039-0.003-0.0030.0000.0000.0000.000
202A190GLU-1-0.813-0.90836.0040.0220.0220.0000.0000.0000.000
203A191ILE0-0.027-0.01139.7720.0000.0000.0000.0000.0000.000
204A192ILE0-0.031-0.00241.8570.0000.0000.0000.0000.0000.000
205A193ASP-1-0.793-0.89345.1970.0140.0140.0000.0000.0000.000
206A194ASP-1-0.772-0.89647.1130.0020.0020.0000.0000.0000.000
207A195PHE00.0070.02549.176-0.002-0.0020.0000.0000.0000.000