FMODB

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

Last updated: 2024-07-23

All entries: 37450

Number of unique PDB entries: 7783

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FMODB ID: ZVJ7N

Calculation Name: 2EAY-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2EAY

Chain ID: A

ChEMBL ID:

UniProt ID: O66837

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 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 219
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2722370.348495
FMO2-HF: Nuclear repulsion 2636255.147818
FMO2-HF: Total energy -86115.200677
FMO2-MP2: Total energy -86371.830054


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.
-8.612-3.834.846-3.636-5.993-0.024
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 : 0.005 / q_NPA : -0.003
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].
3A3LYS10.8460.9222.209-5.170-2.2273.588-2.293-4.239-0.013
4A4ASN00.0110.0133.6480.5820.8530.0070.018-0.2960.000
5A5LEU00.0100.0117.191-0.292-0.2920.0000.0000.0000.000
6A6ILE00.0050.00810.1180.1670.1670.0000.0000.0000.000
7A7TRP0-0.008-0.01212.768-0.064-0.0640.0000.0000.0000.000
8A8LEU0-0.021-0.00615.9150.0620.0620.0000.0000.0000.000
9A9LYS10.8360.88819.6910.2790.2790.0000.0000.0000.000
10A10GLU-1-0.847-0.89622.534-0.219-0.2190.0000.0000.0000.000
11A11VAL00.0110.00721.0380.0000.0000.0000.0000.0000.000
12A12ASP-1-0.748-0.82424.443-0.274-0.2740.0000.0000.0000.000
13A13SER0-0.020-0.03122.686-0.015-0.0150.0000.0000.0000.000
14A14THR00.028-0.00517.1060.0220.0220.0000.0000.0000.000
15A15GLN00.0240.01817.239-0.089-0.0890.0000.0000.0000.000
16A16GLU-1-0.809-0.90019.575-0.285-0.2850.0000.0000.0000.000
17A17ARG10.7980.84820.2380.2670.2670.0000.0000.0000.000
18A18LEU00.0030.02013.948-0.011-0.0110.0000.0000.0000.000
19A19LYS10.7900.88817.9780.3250.3250.0000.0000.0000.000
20A20GLU-1-0.902-0.92020.703-0.216-0.2160.0000.0000.0000.000
21A21TRP0-0.035-0.02118.6280.0050.0050.0000.0000.0000.000
22A22ASN0-0.049-0.03016.258-0.059-0.0590.0000.0000.0000.000
23A23VAL00.0290.02011.9810.0350.0350.0000.0000.0000.000
24A24SER00.0290.01210.2260.0500.0500.0000.0000.0000.000
25A25TYR00.0120.0036.919-0.172-0.1720.0000.0000.0000.000
26A26GLY00.0200.0115.1660.3440.3440.0000.0000.0000.000
27A27THR0-0.026-0.0125.749-0.410-0.4100.0000.0000.0000.000
28A28ALA0-0.026-0.0068.8870.0210.0210.0000.0000.0000.000
29A29LEU0-0.029-0.00810.5840.0860.0860.0000.0000.0000.000
30A30VAL00.010-0.01112.693-0.010-0.0100.0000.0000.0000.000
31A31ALA00.0300.00715.7970.0600.0600.0000.0000.0000.000
32A32ASP-1-0.779-0.85019.269-0.412-0.4120.0000.0000.0000.000
33A33ARG10.7280.81521.1300.2580.2580.0000.0000.0000.000
34A34GLN00.0410.02321.087-0.020-0.0200.0000.0000.0000.000
35A35THR0-0.025-0.01124.9620.0130.0130.0000.0000.0000.000
36A36LYS10.9180.95226.0970.2160.2160.0000.0000.0000.000
37A49GLU-1-0.790-0.89024.963-0.274-0.2740.0000.0000.0000.000
38A50GLY00.0410.02623.5270.0130.0130.0000.0000.0000.000
39A51GLY00.0250.02422.344-0.004-0.0040.0000.0000.0000.000
40A52LEU0-0.030-0.01014.575-0.010-0.0100.0000.0000.0000.000
41A53TYR0-0.0080.00417.9370.0040.0040.0000.0000.0000.000
42A54PHE00.0270.00310.466-0.046-0.0460.0000.0000.0000.000
43A55SER00.0200.00813.9840.0510.0510.0000.0000.0000.000
44A56PHE0-0.012-0.0219.144-0.165-0.1650.0000.0000.0000.000
45A57LEU00.0070.01710.8590.1150.1150.0000.0000.0000.000
46A58LEU0-0.004-0.0088.060-0.251-0.2510.0000.0000.0000.000
47A59ASN00.0380.00910.1760.1340.1340.0000.0000.0000.000
48A60PRO00.013-0.01212.012-0.008-0.0080.0000.0000.0000.000
49A61LYS10.8300.90515.1860.2070.2070.0000.0000.0000.000
50A62GLU-1-0.815-0.88910.077-0.314-0.3140.0000.0000.0000.000
51A63PHE0-0.024-0.0279.026-0.048-0.0480.0000.0000.0000.000
52A64GLU-1-0.886-0.93514.947-0.172-0.1720.0000.0000.0000.000
53A65ASN0-0.032-0.00518.5240.0000.0000.0000.0000.0000.000
54A66LEU00.016-0.01417.032-0.032-0.0320.0000.0000.0000.000
55A67LEU0-0.0160.01219.560-0.005-0.0050.0000.0000.0000.000
56A68GLN0-0.044-0.04218.548-0.020-0.0200.0000.0000.0000.000
57A69LEU00.0070.00912.448-0.020-0.0200.0000.0000.0000.000
58A70PRO00.0170.00215.327-0.055-0.0550.0000.0000.0000.000
59A71LEU00.0210.03217.230-0.014-0.0140.0000.0000.0000.000
60A72VAL00.0120.00612.4960.0000.0000.0000.0000.0000.000
61A73LEU0-0.0330.00210.921-0.058-0.0580.0000.0000.0000.000
62A74GLY00.0770.02813.558-0.028-0.0280.0000.0000.0000.000
63A75LEU0-0.0070.00215.6920.0130.0130.0000.0000.0000.000
64A76SER00.000-0.00810.7720.0070.0070.0000.0000.0000.000
65A77VAL0-0.0180.00112.903-0.025-0.0250.0000.0000.0000.000
66A78SER0-0.032-0.03114.4820.0440.0440.0000.0000.0000.000
67A79GLU-1-0.779-0.87114.304-0.287-0.2870.0000.0000.0000.000
68A80ALA0-0.014-0.00812.2030.0270.0270.0000.0000.0000.000
69A81LEU00.0180.00614.2180.0130.0130.0000.0000.0000.000
70A82GLU-1-0.791-0.86817.600-0.188-0.1880.0000.0000.0000.000
71A83GLU-1-0.851-0.91414.197-0.260-0.2600.0000.0000.0000.000
72A84ILE0-0.081-0.02913.813-0.001-0.0010.0000.0000.0000.000
73A85THR0-0.049-0.05717.8770.0270.0270.0000.0000.0000.000
74A86GLU-1-0.954-0.96221.298-0.114-0.1140.0000.0000.0000.000
75A87ILE0-0.036-0.00623.2290.0190.0190.0000.0000.0000.000
76A88PRO0-0.0090.00122.744-0.021-0.0210.0000.0000.0000.000
77A89PHE0-0.020-0.01920.726-0.004-0.0040.0000.0000.0000.000
78A90SER0-0.004-0.00622.4250.0040.0040.0000.0000.0000.000
79A91LEU0-0.046-0.02319.015-0.029-0.0290.0000.0000.0000.000
80A92LYS10.8630.93822.8820.2100.2100.0000.0000.0000.000
81A93TRP0-0.0140.00024.048-0.019-0.0190.0000.0000.0000.000
82A94PRO00.006-0.00523.3410.0120.0120.0000.0000.0000.000
83A95ASN0-0.043-0.05620.3290.0020.0020.0000.0000.0000.000
84A96ASP-1-0.732-0.86020.326-0.328-0.3280.0000.0000.0000.000
85A97VAL0-0.034-0.01318.0240.0070.0070.0000.0000.0000.000
86A98TYR00.019-0.00121.5110.0020.0020.0000.0000.0000.000
87A99PHE00.0260.01524.368-0.003-0.0030.0000.0000.0000.000
88A100GLN00.0160.00926.7100.0120.0120.0000.0000.0000.000
89A101GLU-1-0.794-0.89529.103-0.160-0.1600.0000.0000.0000.000
90A102LYS10.7970.91229.3480.1540.1540.0000.0000.0000.000
91A103LYS10.8020.89623.4060.2790.2790.0000.0000.0000.000
92A104VAL0-0.001-0.00221.2120.0020.0020.0000.0000.0000.000
93A105SER0-0.054-0.05718.383-0.035-0.0350.0000.0000.0000.000
94A106GLY00.0120.01119.8150.0370.0370.0000.0000.0000.000
95A107VAL0-0.038-0.00615.522-0.050-0.0500.0000.0000.0000.000
96A108LEU00.0260.02517.4350.0550.0550.0000.0000.0000.000
97A109CYS0-0.031-0.02516.279-0.082-0.0820.0000.0000.0000.000
98A110GLU-1-0.761-0.84717.967-0.297-0.2970.0000.0000.0000.000
99A111LEU00.0270.01518.349-0.033-0.0330.0000.0000.0000.000
100A112SER0-0.011-0.01319.8790.0270.0270.0000.0000.0000.000
101A113LYS10.9460.96120.6500.1700.1700.0000.0000.0000.000
102A114ASP-1-0.817-0.88818.230-0.184-0.1840.0000.0000.0000.000
103A115LYS10.8050.91116.2720.3060.3060.0000.0000.0000.000
104A116LEU00.0120.01513.6920.0310.0310.0000.0000.0000.000
105A117ILE0-0.032-0.01913.897-0.085-0.0850.0000.0000.0000.000
106A118VAL00.0230.01612.0640.0710.0710.0000.0000.0000.000
107A119GLY00.0430.02514.113-0.060-0.0600.0000.0000.0000.000
108A120ILE0-0.042-0.02712.1700.0300.0300.0000.0000.0000.000
109A121GLY00.0160.01316.094-0.014-0.0140.0000.0000.0000.000
110A122ILE0-0.0120.00214.9450.0100.0100.0000.0000.0000.000
111A123ASN00.0070.01419.405-0.019-0.0190.0000.0000.0000.000
112A124VAL0-0.029-0.00318.7070.0020.0020.0000.0000.0000.000
113A125ASN00.0620.01221.6670.0230.0230.0000.0000.0000.000
114A126GLN0-0.001-0.00124.3880.0120.0120.0000.0000.0000.000
115A127ARG10.7780.85826.9240.1940.1940.0000.0000.0000.000
116A128GLU-1-0.897-0.94330.817-0.143-0.1430.0000.0000.0000.000
117A129ILE0-0.007-0.00230.535-0.014-0.0140.0000.0000.0000.000
118A130PRO0-0.030-0.02132.9170.0100.0100.0000.0000.0000.000
119A131GLU-1-0.852-0.93935.649-0.122-0.1220.0000.0000.0000.000
120A132GLU-1-0.914-0.94236.281-0.136-0.1360.0000.0000.0000.000
121A133ILE0-0.042-0.02130.584-0.005-0.0050.0000.0000.0000.000
122A134LYN00.0410.03232.857-0.011-0.0110.0000.0000.0000.000
123A135ASP-1-0.823-0.90634.376-0.148-0.1480.0000.0000.0000.000
124A136ARG10.7880.87231.5190.1550.1550.0000.0000.0000.000
125A137ALA0-0.038-0.00828.518-0.016-0.0160.0000.0000.0000.000
126A138THR00.0360.01426.1540.0100.0100.0000.0000.0000.000
127A139THR0-0.024-0.02725.073-0.020-0.0200.0000.0000.0000.000
128A140LEU00.0480.01819.6240.0100.0100.0000.0000.0000.000
129A141TYR0-0.0070.01824.3360.0180.0180.0000.0000.0000.000
130A142GLU-1-0.898-0.94527.083-0.148-0.1480.0000.0000.0000.000
131A143ILE0-0.048-0.01224.9260.0090.0090.0000.0000.0000.000
132A144THR0-0.029-0.03324.7610.0080.0080.0000.0000.0000.000
133A145GLY00.0070.01528.0110.0100.0100.0000.0000.0000.000
134A146LYS10.8470.93023.6270.1960.1960.0000.0000.0000.000
135A147ASP-1-0.818-0.87323.795-0.226-0.2260.0000.0000.0000.000
136A148TRP00.023-0.00319.4230.0040.0040.0000.0000.0000.000
137A149ASP-1-0.812-0.90115.687-0.470-0.4700.0000.0000.0000.000
138A150ARG10.8320.88216.2900.3630.3630.0000.0000.0000.000
139A151LYS10.8460.91210.7670.6100.6100.0000.0000.0000.000
140A152GLU-1-0.797-0.89711.497-0.800-0.8000.0000.0000.0000.000
141A153VAL00.0060.00311.844-0.064-0.0640.0000.0000.0000.000
142A154LEU00.0010.01110.115-0.069-0.0690.0000.0000.0000.000
143A155LEU0-0.027-0.0216.097-0.237-0.2370.0000.0000.0000.000
144A156LYS10.8450.9227.4790.1440.1440.0000.0000.0000.000
145A157VAL00.0350.0089.451-0.006-0.0060.0000.0000.0000.000
146A158LEU0-0.016-0.0085.967-0.062-0.0620.0000.0000.0000.000
147A159LYN00.0270.0454.843-0.497-0.4970.0000.0000.0000.000
148A160ARG10.7760.8595.8940.4890.4890.0000.0000.0000.000
149A161ILE00.0050.0036.6390.1020.1020.0000.0000.0000.000
150A162SER0-0.076-0.0582.557-2.646-1.1391.252-1.339-1.420-0.011
151A163GLU-1-0.908-0.9434.311-0.177-0.116-0.001-0.022-0.0380.000
152A164ASN0-0.024-0.0357.1620.1660.1660.0000.0000.0000.000
153A165LEU0-0.007-0.0127.2620.1280.1280.0000.0000.0000.000
154A166LYS10.7980.8935.4110.0360.0360.0000.0000.0000.000
155A167LYS10.9060.9517.7660.3010.3010.0000.0000.0000.000
156A168PHE0-0.072-0.03711.2150.0790.0790.0000.0000.0000.000
157A169LYS10.8290.8987.5700.5420.5420.0000.0000.0000.000
158A170GLU-1-0.840-0.89010.2110.1330.1330.0000.0000.0000.000
159A171LYS10.8210.90313.0990.0790.0790.0000.0000.0000.000
160A172SER00.0330.01816.2690.0060.0060.0000.0000.0000.000
161A173PHE00.0690.02917.236-0.008-0.0080.0000.0000.0000.000
162A174LYS10.8910.93518.7160.0850.0850.0000.0000.0000.000
163A175GLU-1-0.852-0.89816.217-0.067-0.0670.0000.0000.0000.000
164A176PHE0-0.024-0.01612.667-0.007-0.0070.0000.0000.0000.000
165A177LYS10.7750.90018.3640.1310.1310.0000.0000.0000.000
166A178GLY00.0660.03521.753-0.001-0.0010.0000.0000.0000.000
167A179LYS10.8710.91715.7690.2280.2280.0000.0000.0000.000
168A180ILE00.0070.00518.086-0.003-0.0030.0000.0000.0000.000
169A181GLU-1-0.743-0.87821.473-0.131-0.1310.0000.0000.0000.000
170A182SER0-0.079-0.04623.3730.0050.0050.0000.0000.0000.000
171A183LYS10.8790.93319.2990.2620.2620.0000.0000.0000.000
172A184MET0-0.058-0.00724.383-0.012-0.0120.0000.0000.0000.000
173A185LEU00.0090.00926.1300.0140.0140.0000.0000.0000.000
174A186TYR0-0.074-0.07728.564-0.003-0.0030.0000.0000.0000.000
175A187LEU0-0.0140.00428.3650.0080.0080.0000.0000.0000.000
176A188GLY0-0.036-0.02031.2200.0050.0050.0000.0000.0000.000
177A189GLU-1-0.921-0.96134.544-0.093-0.0930.0000.0000.0000.000
178A190GLU-1-0.836-0.91436.440-0.088-0.0880.0000.0000.0000.000
179A191VAL0-0.032-0.02333.983-0.003-0.0030.0000.0000.0000.000
180A192LYS10.8690.92936.9180.1200.1200.0000.0000.0000.000
181A193LEU00.002-0.00132.972-0.007-0.0070.0000.0000.0000.000
182A194LEU0-0.070-0.01933.6160.0080.0080.0000.0000.0000.000
183A195GLY00.0700.02936.173-0.004-0.0040.0000.0000.0000.000
184A196GLU-1-0.918-0.95936.459-0.113-0.1130.0000.0000.0000.000
185A197GLY0-0.001-0.00839.7700.0010.0010.0000.0000.0000.000
186A198LYS10.9200.96342.3670.0830.0830.0000.0000.0000.000
187A199ILE0-0.056-0.02836.5550.0040.0040.0000.0000.0000.000
188A200THR00.0260.00438.889-0.006-0.0060.0000.0000.0000.000
189A201GLY00.0360.01039.4810.0040.0040.0000.0000.0000.000
190A202LYS10.9430.99436.6760.0730.0730.0000.0000.0000.000
191A203LEU00.0040.01129.7340.0010.0010.0000.0000.0000.000
192A204VAL0-0.044-0.02533.029-0.001-0.0010.0000.0000.0000.000
193A205GLY00.0330.02629.4110.0030.0030.0000.0000.0000.000
194A206LEU0-0.034-0.01423.808-0.006-0.0060.0000.0000.0000.000
195A207SER0-0.041-0.05527.7250.0070.0070.0000.0000.0000.000
196A208GLU-1-0.875-0.94325.205-0.105-0.1050.0000.0000.0000.000
197A209LYS10.8310.89323.9510.1050.1050.0000.0000.0000.000
198A210GLY00.0650.03323.320-0.016-0.0160.0000.0000.0000.000
199A211GLY00.0220.02124.153-0.009-0.0090.0000.0000.0000.000
200A212ALA00.0240.02527.6200.0060.0060.0000.0000.0000.000
201A213LEU0-0.043-0.02629.4810.0080.0080.0000.0000.0000.000
202A214ILE00.0360.01532.4830.0000.0000.0000.0000.0000.000
203A215LEU0-0.012-0.01835.6080.0050.0050.0000.0000.0000.000
204A216THR0-0.039-0.01738.6550.0010.0010.0000.0000.0000.000
205A217GLU-1-0.871-0.94441.360-0.061-0.0610.0000.0000.0000.000
206A218GLU-1-0.946-0.96144.660-0.054-0.0540.0000.0000.0000.000
207A219GLY00.005-0.00342.253-0.001-0.0010.0000.0000.0000.000
208A220ILE0-0.039-0.02235.465-0.004-0.0040.0000.0000.0000.000
209A221LYS10.8330.92936.8580.0780.0780.0000.0000.0000.000
210A222GLU-1-0.750-0.83229.933-0.125-0.1250.0000.0000.0000.000
211A223ILE0-0.022-0.00531.1640.0030.0030.0000.0000.0000.000
212A224LEU0-0.001-0.01827.648-0.009-0.0090.0000.0000.0000.000
213A225SER00.0070.00327.518-0.012-0.0120.0000.0000.0000.000
214A226GLY00.0130.00828.9250.0130.0130.0000.0000.0000.000
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