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: G6Q41

Calculation Name: 1EIA-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1EIA

Chain ID: A

ChEMBL ID:

UniProt ID: P69732

Base Structure: X-ray

Registration Date: 2023-06-21

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 OptHSide
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 206
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2183679.09496
FMO2-HF: Nuclear repulsion 2100324.599782
FMO2-HF: Total energy -83354.495178
FMO2-MP2: Total energy -83594.503015


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:16:THR)


Summations of interaction energy for fragment #1(A:16:THR)
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.
-6.628-2.7450.123-1.966-2.039-0.002
Interaction energy analysis for fragmet #1(A:16:THR)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.020 / q_NPA : 0.009
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].
3A18ARG10.8770.9122.937-3.146-0.0110.089-1.810-1.414-0.002
4A19GLY0-0.003-0.0025.7240.5590.5590.0000.0000.0000.000
5A20TYR0-0.012-0.0123.8800.6921.0330.001-0.040-0.3010.000
6A21THR00.0780.0406.039-0.076-0.0760.0000.0000.0000.000
7A22THR00.0430.0248.7940.1120.1120.0000.0000.0000.000
8A23TRP0-0.057-0.0208.265-0.116-0.1160.0000.0000.0000.000
9A24VAL00.0300.0048.6810.0190.0190.0000.0000.0000.000
10A25ASN00.0390.00711.391-0.082-0.0820.0000.0000.0000.000
11A26THR0-0.013-0.00314.438-0.046-0.0460.0000.0000.0000.000
12A27ILE0-0.042-0.01412.202-0.028-0.0280.0000.0000.0000.000
13A28GLN0-0.023-0.00615.5780.0400.0400.0000.0000.0000.000
14A29THR0-0.0510.00317.337-0.029-0.0290.0000.0000.0000.000
15A30ASN00.005-0.01520.1520.0310.0310.0000.0000.0000.000
16A31GLY00.006-0.00118.170-0.020-0.0200.0000.0000.0000.000
17A32LEU00.0610.04914.240-0.042-0.0420.0000.0000.0000.000
18A33LEU0-0.044-0.00317.313-0.051-0.0510.0000.0000.0000.000
19A34ASN00.011-0.00819.867-0.017-0.0170.0000.0000.0000.000
20A35GLU-1-0.864-0.93620.128-0.051-0.0510.0000.0000.0000.000
21A36ALA0-0.0100.01619.436-0.038-0.0380.0000.0000.0000.000
22A37SER00.035-0.01315.661-0.036-0.0360.0000.0000.0000.000
23A38GLN00.0130.01916.110-0.051-0.0510.0000.0000.0000.000
24A39ASN0-0.006-0.01817.772-0.078-0.0780.0000.0000.0000.000
25A40LEU0-0.040-0.00612.714-0.070-0.0700.0000.0000.0000.000
26A41PHE00.018-0.00511.092-0.129-0.1290.0000.0000.0000.000
27A42GLY0-0.0070.02214.155-0.145-0.1450.0000.0000.0000.000
28A43ILE0-0.021-0.02414.769-0.070-0.0700.0000.0000.0000.000
29A44LEU0-0.026-0.0229.520-0.109-0.1090.0000.0000.0000.000
30A45SER0-0.060-0.05011.546-0.214-0.2140.0000.0000.0000.000
31A46VAL0-0.008-0.01112.5860.0040.0040.0000.0000.0000.000
32A47ASP-1-0.850-0.93513.447-1.093-1.0930.0000.0000.0000.000
33A48CYS0-0.106-0.0169.005-0.235-0.2350.0000.0000.0000.000
34A49THR00.0800.0348.4670.2130.2130.0000.0000.0000.000
35A50SER00.036-0.0189.663-0.105-0.1050.0000.0000.0000.000
36A51GLU-1-0.835-0.8695.523-1.110-1.1100.0000.0000.0000.000
37A52GLU-1-0.800-0.8804.908-4.000-4.0000.0000.0000.0000.000
38A53MET0-0.0100.0045.9900.0340.0340.0000.0000.0000.000
39A54ASN00.0300.0278.0970.3370.3370.0000.0000.0000.000
40A55ALA00.0120.0073.3030.1120.4190.034-0.105-0.2360.000
41A56PHE00.004-0.0125.4080.7710.7710.0000.0000.0000.000
42A57LEU00.0070.0047.1670.3850.3850.0000.0000.0000.000
43A58ASP-1-0.911-0.9557.1120.9640.9640.0000.0000.0000.000
44A59VAL0-0.049-0.0154.3370.1750.275-0.001-0.011-0.0880.000
45A60VAL0-0.058-0.0177.416-0.126-0.1260.0000.0000.0000.000
46A61PRO00.017-0.00210.9480.0310.0310.0000.0000.0000.000
47A62GLY00.0350.03113.2330.0110.0110.0000.0000.0000.000
48A63GLN0-0.049-0.01116.246-0.078-0.0780.0000.0000.0000.000
49A64ALA00.0110.00618.065-0.037-0.0370.0000.0000.0000.000
50A65GLY00.0260.01118.973-0.023-0.0230.0000.0000.0000.000
51A66GLN00.0540.01219.209-0.015-0.0150.0000.0000.0000.000
52A67LYS10.8860.92011.421-0.719-0.7190.0000.0000.0000.000
53A68GLN0-0.033-0.01117.4240.0100.0100.0000.0000.0000.000
54A69ILE00.0010.02719.999-0.032-0.0320.0000.0000.0000.000
55A70LEU0-0.026-0.01515.076-0.027-0.0270.0000.0000.0000.000
56A71LEU00.013-0.01614.240-0.034-0.0340.0000.0000.0000.000
57A72ASP-1-0.808-0.90118.1960.1090.1090.0000.0000.0000.000
58A73ALA0-0.074-0.03321.444-0.028-0.0280.0000.0000.0000.000
59A74ILE00.019-0.00615.767-0.030-0.0300.0000.0000.0000.000
60A75ASP-1-0.781-0.86220.0150.0290.0290.0000.0000.0000.000
61A76LYS10.9000.96321.7300.0190.0190.0000.0000.0000.000
62A77ILE0-0.053-0.02221.917-0.002-0.0020.0000.0000.0000.000
63A78ALA0-0.007-0.00520.528-0.015-0.0150.0000.0000.0000.000
64A79ASP-1-0.874-0.94422.655-0.012-0.0120.0000.0000.0000.000
65A80ASP-1-0.897-0.90425.751-0.081-0.0810.0000.0000.0000.000
66A81TRP0-0.021-0.02524.284-0.009-0.0090.0000.0000.0000.000
67A82ASP-1-0.746-0.89124.530-0.103-0.1030.0000.0000.0000.000
68A83ASN0-0.102-0.05127.2640.0080.0080.0000.0000.0000.000
69A84ARG10.7940.87629.5660.0820.0820.0000.0000.0000.000
70A85HIS10.7880.89527.7610.1330.1330.0000.0000.0000.000
71A86PRO00.0430.04828.628-0.005-0.0050.0000.0000.0000.000
72A87LEU0-0.020-0.02826.573-0.007-0.0070.0000.0000.0000.000
73A88PRO00.0290.01828.8330.0010.0010.0000.0000.0000.000
74A89ASN0-0.036-0.03130.6260.0000.0000.0000.0000.0000.000
75A90ALA00.0160.03025.471-0.007-0.0070.0000.0000.0000.000
76A91PRO0-0.009-0.00123.6930.0140.0140.0000.0000.0000.000
77A92LEU00.0330.00121.431-0.010-0.0100.0000.0000.0000.000
78A93VAL0-0.007-0.01518.5680.0030.0030.0000.0000.0000.000
79A94ALA0-0.0240.00218.4090.0050.0050.0000.0000.0000.000
80A95PRO00.0160.00820.3220.0030.0030.0000.0000.0000.000
81A96PRO00.0280.01920.762-0.027-0.0270.0000.0000.0000.000
82A97GLN00.0190.00321.788-0.025-0.0250.0000.0000.0000.000
83A98GLY00.0390.02525.0370.0190.0190.0000.0000.0000.000
84A99PRO0-0.011-0.01224.388-0.021-0.0210.0000.0000.0000.000
85A100ILE00.0210.02118.8080.0220.0220.0000.0000.0000.000
86A101PRO00.0080.00522.951-0.008-0.0080.0000.0000.0000.000
87A102MET00.0210.00621.583-0.004-0.0040.0000.0000.0000.000
88A103THR00.0310.01922.2850.0060.0060.0000.0000.0000.000
89A104ALA00.0610.01520.978-0.031-0.0310.0000.0000.0000.000
90A105ARG10.8540.92718.252-0.008-0.0080.0000.0000.0000.000
91A106PHE0-0.015-0.01617.125-0.015-0.0150.0000.0000.0000.000
92A107ILE00.0290.04516.546-0.068-0.0680.0000.0000.0000.000
93A108ARG10.8240.90114.554-0.019-0.0190.0000.0000.0000.000
94A109GLY0-0.027-0.03712.824-0.026-0.0260.0000.0000.0000.000
95A110LEU00.0210.02012.5270.0180.0180.0000.0000.0000.000
96A111GLY0-0.0210.01114.2490.0060.0060.0000.0000.0000.000
97A112VAL0-0.070-0.04514.1190.0030.0030.0000.0000.0000.000
98A113PRO00.0520.04412.852-0.060-0.0600.0000.0000.0000.000
99A114ARG10.8800.8885.3140.9340.9340.0000.0000.0000.000
100A115GLU-1-0.879-0.94811.088-0.568-0.5680.0000.0000.0000.000
101A116ARG10.7730.83414.0420.2780.2780.0000.0000.0000.000
102A117GLN0-0.043-0.02410.669-0.120-0.1200.0000.0000.0000.000
103A118MET0-0.035-0.0279.336-0.074-0.0740.0000.0000.0000.000
104A119GLU-1-0.845-0.86814.223-0.366-0.3660.0000.0000.0000.000
105A120PRO00.0990.02817.856-0.012-0.0120.0000.0000.0000.000
106A121ALA0-0.059-0.02120.2640.0160.0160.0000.0000.0000.000
107A122PHE00.0090.00213.4930.0360.0360.0000.0000.0000.000
108A123ASP-1-0.831-0.89517.732-0.657-0.6570.0000.0000.0000.000
109A124GLN0-0.005-0.01018.5030.0040.0040.0000.0000.0000.000
110A125PHE0-0.0070.00517.3400.0160.0160.0000.0000.0000.000
111A126ARG10.8260.89813.7260.9270.9270.0000.0000.0000.000
112A127GLN00.0050.00015.4380.0280.0280.0000.0000.0000.000
113A128THR0-0.030-0.02018.0230.0420.0420.0000.0000.0000.000
114A129TYR0-0.025-0.02012.0670.0620.0620.0000.0000.0000.000
115A130ARG10.9110.96114.6050.6160.6160.0000.0000.0000.000
116A131GLN0-0.013-0.00516.1620.0030.0030.0000.0000.0000.000
117A132TRP00.0580.03118.3260.0350.0350.0000.0000.0000.000
118A133ILE00.0190.01212.9480.0550.0550.0000.0000.0000.000
119A134ILE0-0.0150.00817.2730.0540.0540.0000.0000.0000.000
120A135GLU-1-0.895-0.96919.312-0.153-0.1530.0000.0000.0000.000
121A136ALA0-0.038-0.01518.9100.0310.0310.0000.0000.0000.000
122A137MET0-0.008-0.02215.4780.0480.0480.0000.0000.0000.000
123A138SER0-0.0220.00520.0080.0270.0270.0000.0000.0000.000
124A139GLU-1-0.847-0.91823.477-0.027-0.0270.0000.0000.0000.000
125A140GLY00.0280.00322.3880.0180.0180.0000.0000.0000.000
126A141ILE0-0.009-0.01021.0860.0180.0180.0000.0000.0000.000
127A142LYS10.8080.88724.4230.0480.0480.0000.0000.0000.000
128A143VAL0-0.036-0.00826.3140.0070.0070.0000.0000.0000.000
129A144MET0-0.028-0.02024.0120.0170.0170.0000.0000.0000.000
130A145ILE00.0170.03027.3530.0040.0040.0000.0000.0000.000
131A146GLY00.0140.01029.814-0.001-0.0010.0000.0000.0000.000
132A147LYS10.8000.90029.017-0.069-0.0690.0000.0000.0000.000
133A148PRO0-0.016-0.00730.2480.0070.0070.0000.0000.0000.000
134A149LYS10.9710.98626.948-0.136-0.1360.0000.0000.0000.000
135A150ALA00.0220.00531.971-0.010-0.0100.0000.0000.0000.000
136A151GLN00.0350.00827.739-0.010-0.0100.0000.0000.0000.000
137A152ASN0-0.045-0.01129.530-0.001-0.0010.0000.0000.0000.000
138A153ILE0-0.0100.01332.860-0.007-0.0070.0000.0000.0000.000
139A154ARG10.9840.99435.2960.0010.0010.0000.0000.0000.000
140A155GLN00.0290.02437.6050.0010.0010.0000.0000.0000.000
141A156GLY00.003-0.01141.145-0.005-0.0050.0000.0000.0000.000
142A157ALA00.028-0.00143.3470.0010.0010.0000.0000.0000.000
143A158LYS10.8880.94144.9220.0040.0040.0000.0000.0000.000
144A159GLU-1-0.735-0.81843.6750.0240.0240.0000.0000.0000.000
145A160PRO00.0230.02246.7300.0000.0000.0000.0000.0000.000
146A161TYR00.0390.00341.2440.0040.0040.0000.0000.0000.000
147A162PRO00.0380.00145.1690.0030.0030.0000.0000.0000.000
148A163GLU-1-0.860-0.92646.4890.0250.0250.0000.0000.0000.000
149A164PHE0-0.069-0.02938.2880.0030.0030.0000.0000.0000.000
150A165VAL00.004-0.00641.9380.0050.0050.0000.0000.0000.000
151A166ASP-1-0.895-0.92642.1650.0510.0510.0000.0000.0000.000
152A167ARG10.7760.85640.360-0.023-0.0230.0000.0000.0000.000
153A168LEU0-0.020-0.00635.5180.0060.0060.0000.0000.0000.000
154A169LEU00.0200.00538.0270.0090.0090.0000.0000.0000.000
155A170SER0-0.042-0.02239.8120.0060.0060.0000.0000.0000.000
156A171GLN0-0.061-0.04234.4030.0020.0020.0000.0000.0000.000
157A172ILE00.000-0.00734.1720.0090.0090.0000.0000.0000.000
158A173LYS10.9450.99035.614-0.069-0.0690.0000.0000.0000.000
159A174SER00.0570.03037.1680.0070.0070.0000.0000.0000.000
160A175GLU-1-0.833-0.91731.4290.1130.1130.0000.0000.0000.000
161A176GLY0-0.103-0.04732.6410.0120.0120.0000.0000.0000.000
162A177HIS10.7790.89330.328-0.135-0.1350.0000.0000.0000.000
163A178PRO00.0610.04430.268-0.011-0.0110.0000.0000.0000.000
164A179GLN00.1000.01233.051-0.006-0.0060.0000.0000.0000.000
165A180GLU-1-0.909-0.94431.9860.1820.1820.0000.0000.0000.000
166A181ILE00.0110.00126.612-0.005-0.0050.0000.0000.0000.000
167A182SER00.008-0.00331.016-0.008-0.0080.0000.0000.0000.000
168A183LYS10.8400.91434.145-0.099-0.0990.0000.0000.0000.000
169A184PHE00.0510.02127.765-0.007-0.0070.0000.0000.0000.000
170A185LEU0-0.0080.00929.138-0.009-0.0090.0000.0000.0000.000
171A186THR00.0410.02232.653-0.008-0.0080.0000.0000.0000.000
172A187ASP-1-0.845-0.88434.9500.0770.0770.0000.0000.0000.000
173A188THR0-0.013-0.03730.810-0.009-0.0090.0000.0000.0000.000
174A189LEU0-0.018-0.01130.925-0.009-0.0090.0000.0000.0000.000
175A190THR0-0.021-0.02634.675-0.009-0.0090.0000.0000.0000.000
176A191ILE00.0580.03736.024-0.006-0.0060.0000.0000.0000.000
177A192GLN0-0.010-0.02129.776-0.003-0.0030.0000.0000.0000.000
178A193ASN0-0.086-0.04332.932-0.007-0.0070.0000.0000.0000.000
179A194ALA00.0400.02535.967-0.003-0.0030.0000.0000.0000.000
180A195ASN0-0.027-0.02438.596-0.004-0.0040.0000.0000.0000.000
181A196GLU-1-0.892-0.96638.716-0.007-0.0070.0000.0000.0000.000
182A197GLU-1-0.918-0.96341.064-0.003-0.0030.0000.0000.0000.000
183A198CYS0-0.070-0.02142.837-0.001-0.0010.0000.0000.0000.000
184A199ARG10.8570.92836.5460.0020.0020.0000.0000.0000.000
185A200ASN0-0.065-0.03340.5830.0000.0000.0000.0000.0000.000
186A201ALA00.0090.01942.1920.0000.0000.0000.0000.0000.000
187A202MET00.0290.00640.3600.0030.0030.0000.0000.0000.000
188A203ARG10.9040.97337.7890.0080.0080.0000.0000.0000.000
189A204HIS0-0.055-0.03041.0120.0010.0010.0000.0000.0000.000
190A205LEU0-0.035-0.00841.4410.0020.0020.0000.0000.0000.000
191A206ARG10.8470.91735.150-0.056-0.0560.0000.0000.0000.000
192A207PRO0-0.038-0.02933.4820.0000.0000.0000.0000.0000.000
193A208GLU-1-0.837-0.91835.2110.0710.0710.0000.0000.0000.000
194A209ASP-1-0.833-0.88038.0450.0470.0470.0000.0000.0000.000
195A210THR0-0.052-0.07741.4330.0020.0020.0000.0000.0000.000
196A211LEU00.006-0.01542.090-0.003-0.0030.0000.0000.0000.000
197A212GLU-1-0.921-0.95444.1910.0350.0350.0000.0000.0000.000
198A213GLU-1-0.816-0.87745.4400.0390.0390.0000.0000.0000.000
199A214LYS10.7990.89438.877-0.060-0.0600.0000.0000.0000.000
200A215MET0-0.028-0.02844.846-0.004-0.0040.0000.0000.0000.000
201A216TYR0-0.0160.00147.488-0.004-0.0040.0000.0000.0000.000
202A217ALA0-0.016-0.01046.173-0.003-0.0030.0000.0000.0000.000
203A219ARG10.8530.93547.963-0.014-0.0140.0000.0000.0000.000
204A220ASP-1-0.896-0.94551.3110.0110.0110.0000.0000.0000.000
205A221ILE0-0.0110.01146.958-0.002-0.0020.0000.0000.0000.000
206A222GLY0-0.030-0.01050.087-0.003-0.0030.0000.0000.0000.000