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: V5M51

Calculation Name: 4ELO-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4ELO

Chain ID: A

ChEMBL ID:

UniProt ID: Q5SHV2

Base Structure: X-ray

Registration Date: 2023-09-20

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 308
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -4493548.659122
FMO2-HF: Nuclear repulsion 4376810.693406
FMO2-HF: Total energy -116737.965716
FMO2-MP2: Total energy -117085.260885


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:23:THR)


Summations of interaction energy for fragment #1(A:23: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.
-26.137-15.4676.52-7.343-9.846-0.01
Interaction energy analysis for fragmet #1(A:23:THR)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.012 / 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].
3A25THR00.0140.0183.3370.3352.6660.083-0.944-1.4710.002
4A26ILE0-0.002-0.0014.6570.3530.375-0.001-0.005-0.0150.000
5A27TYR00.019-0.0028.2510.3120.3120.0000.0000.0000.000
6A28SER00.019-0.00911.230-0.010-0.0100.0000.0000.0000.000
7A29GLY00.0100.00413.8530.0820.0820.0000.0000.0000.000
8A30ARG10.7530.85916.7170.5090.5090.0000.0000.0000.000
9A31GLY00.0270.00517.100-0.012-0.0120.0000.0000.0000.000
10A32GLN00.033-0.01015.166-0.047-0.0470.0000.0000.0000.000
11A33SER0-0.027-0.01516.926-0.015-0.0150.0000.0000.0000.000
12A34LEU0-0.0150.01118.3830.0100.0100.0000.0000.0000.000
13A35VAL00.0080.01513.047-0.010-0.0100.0000.0000.0000.000
14A36GLU-1-0.890-0.93413.146-0.124-0.1240.0000.0000.0000.000
15A37PRO00.0170.00713.7000.0000.0000.0000.0000.0000.000
16A38LEU00.0390.03014.9450.0060.0060.0000.0000.0000.000
17A39VAL0-0.025-0.0128.698-0.097-0.0970.0000.0000.0000.000
18A40LYS10.9610.97810.232-0.193-0.1930.0000.0000.0000.000
19A41GLN00.0310.02812.0540.0760.0760.0000.0000.0000.000
20A42PHE00.012-0.0056.9170.0170.0170.0000.0000.0000.000
21A43GLU-1-0.862-0.9346.5710.3560.3560.0000.0000.0000.000
22A44ALA0-0.038-0.0138.7530.2440.2440.0000.0000.0000.000
23A45GLU-1-0.910-0.95211.974-0.207-0.2070.0000.0000.0000.000
24A46THR0-0.108-0.0558.078-0.154-0.1540.0000.0000.0000.000
25A47GLY00.0160.0198.214-0.003-0.0030.0000.0000.0000.000
26A48ILE0-0.097-0.0492.759-0.0190.5950.110-0.166-0.557-0.001
27A49ARG10.9630.9842.131-21.626-16.7322.013-2.821-4.0870.028
28A50VAL0-0.023-0.0282.351-7.061-5.2604.305-3.147-2.959-0.038
29A51GLN0-0.0230.0003.7981.5862.0520.010-0.090-0.3860.000
30A52VAL00.0130.0015.330-0.600-0.591-0.0010.000-0.0080.000
31A53ARG10.9390.9868.6440.7470.7470.0000.0000.0000.000
32A54TYR00.0460.01411.061-0.087-0.0870.0000.0000.0000.000
33A55SER0-0.020-0.00914.5260.0640.0640.0000.0000.0000.000
34A56THR00.0250.01017.134-0.016-0.0160.0000.0000.0000.000
35A57ASP-1-0.695-0.86419.016-0.503-0.5030.0000.0000.0000.000
36A58ALA0-0.0040.00120.111-0.020-0.0200.0000.0000.0000.000
37A59GLN00.0550.02219.263-0.019-0.0190.0000.0000.0000.000
38A60ILE0-0.0190.00314.858-0.009-0.0090.0000.0000.0000.000
39A61LEU0-0.025-0.00617.253-0.033-0.0330.0000.0000.0000.000
40A62ALA00.0120.00619.671-0.002-0.0020.0000.0000.0000.000
41A63ALA00.0180.00315.8810.0120.0120.0000.0000.0000.000
42A64LEU0-0.022-0.00813.348-0.022-0.0220.0000.0000.0000.000
43A65GLN0-0.075-0.04116.8180.0330.0330.0000.0000.0000.000
44A66GLU-1-0.925-0.95618.240-0.233-0.2330.0000.0000.0000.000
45A67GLU-1-0.926-0.97613.907-0.385-0.3850.0000.0000.0000.000
46A68GLY00.0310.02816.9690.0160.0160.0000.0000.0000.000
47A69SER0-0.104-0.07415.970-0.076-0.0760.0000.0000.0000.000
48A70ARG10.9210.96614.5490.2590.2590.0000.0000.0000.000
49A71SER00.0020.01911.892-0.041-0.0410.0000.0000.0000.000
50A72PRO00.0230.0087.139-0.119-0.1190.0000.0000.0000.000
51A73ALA0-0.056-0.0236.827-0.650-0.6500.0000.0000.0000.000
52A74ASP-1-0.729-0.8405.139-5.596-5.579-0.001-0.001-0.0150.000
53A75LEU0-0.015-0.0188.4040.3370.3370.0000.0000.0000.000
54A76PHE0-0.0240.00410.7580.0570.0570.0000.0000.0000.000
55A77TRP00.0280.00112.9600.0190.0190.0000.0000.0000.000
56A78ALA00.0210.01614.9910.0580.0580.0000.0000.0000.000
57A79ASN0-0.021-0.02318.356-0.004-0.0040.0000.0000.0000.000
58A80THR0-0.013-0.02421.2910.0340.0340.0000.0000.0000.000
59A81ALA00.0540.02022.642-0.032-0.0320.0000.0000.0000.000
60A82GLY00.0420.03524.651-0.010-0.0100.0000.0000.0000.000
61A83ALA00.002-0.00221.120-0.001-0.0010.0000.0000.0000.000
62A84LEU0-0.007-0.00217.969-0.030-0.0300.0000.0000.0000.000
63A85GLY00.0460.03121.382-0.018-0.0180.0000.0000.0000.000
64A86GLN0-0.010-0.00123.2870.0010.0010.0000.0000.0000.000
65A87ALA00.015-0.00418.9070.0040.0040.0000.0000.0000.000
66A88SER0-0.038-0.01520.993-0.013-0.0130.0000.0000.0000.000
67A89ALA00.0230.01322.6510.0120.0120.0000.0000.0000.000
68A90LYS10.8500.94322.1050.3560.3560.0000.0000.0000.000
69A91GLY0-0.0030.00922.575-0.005-0.0050.0000.0000.0000.000
70A92LEU00.000-0.01617.349-0.035-0.0350.0000.0000.0000.000
71A93LEU0-0.0310.00016.587-0.119-0.1190.0000.0000.0000.000
72A94ARG10.9280.95715.2871.0581.0580.0000.0000.0000.000
73A95PRO0-0.003-0.00218.286-0.025-0.0250.0000.0000.0000.000
74A96LEU0-0.0110.00516.854-0.083-0.0830.0000.0000.0000.000
75A97GLY00.0110.00119.6280.0620.0620.0000.0000.0000.000
76A98GLU-1-0.914-0.97321.476-0.397-0.3970.0000.0000.0000.000
77A99THR00.0630.03820.271-0.002-0.0020.0000.0000.0000.000
78A100LEU0-0.064-0.03716.7190.0090.0090.0000.0000.0000.000
79A101LEU0-0.024-0.03220.4210.0230.0230.0000.0000.0000.000
80A102GLU-1-0.934-0.94623.405-0.352-0.3520.0000.0000.0000.000
81A103LYS10.8780.94919.7950.5800.5800.0000.0000.0000.000
82A104PRO0-0.045-0.01723.2840.0250.0250.0000.0000.0000.000
83A105ILE0-0.034-0.01725.8900.0160.0160.0000.0000.0000.000
84A106ALA00.0100.00228.8830.0180.0180.0000.0000.0000.000
85A107PHE00.012-0.01827.642-0.021-0.0210.0000.0000.0000.000
86A108VAL0-0.0040.00625.436-0.030-0.0300.0000.0000.0000.000
87A109PRO0-0.0180.02423.7030.0340.0340.0000.0000.0000.000
88A110ALA00.0720.01427.039-0.008-0.0080.0000.0000.0000.000
89A111SER0-0.046-0.01325.169-0.018-0.0180.0000.0000.0000.000
90A112ARG10.9660.98324.7950.4070.4070.0000.0000.0000.000
91A113THR0-0.016-0.02821.030-0.048-0.0480.0000.0000.0000.000
92A114TRP0-0.045-0.04619.229-0.085-0.0850.0000.0000.0000.000
93A115VAL00.0110.00918.2590.0590.0590.0000.0000.0000.000
94A116PRO00.0130.01720.307-0.038-0.0380.0000.0000.0000.000
95A117VAL0-0.021-0.01918.340-0.018-0.0180.0000.0000.0000.000
96A118THR0-0.017-0.01521.7330.0260.0260.0000.0000.0000.000
97A119VAL00.0140.01524.495-0.010-0.0100.0000.0000.0000.000
98A120ARG10.8540.91725.5160.3210.3210.0000.0000.0000.000
99A121LEU00.0470.03929.687-0.007-0.0070.0000.0000.0000.000
100A122ARG10.8290.90433.2530.1780.1780.0000.0000.0000.000
101A123VAL00.0390.02335.3010.0020.0020.0000.0000.0000.000
102A124LEU0-0.027-0.01038.3790.0000.0000.0000.0000.0000.000
103A125ALA00.0140.01139.5590.0030.0030.0000.0000.0000.000
104A126TYR00.0280.00141.5450.0020.0020.0000.0000.0000.000
105A127ASN00.1030.05045.052-0.001-0.0010.0000.0000.0000.000
106A128PRO0-0.021-0.01646.3730.0020.0020.0000.0000.0000.000
107A129ASP-1-0.873-0.92649.445-0.056-0.0560.0000.0000.0000.000
108A130ARG10.7920.91050.6930.0570.0570.0000.0000.0000.000
109A131ILE0-0.065-0.03149.0760.0010.0010.0000.0000.0000.000
110A132LYS10.9460.97751.2410.0610.0610.0000.0000.0000.000
111A133ALA00.0150.01049.262-0.002-0.0020.0000.0000.0000.000
112A134GLU-1-0.877-0.95750.498-0.077-0.0770.0000.0000.0000.000
113A135GLU-1-0.933-0.97053.121-0.065-0.0650.0000.0000.0000.000
114A136LEU0-0.070-0.01546.856-0.001-0.0010.0000.0000.0000.000
115A137PRO00.0070.01748.066-0.001-0.0010.0000.0000.0000.000
116A138GLU-1-0.854-0.94948.044-0.106-0.1060.0000.0000.0000.000
117A139SER0-0.060-0.03246.092-0.006-0.0060.0000.0000.0000.000
118A140LEU00.0310.00840.8330.0050.0050.0000.0000.0000.000
119A141LEU0-0.022-0.01944.9020.0040.0040.0000.0000.0000.000
120A142ASP-1-0.917-0.95647.090-0.091-0.0910.0000.0000.0000.000
121A143LEU0-0.028-0.01544.7270.0040.0040.0000.0000.0000.000
122A144PRO0-0.005-0.01647.5170.0050.0050.0000.0000.0000.000
123A145ARG10.9500.97750.1920.0840.0840.0000.0000.0000.000
124A146PHE00.0750.04650.3460.0030.0030.0000.0000.0000.000
125A147ALA00.0350.00650.1100.0030.0030.0000.0000.0000.000
126A148ARG10.9040.95152.2210.0770.0770.0000.0000.0000.000
127A149GLU-1-0.934-0.96255.268-0.067-0.0670.0000.0000.0000.000
128A150LYS10.8770.95953.7370.0660.0660.0000.0000.0000.000
129A151GLY00.0070.01356.2580.0020.0020.0000.0000.0000.000
130A152LEU0-0.058-0.03950.2780.0010.0010.0000.0000.0000.000
131A153VAL00.0270.01851.334-0.003-0.0030.0000.0000.0000.000
132A154GLY0-0.0180.00150.0970.0030.0030.0000.0000.0000.000
133A155ARG10.7800.87349.1850.0590.0590.0000.0000.0000.000
134A156VAL00.0290.02845.000-0.003-0.0030.0000.0000.0000.000
135A157GLY00.0160.02042.6450.0020.0020.0000.0000.0000.000
136A158TRP00.040-0.03739.801-0.008-0.0080.0000.0000.0000.000
137A159THR00.020-0.01034.7840.0030.0030.0000.0000.0000.000
138A160PRO00.0330.03135.326-0.012-0.0120.0000.0000.0000.000
139A161THR00.0260.01032.735-0.008-0.0080.0000.0000.0000.000
140A162TYR0-0.0080.01628.421-0.011-0.0110.0000.0000.0000.000
141A163SER00.0600.01726.4040.0040.0040.0000.0000.0000.000
142A164SER00.0380.01828.762-0.002-0.0020.0000.0000.0000.000
143A165PHE00.0020.01930.6920.0030.0030.0000.0000.0000.000
144A166GLN0-0.005-0.02131.199-0.007-0.0070.0000.0000.0000.000
145A167ASP-1-0.854-0.92728.719-0.266-0.2660.0000.0000.0000.000
146A168MET0-0.0180.00932.1150.0030.0030.0000.0000.0000.000
147A169VAL00.0150.00735.3910.0060.0060.0000.0000.0000.000
148A170ALA00.003-0.00233.5090.0050.0050.0000.0000.0000.000
149A171GLY00.0250.00235.4050.0000.0000.0000.0000.0000.000
150A172MET0-0.039-0.01336.5170.0050.0050.0000.0000.0000.000
151A173ILE0-0.033-0.00237.8310.0050.0050.0000.0000.0000.000
152A174ALA0-0.065-0.03536.7780.0030.0030.0000.0000.0000.000
153A175LEU0-0.021-0.00938.9380.0020.0020.0000.0000.0000.000
154A176TYR0-0.001-0.00341.5210.0040.0040.0000.0000.0000.000
155A177GLY00.0380.03542.8150.0070.0070.0000.0000.0000.000
156A178GLU-1-0.935-0.99242.498-0.126-0.1260.0000.0000.0000.000
157A179GLU-1-0.813-0.90943.679-0.101-0.1010.0000.0000.0000.000
158A180LYS10.9060.94946.6080.1050.1050.0000.0000.0000.000
159A181THR0-0.014-0.00940.8420.0000.0000.0000.0000.0000.000
160A182ARG10.7790.86844.2590.1050.1050.0000.0000.0000.000
161A183GLU-1-0.868-0.92345.826-0.089-0.0890.0000.0000.0000.000
162A184TRP00.0180.00341.3130.0020.0020.0000.0000.0000.000
163A185LEU0-0.006-0.01240.8290.0030.0030.0000.0000.0000.000
164A186LEU00.001-0.00545.0050.0040.0040.0000.0000.0000.000
165A187ALA00.0010.00848.2640.0050.0050.0000.0000.0000.000
166A188MET00.0040.00043.6510.0040.0040.0000.0000.0000.000
167A189LYS10.8850.94845.2730.0860.0860.0000.0000.0000.000
168A190ALA0-0.025-0.00447.6590.0040.0040.0000.0000.0000.000
169A191LEU0-0.050-0.01248.3330.0040.0040.0000.0000.0000.000
170A192ALA0-0.0020.00649.2350.0020.0020.0000.0000.0000.000
171A193PRO0-0.0260.00444.5930.0020.0020.0000.0000.0000.000
172A194LYS10.8960.94044.2310.0620.0620.0000.0000.0000.000
173A195ALA0-0.022-0.01339.766-0.006-0.0060.0000.0000.0000.000
174A196TYR0-0.055-0.06837.8490.0020.0020.0000.0000.0000.000
175A197PRO00.0140.00534.236-0.008-0.0080.0000.0000.0000.000
176A198SER0-0.003-0.01031.973-0.011-0.0110.0000.0000.0000.000
177A199ASN00.0490.02331.5830.0070.0070.0000.0000.0000.000
178A200PRO00.0080.00031.7530.0040.0040.0000.0000.0000.000
179A201ALA00.0210.02434.9300.0070.0070.0000.0000.0000.000
180A202MET0-0.0080.04537.1790.0030.0030.0000.0000.0000.000
181A203LEU0-0.039-0.02936.4280.0030.0030.0000.0000.0000.000
182A204ASP-1-0.847-0.91538.946-0.054-0.0540.0000.0000.0000.000
183A205ALA00.0640.03640.6520.0050.0050.0000.0000.0000.000
184A206ILE0-0.036-0.01841.2080.0030.0030.0000.0000.0000.000
185A207ARG10.8100.90442.2330.0580.0580.0000.0000.0000.000
186A208ALA0-0.059-0.02644.6650.0040.0040.0000.0000.0000.000
187A209GLY0-0.038-0.00846.6400.0040.0040.0000.0000.0000.000
188A210GLU-1-0.822-0.89344.834-0.057-0.0570.0000.0000.0000.000
189A211VAL0-0.067-0.03843.832-0.001-0.0010.0000.0000.0000.000
190A212ASP-1-0.743-0.87646.840-0.063-0.0630.0000.0000.0000.000
191A213LEU00.001-0.01144.646-0.002-0.0020.0000.0000.0000.000
192A214GLY00.0560.02841.5970.0030.0030.0000.0000.0000.000
193A215SER0-0.0250.01238.487-0.006-0.0060.0000.0000.0000.000
194A216THR0-0.002-0.02535.009-0.002-0.0020.0000.0000.0000.000
195A217ASN00.005-0.00529.4190.0000.0000.0000.0000.0000.000
196A218HIS00.1050.03830.0790.0060.0060.0000.0000.0000.000
197A219TYR00.0150.01127.6670.0040.0040.0000.0000.0000.000
198A220TYR0-0.049-0.04029.0390.0080.0080.0000.0000.0000.000
199A221VAL00.0650.02833.3510.0110.0110.0000.0000.0000.000
200A222VAL0-0.0060.00832.9330.0090.0090.0000.0000.0000.000
201A223ARG10.8390.91526.2320.1910.1910.0000.0000.0000.000
202A224PHE00.0330.00833.6440.0090.0090.0000.0000.0000.000
203A225ARG10.8460.92537.0210.1140.1140.0000.0000.0000.000
204A226ARG10.7500.85529.7150.1550.1550.0000.0000.0000.000
205A227ALA0-0.030-0.00236.1210.0060.0060.0000.0000.0000.000
206A228GLY00.0220.02237.6720.0070.0070.0000.0000.0000.000
207A229TYR0-0.045-0.02339.4860.0050.0050.0000.0000.0000.000
208A230ARG10.9220.96241.6290.0570.0570.0000.0000.0000.000
209A231LEU00.0320.01239.6320.0020.0020.0000.0000.0000.000
210A232GLY00.0150.01542.867-0.004-0.0040.0000.0000.0000.000
211A233MET0-0.046-0.03537.471-0.006-0.0060.0000.0000.0000.000
212A234HIS0-0.0080.00841.9920.0010.0010.0000.0000.0000.000
213A235HIS00.009-0.00438.052-0.009-0.0090.0000.0000.0000.000
214A236PHE00.0060.00441.5360.0060.0060.0000.0000.0000.000
215A237ARG10.9540.98743.6960.1070.1070.0000.0000.0000.000
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