FMODB

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

Last updated: 2024-05-02

All entries: 37386

Number of unique PDB entries: 7781

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FMODB ID: VQ551

Calculation Name: 2OL5-A-Xray372

Preferred Name:
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Target Type:
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Ligand Name:
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ligand 3-letter code:
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PDB ID: 2OL5

Chain ID: A

ChEMBL ID:
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UniProt ID: Q5L206

Base Structure: X-ray

Registration Date: 2023-09-21

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 189
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -1973832.152108
FMO2-HF: Nuclear repulsion 1896549.065836
FMO2-HF: Total energy -77283.086271
FMO2-MP2: Total energy -77506.130429


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:ASP)


Summations of interaction energy for fragment #1(A:11:ASP)
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.
-6.9079999999999-3.749-0.019-1.551-1.5880.003
Interaction energy analysis for fragmet #1(A:11:ASP)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : -1 / q_Mulliken : -0.978 / q_NPA : -1.002
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].
3A13ASP-1-0.891-0.9523.80420.95323.811-0.017-1.509-1.3320.003
4A14VAL00.001-0.0075.028-4.351-4.3510.0000.0000.0000.000
5A15ALA0-0.037-0.0184.279-3.987-3.928-0.001-0.010-0.0470.000
6A16TYR00.017-0.0086.002-2.351-2.3510.0000.0000.0000.000
7A17GLN0-0.0050.0019.311-0.013-0.0130.0000.0000.0000.000
8A18VAL0-0.042-0.0258.086-1.935-1.9350.0000.0000.0000.000
9A19ILE00.0050.0079.709-1.613-1.6130.0000.0000.0000.000
10A20GLU-1-0.826-0.90812.11817.51717.5170.0000.0000.0000.000
11A21GLU-1-0.895-0.92513.86217.95417.9540.0000.0000.0000.000
12A22ASN0-0.070-0.02313.015-1.441-1.4410.0000.0000.0000.000
13A23SER00.0770.05415.5870.0760.0760.0000.0000.0000.000
14A24PHE0-0.022-0.00917.461-0.385-0.3850.0000.0000.0000.000
15A25ALA00.0230.03116.6430.1920.1920.0000.0000.0000.000
16A26THR0-0.016-0.01817.256-0.607-0.6070.0000.0000.0000.000
17A27LEU0-0.005-0.00217.7670.7490.7490.0000.0000.0000.000
18A28VAL0-0.002-0.00418.944-0.652-0.6520.0000.0000.0000.000
19A29SER0-0.023-0.00120.4570.4350.4350.0000.0000.0000.000
20A30MET0-0.026-0.01023.091-0.035-0.0350.0000.0000.0000.000
21A31HIS0-0.012-0.01326.109-0.231-0.2310.0000.0000.0000.000
22A32GLN0-0.019-0.02929.252-0.274-0.2740.0000.0000.0000.000
23A33ARG10.8580.92329.887-9.261-9.2610.0000.0000.0000.000
24A34GLU-1-0.906-0.94429.1279.1339.1330.0000.0000.0000.000
25A35LEU0-0.027-0.01022.6750.1550.1550.0000.0000.0000.000
26A36PHE00.0550.02825.113-0.298-0.2980.0000.0000.0000.000
27A37ALA0-0.030-0.02422.4440.4840.4840.0000.0000.0000.000
28A38THR00.006-0.00223.152-0.581-0.5810.0000.0000.0000.000
29A39HIS0-0.0080.00521.8200.7850.7850.0000.0000.0000.000
30A40LEU0-0.018-0.01621.455-0.550-0.5500.0000.0000.0000.000
31A41PRO00.0000.01320.7560.5510.5510.0000.0000.0000.000
32A42LEU0-0.031-0.00917.312-0.203-0.2030.0000.0000.0000.000
33A43LEU00.0070.00917.8400.6980.6980.0000.0000.0000.000
34A44LEU0-0.020-0.00312.473-0.009-0.0090.0000.0000.0000.000
35A45ASP-1-0.752-0.88417.04514.45114.4510.0000.0000.0000.000
36A46ARG10.9480.96218.011-11.471-11.4710.0000.0000.0000.000
37A47GLU-1-0.946-0.97318.40715.43115.4310.0000.0000.0000.000
38A48LYS10.7630.88413.237-18.291-18.2910.0000.0000.0000.000
39A49THR00.0070.01514.1170.9480.9480.0000.0000.0000.000
40A50CYS0-0.082-0.05416.531-0.419-0.4190.0000.0000.0000.000
41A51LEU00.0090.01214.1760.1730.1730.0000.0000.0000.000
42A52TYR00.0400.01318.248-0.644-0.6440.0000.0000.0000.000
43A53GLY00.0440.01421.4440.3510.3510.0000.0000.0000.000
44A54HIS0-0.019-0.02823.572-0.449-0.4490.0000.0000.0000.000
45A55PHE00.0040.02224.4820.0540.0540.0000.0000.0000.000
46A56ALA00.0730.03128.621-0.196-0.1960.0000.0000.0000.000
47A57ARG10.9010.93632.052-8.144-8.1440.0000.0000.0000.000
48A58SER0-0.039-0.01734.3850.0400.0400.0000.0000.0000.000
49A59ASN0-0.017-0.00328.110-0.138-0.1380.0000.0000.0000.000
50A60PRO00.0390.00731.7990.1040.1040.0000.0000.0000.000
51A61GLN00.0140.01923.621-0.135-0.1350.0000.0000.0000.000
52A62TRP00.019-0.01328.3710.1630.1630.0000.0000.0000.000
53A63ASN0-0.037-0.02429.3700.0410.0410.0000.0000.0000.000
54A64ASP-1-0.827-0.89630.3459.3009.3000.0000.0000.0000.000
55A65ILE00.0250.02923.5760.2720.2720.0000.0000.0000.000
56A66GLN0-0.035-0.01625.3070.5200.5200.0000.0000.0000.000
57A67HIS0-0.018-0.02126.3720.1170.1170.0000.0000.0000.000
58A68GLN00.0120.01723.8140.3390.3390.0000.0000.0000.000
59A69THR0-0.080-0.04117.4120.3310.3310.0000.0000.0000.000
60A70VAL00.0020.01918.685-0.039-0.0390.0000.0000.0000.000
61A71LEU0-0.007-0.01813.6490.8620.8620.0000.0000.0000.000
62A72ALA0-0.0050.00914.841-0.691-0.6910.0000.0000.0000.000
63A73ILE0-0.008-0.00813.0451.4631.4630.0000.0000.0000.000
64A74PHE00.0280.01311.458-0.812-0.8120.0000.0000.0000.000
65A75HIS0-0.025-0.03512.0881.7311.7310.0000.0000.0000.000
66A76GLY00.0320.02512.246-0.235-0.2350.0000.0000.0000.000
67A77PRO0-0.042-0.01512.775-0.942-0.9420.0000.0000.0000.000
68A78HIS00.041-0.02014.1031.0141.0140.0000.0000.0000.000
69A79CYS00.0340.01316.427-0.454-0.4540.0000.0000.0000.000
70A80TYR00.0130.01618.5980.5490.5490.0000.0000.0000.000
71A81ILE0-0.007-0.00817.6840.0260.0260.0000.0000.0000.000
72A82SER00.0550.01021.043-0.207-0.2070.0000.0000.0000.000
73A83PRO0-0.0080.00224.5420.1780.1780.0000.0000.0000.000
74A84SER0-0.011-0.00125.527-0.105-0.1050.0000.0000.0000.000
75A85TRP00.0160.00421.471-0.086-0.0860.0000.0000.0000.000
76A86TYR0-0.014-0.00320.5640.3580.3580.0000.0000.0000.000
77A87GLU-1-0.854-0.92426.30511.36711.3670.0000.0000.0000.000
78A88THR0-0.048-0.02227.682-0.253-0.2530.0000.0000.0000.000
79A89ASN00.0420.01628.9930.2600.2600.0000.0000.0000.000
80A90GLN0-0.014-0.00228.3990.1260.1260.0000.0000.0000.000
81A91ALA0-0.033-0.01724.5300.4950.4950.0000.0000.0000.000
82A92VAL00.0130.00822.177-0.423-0.4230.0000.0000.0000.000
83A93PRO00.0080.01622.0930.4860.4860.0000.0000.0000.000
84A94THR0-0.024-0.01916.7850.3700.3700.0000.0000.0000.000
85A95TRP00.0400.02217.223-0.349-0.3490.0000.0000.0000.000
86A96ASN0-0.033-0.02613.9811.1791.1790.0000.0000.0000.000
87A97TYR0-0.004-0.00110.537-1.144-1.1440.0000.0000.0000.000
88A98VAL00.0130.0067.8901.7161.7160.0000.0000.0000.000
89A99ALA0-0.031-0.0078.439-1.934-1.9340.0000.0000.0000.000
90A100VAL00.0210.0226.1792.8642.8640.0000.0000.0000.000
91A101HIS00.0240.0218.394-1.281-1.2810.0000.0000.0000.000
92A102VAL00.0350.0039.5091.5571.5570.0000.0000.0000.000
93A103TYR00.0110.01011.304-1.796-1.7960.0000.0000.0000.000
94A104GLY00.0830.03414.3990.6800.6800.0000.0000.0000.000
95A105ASN0-0.044-0.00717.2690.0300.0300.0000.0000.0000.000
96A106VAL00.0290.00621.0500.1870.1870.0000.0000.0000.000
97A107GLU-1-0.930-0.95123.31011.02411.0240.0000.0000.0000.000
98A108LEU0-0.047-0.03526.1550.1250.1250.0000.0000.0000.000
99A109ILE0-0.0070.00525.645-0.116-0.1160.0000.0000.0000.000
100A110ASN00.021-0.00129.9110.0010.0010.0000.0000.0000.000
101A111ASP-1-0.821-0.90132.8808.3738.3730.0000.0000.0000.000
102A112GLN0-0.044-0.04833.4680.0770.0770.0000.0000.0000.000
103A113GLY00.0160.02234.614-0.015-0.0150.0000.0000.0000.000
104A114GLU-1-0.854-0.93828.00210.53110.5310.0000.0000.0000.000
105A115VAL0-0.023-0.00829.6290.2800.2800.0000.0000.0000.000
106A116MET00.0170.01830.3470.1580.1580.0000.0000.0000.000
107A117GLN0-0.036-0.01827.899-0.169-0.1690.0000.0000.0000.000
108A118SER0-0.059-0.03625.6720.2660.2660.0000.0000.0000.000
109A119LEU0-0.005-0.01326.5760.2150.2150.0000.0000.0000.000
110A120HIS0-0.022-0.02028.566-0.194-0.1940.0000.0000.0000.000
111A121ASP-1-0.850-0.91924.19111.33711.3370.0000.0000.0000.000
112A122MET0-0.051-0.02424.5380.3690.3690.0000.0000.0000.000
113A123VAL0-0.007-0.00125.5530.0630.0630.0000.0000.0000.000
114A124GLU-1-0.929-0.96226.6669.8929.8920.0000.0000.0000.000
115A125LYS10.7640.89418.036-14.273-14.2730.0000.0000.0000.000
116A126TYR0-0.066-0.07220.8130.2810.2810.0000.0000.0000.000
117A127GLU-1-0.817-0.86626.1798.8958.8950.0000.0000.0000.000
118A128ALA0-0.0090.00028.7470.2480.2480.0000.0000.0000.000
119A129PRO00.039-0.00328.730-0.315-0.3150.0000.0000.0000.000
120A130GLY0-0.037-0.00431.349-0.159-0.1590.0000.0000.0000.000
121A131SER0-0.081-0.05633.448-0.427-0.4270.0000.0000.0000.000
122A132ARG10.9010.93435.137-7.423-7.4230.0000.0000.0000.000
123A133TYR0-0.089-0.05233.421-0.144-0.1440.0000.0000.0000.000
124A134GLN00.015-0.00634.5380.0500.0500.0000.0000.0000.000
125A135LEU0-0.0030.00635.1780.0950.0950.0000.0000.0000.000
126A136SER0-0.010-0.00337.901-0.174-0.1740.0000.0000.0000.000
127A137GLU-1-0.787-0.88837.9247.6817.6810.0000.0000.0000.000
128A138VAL0-0.060-0.03042.021-0.162-0.1620.0000.0000.0000.000
129A139ASP-1-0.855-0.92744.6126.3426.3420.0000.0000.0000.000
130A140ALA0-0.006-0.01145.7640.0780.0780.0000.0000.0000.000
131A141GLY0-0.0080.00645.722-0.030-0.0300.0000.0000.0000.000
132A142MET0-0.031-0.00240.0930.1770.1770.0000.0000.0000.000
133A143LEU00.0930.04738.2590.1130.1130.0000.0000.0000.000
134A144SER0-0.035-0.01639.0760.1380.1380.0000.0000.0000.000
135A145GLY0-0.016-0.01740.4660.0270.0270.0000.0000.0000.000
136A146MET00.0290.01935.4630.1540.1540.0000.0000.0000.000
137A147ASN0-0.024-0.00736.0000.2810.2810.0000.0000.0000.000
138A148LYS10.8410.90436.865-6.776-6.7760.0000.0000.0000.000
139A149GLY00.0130.02036.9710.0110.0110.0000.0000.0000.000
140A150ILE0-0.027-0.00830.8770.1020.1020.0000.0000.0000.000
141A151GLN0-0.034-0.02129.880-0.423-0.4230.0000.0000.0000.000
142A152ALA00.0510.02527.9990.2870.2870.0000.0000.0000.000
143A153PHE0-0.021-0.00821.596-0.186-0.1860.0000.0000.0000.000
144A154LYS10.9110.95922.013-10.906-10.9060.0000.0000.0000.000
145A155ILE0-0.039-0.02117.671-0.234-0.2340.0000.0000.0000.000
146A156ILE00.0470.03018.2830.6680.6680.0000.0000.0000.000
147A157ILE0-0.019-0.00112.2810.1130.1130.0000.0000.0000.000
148A158LYS10.8650.91814.824-14.328-14.3280.0000.0000.0000.000
149A159ARG10.8230.90410.341-19.304-19.3040.0000.0000.0000.000
150A160ILE00.0590.0376.204-1.254-1.2540.0000.0000.0000.000
151A161GLU-1-0.788-0.8775.79725.24625.2460.0000.0000.0000.000
152A162GLY00.0390.0203.815-2.689-2.5780.000-0.021-0.0900.000
153A163LYS10.7380.8624.448-22.695-22.564-0.001-0.011-0.1190.000
154A164ALA00.0820.0305.717-1.385-1.3850.0000.0000.0000.000
155A165LYS10.8850.9797.215-18.785-18.7850.0000.0000.0000.000
156A166LEU00.0560.0038.870-1.313-1.3130.0000.0000.0000.000
157A167SER00.0040.00511.759-0.573-0.5730.0000.0000.0000.000
158A168GLN00.0960.0477.853-3.724-3.7240.0000.0000.0000.000
159A169ASN0-0.027-0.01312.2440.9360.9360.0000.0000.0000.000
160A170HIS0-0.0030.01413.795-1.484-1.4840.0000.0000.0000.000
161A171PRO00.0290.01116.3680.7190.7190.0000.0000.0000.000
162A172ALA00.0720.02417.763-0.114-0.1140.0000.0000.0000.000
163A173HIS00.0680.03718.6780.1830.1830.0000.0000.0000.000
164A174ARG10.9360.96720.491-13.817-13.8170.0000.0000.0000.000
165A175GLN0-0.020-0.02414.3480.1920.1920.0000.0000.0000.000
166A176GLU-1-0.842-0.91018.90113.33813.3380.0000.0000.0000.000
167A177ARG10.7960.89221.440-11.544-11.5440.0000.0000.0000.000
168A178ILE0-0.027-0.01218.734-0.320-0.3200.0000.0000.0000.000
169A179ILE0-0.0020.00417.134-0.226-0.2260.0000.0000.0000.000
170A180LYS10.8900.94521.116-12.814-12.8140.0000.0000.0000.000
171A181GLN0-0.048-0.02124.517-0.541-0.5410.0000.0000.0000.000
172A182LEU00.015-0.00219.147-0.255-0.2550.0000.0000.0000.000
173A183GLU-1-0.867-0.92422.68012.90912.9090.0000.0000.0000.000
174A184GLN0-0.052-0.02424.021-0.399-0.3990.0000.0000.0000.000
175A185MET00.0060.02425.177-0.302-0.3020.0000.0000.0000.000
176A186PRO0-0.104-0.05126.4040.3310.3310.0000.0000.0000.000
177A187PHE00.0480.01624.924-0.313-0.3130.0000.0000.0000.000
178A188GLU-1-0.872-0.94322.13212.43712.4370.0000.0000.0000.000
179A189ASN0-0.052-0.01519.1350.8860.8860.0000.0000.0000.000
180A190GLU-1-0.810-0.91818.78813.44113.4410.0000.0000.0000.000
181A191LYS10.9740.98919.810-10.706-10.7060.0000.0000.0000.000
182A192ARG10.8970.93715.850-15.311-15.3110.0000.0000.0000.000
183A193ILE0-0.014-0.01913.8191.2351.2350.0000.0000.0000.000
184A194ALA00.0070.00015.5820.8510.8510.0000.0000.0000.000
185A195SER0-0.092-0.05216.9980.0920.0920.0000.0000.0000.000
186A196LEU0-0.051-0.02910.7430.7520.7520.0000.0000.0000.000
187A197MET0-0.039-0.01812.5100.9020.9020.0000.0000.0000.000
188A198LYS10.8330.92514.009-14.522-14.5220.0000.0000.0000.000
189A199LYS10.9641.01010.390-19.366-19.3660.0000.0000.0000.000