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: X16ZP

Calculation Name: 3HL7-A-Xray9

Preferred Name: MAP kinase p38 alpha

Target Type: SINGLE PROTEIN

Ligand Name: 2-{4-[5-(4-chlorophenyl)-4-pyrimidin-4-yl-1h-pyrazol-3-yl]piperidin-1-yl}-2-oxoethanol

ligand 3-letter code: I47

PDB ID: 3HL7

Chain ID: A

ChEMBL ID: CHEMBL260

UniProt ID: Q16539

Base Structure: X-ray

Registration Date: 2017-05-17

Reference:

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:MMFF94x
Restraint OptH
Protonation MOE:Protonate 3D
Complement MOE:Homology modeling
Water No
Procedure Auto-FMO protocol ver. 1.20170327
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 347
LigandResidueName I47
LigandFragmentNumber 347
LigandCharge
Software MIZUHO/ABINIT-MP 4.0(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -5797296.921482
FMO2-HF: Nuclear repulsion 5656690.726869
FMO2-HF: Total energy -140606.194612
FMO2-MP2: Total energy -141015.989857


3D Structure
Snapshot
 
Ligand structure

I47

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.
-87.607-48.95141.118-21.531-58.245-0.006


Interactive mode: IFIE and PIEDA for fragment #347(A:401:I47)


Summations of interaction energy for fragment #347(A:401:I47)
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.
-87.607-48.95141.118-21.531-58.2450.006
Interaction energy analysis for fragmet #347(A:401:I47)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.006 / q_NPA : 0.022
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].
1A6THR10.8330.90519.076-0.275-0.2750.0000.0000.0000.000
2A7PHE00.0800.04913.637-0.018-0.0180.0000.0000.0000.000
3A8TYR0-0.007-0.00314.315-0.052-0.0520.0000.0000.0000.000
4A9ARG10.9640.98816.293-0.169-0.1690.0000.0000.0000.000
5A10GLN00.0270.00914.808-0.010-0.0100.0000.0000.0000.000
6A11GLU-1-0.920-0.95416.375-0.026-0.0260.0000.0000.0000.000
7A12LEU00.0380.01011.859-0.067-0.0670.0000.0000.0000.000
8A13ASN00.0740.0389.4100.0540.0540.0000.0000.0000.000
9A14LYS10.9560.99213.423-0.117-0.1170.0000.0000.0000.000
10A15THR0-0.121-0.06812.1680.1130.1130.0000.0000.0000.000
11A16ILE0-0.006-0.00414.865-0.070-0.0700.0000.0000.0000.000
12A17TRP00.0220.0096.8690.1260.1260.0000.0000.0000.000
13A18GLU-1-0.933-0.97613.4430.2970.2970.0000.0000.0000.000
14A19VAL00.0260.01510.0670.1370.1370.0000.0000.0000.000
15A20PRO0-0.012-0.00311.715-0.101-0.1010.0000.0000.0000.000
16A21GLU-1-0.883-0.96314.0150.1170.1170.0000.0000.0000.000
17A22ARG10.8710.96012.149-0.662-0.6620.0000.0000.0000.000
18A23TYR0-0.040-0.0349.320-0.034-0.0340.0000.0000.0000.000
19A24GLN00.000-0.01412.300-0.074-0.0740.0000.0000.0000.000
20A25ASN0-0.025-0.01713.041-0.049-0.0490.0000.0000.0000.000
21A26LEU00.0060.0069.936-0.141-0.1410.0000.0000.0000.000
22A27SER0-0.015-0.0019.1880.0700.0700.0000.0000.0000.000
23A28PRO0-0.002-0.0047.754-0.569-0.5690.0000.0000.0000.000
24A29VAL00.0120.0022.782-1.3630.2050.265-0.358-1.4750.000
25A30GLY00.0050.0092.500-6.790-4.2011.449-1.596-2.442-0.017
26A31SER0-0.029-0.0193.4960.4091.0830.0080.142-0.8230.000
27A32GLY00.0550.0232.168-6.916-3.7292.464-2.357-3.294-0.007
28A33ALA00.0260.0193.118-0.252-0.4350.0450.849-0.7110.002
29A34TYR0-0.013-0.0195.6001.1171.1170.0000.0000.0000.000
30A35GLY00.0240.0097.0770.1700.1700.0000.0000.0000.000
31A36SER0-0.0090.0226.184-0.561-0.5610.0000.0000.0000.000
32A37VAL00.0260.0162.534-3.8310.6803.736-1.528-6.7200.011
33A38CYS0-0.0480.0004.933-1.670-1.410-0.001-0.015-0.2430.000
34A39ALA00.0200.0145.2900.2910.2910.0000.0000.0000.000
35A40ALA00.009-0.0026.4000.1740.1740.0000.0000.0000.000
36A41PHE0-0.0090.0019.2750.1370.1370.0000.0000.0000.000
37A42ASP-1-0.762-0.87110.4330.5150.5150.0000.0000.0000.000
38A43THR0-0.045-0.04012.316-0.015-0.0150.0000.0000.0000.000
39A44LYS10.8940.95914.818-0.397-0.3970.0000.0000.0000.000
40A45THR0-0.008-0.04012.368-0.035-0.0350.0000.0000.0000.000
41A46GLY0-0.0050.01015.327-0.028-0.0280.0000.0000.0000.000
42A47LEU00.0150.0219.840-0.064-0.0640.0000.0000.0000.000
43A48ARG10.9510.9757.7800.8380.8380.0000.0000.0000.000
44A49VAL00.0140.0046.0840.3540.3540.0000.0000.0000.000
45A50ALA00.0090.0052.572-3.136-1.1563.110-1.421-3.6690.010
46A51VAL0-0.004-0.0082.741-3.434-1.2610.464-1.061-1.576-0.014
47A52LYS10.7970.8392.975-14.118-9.0331.465-1.961-4.5890.022
48A53LYS10.8300.9184.389-0.996-0.7380.004-0.055-0.2060.000
49A54LEU00.0100.0046.879-0.119-0.1190.0000.0000.0000.000
50A55SER0-0.031-0.0359.770-0.465-0.4650.0000.0000.0000.000
51A56ARG10.8830.94412.567-0.451-0.4510.0000.0000.0000.000
52A57PRO00.0590.03812.353-0.052-0.0520.0000.0000.0000.000
53A58PHE00.0630.00914.076-0.029-0.0290.0000.0000.0000.000
54A59GLN0-0.029-0.00117.541-0.091-0.0910.0000.0000.0000.000
55A60SER00.0320.00319.058-0.039-0.0390.0000.0000.0000.000
56A61ILE00.0960.05519.2030.0540.0540.0000.0000.0000.000
57A62ILE00.0030.01017.0000.0370.0370.0000.0000.0000.000
58A63HIS0-0.073-0.05215.1130.0340.0340.0000.0000.0000.000
59A64ALA00.0450.02914.3230.1150.1150.0000.0000.0000.000
60A65LYS10.8330.92615.022-0.294-0.2940.0000.0000.0000.000
61A66ARG10.8840.95411.200-0.826-0.8260.0000.0000.0000.000
62A67THR0-0.013-0.01110.3110.2190.2190.0000.0000.0000.000
63A68TYR00.0090.01210.2560.1520.1520.0000.0000.0000.000
64A69ARG10.8050.86610.839-0.485-0.4850.0000.0000.0000.000
65A70GLU-1-0.773-0.8354.2583.7583.9700.000-0.021-0.1920.000
66A71LEU0-0.0230.0016.9040.1650.1650.0000.0000.0000.000
67A72ARG10.8880.9388.507-0.667-0.6670.0000.0000.0000.000
68A73LEU0-0.028-0.0027.997-0.079-0.0790.0000.0000.0000.000
69A74LEU0-0.001-0.0132.662-1.199-0.1090.781-0.315-1.555-0.001
70A75LYS10.7660.8566.533-0.953-0.9530.0000.0000.0000.000
71A76HIS0-0.048-0.0149.295-0.104-0.1040.0000.0000.0000.000
72A77MET0-0.078-0.0098.251-0.198-0.1980.0000.0000.0000.000
73A78LYS10.9280.9569.742-0.502-0.5020.0000.0000.0000.000
74A79HIS00.1020.04311.551-0.102-0.1020.0000.0000.0000.000
75A80GLU-1-0.833-0.90311.061-0.006-0.0060.0000.0000.0000.000
76A81ASN0-0.018-0.00810.2360.0160.0160.0000.0000.0000.000
77A82VAL0-0.031-0.0138.166-0.243-0.2430.0000.0000.0000.000
78A83ILE0-0.044-0.0112.830-2.166-0.1580.607-0.519-2.0960.003
79A84GLY00.0880.0496.084-0.133-0.1330.0000.0000.0000.000
80A85LEU0-0.051-0.0163.0830.2610.9730.374-0.196-0.890-0.001
81A86LEU0-0.015-0.0075.174-0.650-0.561-0.001-0.006-0.0820.000
82A87ASP-1-0.868-0.9235.8610.6600.6600.0000.0000.0000.000
83A88VAL0-0.0150.0025.6160.5430.656-0.001-0.005-0.1070.000
84A89PHE0-0.010-0.0017.685-0.333-0.3330.0000.0000.0000.000
85A90THR0-0.009-0.03710.4470.1090.1090.0000.0000.0000.000
86A91PRO0-0.019-0.01013.232-0.049-0.0490.0000.0000.0000.000
87A92ALA0-0.0330.00516.366-0.062-0.0620.0000.0000.0000.000
88A93ARG10.9260.95318.163-0.286-0.2860.0000.0000.0000.000
89A94SER0-0.002-0.01120.879-0.022-0.0220.0000.0000.0000.000
90A95LEU00.0710.03919.9090.0330.0330.0000.0000.0000.000
91A96GLU-1-0.910-0.95921.1860.3500.3500.0000.0000.0000.000
92A97GLU-1-0.941-0.95520.5450.3610.3610.0000.0000.0000.000
93A98PHE0-0.055-0.01713.2940.0380.0380.0000.0000.0000.000
94A99ASN0-0.030-0.04117.3670.0050.0050.0000.0000.0000.000
95A100ASP-1-0.926-0.95113.2370.7490.7490.0000.0000.0000.000
96A101VAL00.0170.0068.033-0.068-0.0680.0000.0000.0000.000
97A102TYR00.0210.0197.4420.0640.0640.0000.0000.0000.000
98A103LEU00.0220.0082.887-0.805-0.8282.396-0.532-1.8420.004
99A104VAL00.0180.0133.190-2.371-1.2001.503-0.635-2.039-0.007
100A105THR00.014-0.0102.340-2.693-1.1015.666-1.435-5.823-0.004
101A106HIS00.0810.0324.404-0.958-0.5930.0130.028-0.4050.000
102A107LEU0-0.092-0.0542.403-5.233-1.7492.125-1.899-3.7120.000
103A108MET00.0030.0041.949-7.525-11.97812.815-3.700-4.6620.019
104A109GLY0-0.049-0.0232.768-6.451-4.6680.523-0.604-1.701-0.010
105A110ALA00.0080.0095.343-0.801-0.8010.0000.0000.0000.000
106A111ASP-1-0.813-0.8723.025-9.437-7.8600.125-0.582-1.120-0.004
107A112LEU00.0800.0145.0891.2971.372-0.001-0.002-0.0720.000
108A113ASN0-0.049-0.0196.0030.8850.8850.0000.0000.0000.000
109A114ASN0-0.073-0.0714.300-1.278-1.021-0.001-0.019-0.2370.000
110A115ILE00.0020.0237.8290.4130.4130.0000.0000.0000.000
111A116VAL00.0110.00010.9560.3020.3020.0000.0000.0000.000
112A117LYS10.8580.9279.2800.7110.7110.0000.0000.0000.000
113A118CYS0-0.081-0.03212.2520.0190.0190.0000.0000.0000.000
114A119GLN00.0640.02714.4400.0390.0390.0000.0000.0000.000
115A120LYS10.8330.93916.5650.4130.4130.0000.0000.0000.000
116A121LEU00.0550.03114.602-0.001-0.0010.0000.0000.0000.000
117A122THR0-0.011-0.00918.8650.0670.0670.0000.0000.0000.000
118A123ASP-1-0.751-0.87820.863-0.427-0.4270.0000.0000.0000.000
119A124ASP-1-0.867-0.92422.481-0.391-0.3910.0000.0000.0000.000
120A125HIS00.0370.01116.9050.0240.0240.0000.0000.0000.000
121A126VAL0-0.023-0.01017.794-0.077-0.0770.0000.0000.0000.000
122A127GLN00.0050.00118.737-0.019-0.0190.0000.0000.0000.000
123A128PHE00.0680.04115.985-0.002-0.0020.0000.0000.0000.000
124A129LEU0-0.005-0.00712.963-0.034-0.0340.0000.0000.0000.000
125A130ILE0-0.026-0.03115.235-0.036-0.0360.0000.0000.0000.000
126A131TYR0-0.057-0.05117.1870.0220.0220.0000.0000.0000.000
127A132GLN00.037-0.00113.3640.0850.0850.0000.0000.0000.000
128A133ILE0-0.033-0.00612.1610.0390.0390.0000.0000.0000.000
129A134LEU0-0.015-0.01814.4860.0900.0900.0000.0000.0000.000
130A135ARG10.8140.90815.5160.2450.2450.0000.0000.0000.000
131A136GLY00.0310.01113.8450.0780.0780.0000.0000.0000.000
132A137LEU0-0.047-0.03514.0440.0840.0840.0000.0000.0000.000
133A138LYS10.8650.92815.9160.1390.1390.0000.0000.0000.000
134A139TYR00.0460.04012.4320.0570.0570.0000.0000.0000.000
135A140ILE00.0110.01511.0260.0460.0460.0000.0000.0000.000
136A141HIS0-0.095-0.08014.4490.0530.0530.0000.0000.0000.000
137A142SER0-0.066-0.02517.8580.0290.0290.0000.0000.0000.000
138A143ALA00.0180.01215.3820.0210.0210.0000.0000.0000.000
139A144ASP-1-0.934-0.96117.4840.1340.1340.0000.0000.0000.000
140A145ILE0-0.063-0.01212.0320.0280.0280.0000.0000.0000.000
141A146ILE0-0.027-0.02615.569-0.059-0.0590.0000.0000.0000.000
142A147HIS0-0.027-0.0248.5740.3150.3150.0000.0000.0000.000
143A148ARG10.8750.89712.576-0.003-0.0030.0000.0000.0000.000
144A149ASP-1-0.844-0.89010.565-0.591-0.5910.0000.0000.0000.000
145A150LEU00.0530.0529.953-0.259-0.2590.0000.0000.0000.000
146A151LYS10.8650.9287.2851.2301.2300.0000.0000.0000.000
147A152PRO00.0590.0308.198-0.472-0.4720.0000.0000.0000.000
148A153SER00.015-0.0033.847-0.401-0.1130.000-0.036-0.2530.000
149A154ASN0-0.071-0.0353.165-4.935-3.5710.080-0.474-0.970-0.004
150A155LEU00.0070.0174.8831.0191.124-0.001-0.005-0.1000.000
151A156ALA00.0310.0114.563-1.399-1.0600.000-0.038-0.3020.000
152A157VAL0-0.021-0.0255.9351.3751.3750.0000.0000.0000.000
153A158ASN00.0430.0167.029-0.724-0.7240.0000.0000.0000.000
154A159GLU-1-0.951-0.9969.276-1.193-1.1930.0000.0000.0000.000
155A160ASP-1-0.901-0.94312.283-0.615-0.6150.0000.0000.0000.000
156A161CYS0-0.090-0.04713.0990.0840.0840.0000.0000.0000.000
157A162GLU-1-0.895-0.91710.763-0.389-0.3890.0000.0000.0000.000
158A163LEU0-0.039-0.0209.530-0.303-0.3030.0000.0000.0000.000
159A164LYS10.8670.9275.1850.3990.3990.0000.0000.0000.000
160A165ILE0-0.0040.0017.762-0.695-0.6950.0000.0000.0000.000
161A166LEU00.002-0.0052.405-3.5170.0621.102-0.934-3.7470.005
162A167ASP-1-0.908-0.9703.898-2.161-1.3340.004-0.241-0.590-0.001
163A168PHE0-0.011-0.0025.737-0.053-0.0530.0000.0000.0000.000
164A169GLY00.0380.0148.6280.2200.2200.0000.0000.0000.000
165A170LEU0-0.037-0.0125.8330.1120.1120.0000.0000.0000.000
166A171ALA0-0.014-0.01610.4800.0160.0160.0000.0000.0000.000
167A172ARG10.7730.84612.470-0.126-0.1260.0000.0000.0000.000
168A173HIS0-0.067-0.01113.7240.1160.1160.0000.0000.0000.000
169A174THR0-0.008-0.0469.7460.0260.0260.0000.0000.0000.000
170A175ASP-1-0.709-0.76613.037-0.044-0.0440.0000.0000.0000.000
171A176ASP-1-0.740-0.84214.3370.1420.1420.0000.0000.0000.000
172A177GLU-1-0.824-0.87712.6330.2900.2900.0000.0000.0000.000
173A178MET00.0120.0107.439-0.141-0.1410.0000.0000.0000.000
174A179THR0-0.049-0.05612.590-0.045-0.0450.0000.0000.0000.000
175A180GLY0-0.058-0.03315.249-0.020-0.0200.0000.0000.0000.000
176A181TYR0-0.128-0.1009.6710.0150.0150.0000.0000.0000.000
177A182VAL0-0.070-0.03311.2980.0350.0350.0000.0000.0000.000
178A183ALA00.0380.02012.4520.0110.0110.0000.0000.0000.000
179A184THR0-0.051-0.05111.492-0.059-0.0590.0000.0000.0000.000
180A185ARG10.8950.94512.6720.0060.0060.0000.0000.0000.000
181A186TRP0-0.0080.00213.142-0.002-0.0020.0000.0000.0000.000
182A187TYR0-0.021-0.03911.840-0.025-0.0250.0000.0000.0000.000
183A188ARG10.8140.89314.7990.2080.2080.0000.0000.0000.000
184A189ALA00.0280.01717.7400.0210.0210.0000.0000.0000.000
185A190PRO00.0160.01221.0850.0270.0270.0000.0000.0000.000
186A191GLU-1-0.751-0.88223.893-0.121-0.1210.0000.0000.0000.000
187A192ILE00.0180.00218.9000.0220.0220.0000.0000.0000.000
188A193MET0-0.066-0.01719.2180.0230.0230.0000.0000.0000.000
189A194LEU0-0.037-0.02523.5670.0190.0190.0000.0000.0000.000
190A195ASN0-0.058-0.01624.5090.0100.0100.0000.0000.0000.000
191A196TRP0-0.0110.00225.9110.0150.0150.0000.0000.0000.000
192A197MET00.018-0.00624.937-0.002-0.0020.0000.0000.0000.000
193A198HIS0-0.046-0.02024.9970.0120.0120.0000.0000.0000.000
194A199TYR0-0.0010.04319.408-0.005-0.0050.0000.0000.0000.000
195A200ASN00.1080.08423.222-0.004-0.0040.0000.0000.0000.000
196A201GLN00.1110.02119.0880.0040.0040.0000.0000.0000.000
197A202THR0-0.016-0.02519.840-0.048-0.0480.0000.0000.0000.000
198A203VAL0-0.058-0.03418.179-0.030-0.0300.0000.0000.0000.000
199A204ASP-1-0.694-0.83015.847-0.350-0.3500.0000.0000.0000.000
200A205ILE0-0.0050.00216.983-0.079-0.0790.0000.0000.0000.000
201A206TRP0-0.0050.00619.002-0.015-0.0150.0000.0000.0000.000
202A207SER0-0.008-0.02814.522-0.007-0.0070.0000.0000.0000.000
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