FMODB

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

Last updated: 2024-07-23

All entries: 37478

Number of unique PDB entries: 7783

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FMODB ID: X6MZP

Calculation Name: 3HV4-B-Xray12

Preferred Name: MAP kinase p38 alpha

Target Type: SINGLE PROTEIN

Ligand Name: 1-{3-[(6-aminoquinolin-4-yl)amino]phenyl}-3-[3-tert-butyl-1-(4-methylphenyl)-1h-pyrazol-5-yl]urea

ligand 3-letter code: L51

PDB ID: 3HV4

Chain ID: B

ChEMBL ID: CHEMBL260

UniProt ID: Q16539

Base Structure: X-ray

Registration Date: 2017-08-22

Reference:

DOI:

Apendix: None


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
Protonation MOE:Protonate 3D
Complement MOE:Homology modeling
Water No
Procedure Auto-FMO protocol ver. 1.20160629
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 347
LigandResidueName L51
LigandFragmentNumber 347
LigandCharge
Software MIZUHO/ABINIT-MP 4.0(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -5773167.997219
FMO2-HF: Nuclear repulsion 5632603.632683
FMO2-HF: Total energy -140564.364535
FMO2-MP2: Total energy -140975.038067


3D Structure
Snapshot
 
Ligand structure

L51

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.
-134.189-92.24599.973-41.966-99.9550.021


Interactive mode: IFIE and PIEDA for fragment #347(B:361:L51)


Summations of interaction energy for fragment #347(B:361:L51)
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.
-134.189-92.24599.973-41.966-99.955-0.021
Interaction energy analysis for fragmet #347(B:361:L51)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.021 / q_NPA : -0.047
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].
1B6PRO10.8540.90515.8920.2040.2040.0000.0000.0000.000
2B7THR00.0960.05718.978-0.041-0.0410.0000.0000.0000.000
3B8PHE00.0480.01813.6970.0330.0330.0000.0000.0000.000
4B9TYR0-0.032-0.01414.9430.0020.0020.0000.0000.0000.000
5B10ARG10.9550.97917.1680.2960.2960.0000.0000.0000.000
6B11GLN00.0420.00115.635-0.013-0.0130.0000.0000.0000.000
7B12GLU-1-1.002-1.00317.469-0.302-0.3020.0000.0000.0000.000
8B13LEU00.0340.02312.4470.0550.0550.0000.0000.0000.000
9B14ASN00.0200.01111.277-0.118-0.1180.0000.0000.0000.000
10B15LYS10.9420.96714.1580.2440.2440.0000.0000.0000.000
11B16THR0-0.0150.00413.470-0.098-0.0980.0000.0000.0000.000
12B17ILE00.0090.00715.5690.0820.0820.0000.0000.0000.000
13B18TRP00.013-0.0157.781-0.072-0.0720.0000.0000.0000.000
14B19GLU-1-0.941-0.98013.687-0.278-0.2780.0000.0000.0000.000
15B20VAL00.0090.01010.983-0.101-0.1010.0000.0000.0000.000
16B21PRO0-0.028-0.00611.8630.0450.0450.0000.0000.0000.000
17B22GLU-1-0.879-0.96314.5520.1060.1060.0000.0000.0000.000
18B23ARG10.8010.93413.005-0.072-0.0720.0000.0000.0000.000
19B24TYR0-0.019-0.02310.1130.1290.1290.0000.0000.0000.000
20B25GLN0-0.0060.00213.090-0.094-0.0940.0000.0000.0000.000
21B26ASN0-0.034-0.03613.2840.1870.1870.0000.0000.0000.000
22B27LEU00.0360.01010.3730.1700.1700.0000.0000.0000.000
23B28SER00.0060.0168.436-0.350-0.3500.0000.0000.0000.000
24B29PRO0-0.038-0.0337.9290.5860.5860.0000.0000.0000.000
25B30VAL0-0.017-0.0063.074-1.785-0.1860.979-0.584-1.9940.007
26B31GLY00.0490.0343.210-4.869-3.1680.138-0.827-1.0110.000
27B32SER00.013-0.0024.1650.6950.8400.001-0.004-0.1420.000
28B33GLY00.0430.0287.002-0.514-0.5140.0000.0000.0000.000
29B34ALA0-0.064-0.0359.0760.0930.0930.0000.0000.0000.000
30B35TYR0-0.047-0.0343.8200.1660.5020.001-0.028-0.3090.000
31B36GLY00.0260.0016.811-0.607-0.6070.0000.0000.0000.000
32B37SER0-0.0330.0096.722-0.219-0.2190.0000.0000.0000.000
33B38VAL00.0150.0102.333-4.798-1.3222.010-1.253-4.2330.014
34B39CYS0-0.059-0.0085.539-0.502-0.5020.0000.0000.0000.000
35B40ALA00.0450.0235.4520.7060.7060.0000.0000.0000.000
36B41ALA0-0.017-0.0096.808-0.927-0.9270.0000.0000.0000.000
37B42PHE0-0.042-0.0159.2770.2570.2570.0000.0000.0000.000
38B43ASP-1-0.705-0.83110.9360.2450.2450.0000.0000.0000.000
39B44THR0-0.014-0.00912.663-0.056-0.0560.0000.0000.0000.000
40B45LYS10.8980.95815.570-0.109-0.1090.0000.0000.0000.000
41B46THR0-0.022-0.05912.9120.0070.0070.0000.0000.0000.000
42B47GLY0-0.045-0.01214.6440.0050.0050.0000.0000.0000.000
43B48LEU00.0300.0239.5860.0850.0850.0000.0000.0000.000
44B49ARG10.9470.9697.724-1.562-1.5620.0000.0000.0000.000
45B50VAL00.001-0.0105.727-0.004-0.0040.0000.0000.0000.000
46B51ALA0-0.0020.0022.690-1.4990.0833.612-1.616-3.5790.013
47B52VAL0-0.0020.0033.754-3.325-2.4650.013-0.260-0.613-0.001
48B53LYS10.8770.9272.3759.47515.0783.319-2.672-6.2500.032
49B54LYS10.9200.9884.376-0.668-0.4720.001-0.037-0.1600.000
50B55LEU00.0160.0065.327-0.023-0.0230.0000.0000.0000.000
51B56SER0-0.0190.0008.3070.6890.6890.0000.0000.0000.000
52B57ARG10.8890.9179.2910.7950.7950.0000.0000.0000.000
53B58PRO00.0440.0418.4200.0880.0880.0000.0000.0000.000
54B59PHE00.0380.0079.1230.0640.0640.0000.0000.0000.000
55B60GLN00.0250.02011.9300.1140.1140.0000.0000.0000.000
56B61SER0-0.0020.00110.9200.1030.1030.0000.0000.0000.000
57B62ILE00.1020.04711.442-0.073-0.0730.0000.0000.0000.000
58B63ILE00.0180.0037.038-0.018-0.0180.0000.0000.0000.000
59B64HIS0-0.113-0.0536.6490.1260.1260.0000.0000.0000.000
60B65ALA00.0710.0416.580-0.286-0.2860.0000.0000.0000.000
61B66LYS10.8430.9266.220-0.149-0.1490.0000.0000.0000.000
62B67ARG10.8830.9472.617-0.4640.6261.042-0.474-1.6570.005
63B68THR00.0030.0092.993-2.129-1.2700.460-0.373-0.945-0.008
64B69TYR00.0370.0305.342-0.459-0.399-0.001-0.004-0.0550.000
65B70ARG10.9490.9692.639-5.269-2.8721.590-0.918-3.0700.003
66B71GLU-1-0.751-0.8421.609-48.225-68.53950.026-14.947-14.765-0.101
67B72LEU0-0.0050.0133.409-0.400-0.8470.1231.023-0.6990.001
68B73ARG10.9170.9557.0470.8270.8270.0000.0000.0000.000
69B74LEU00.0090.0012.045-1.812-0.2572.529-0.763-3.321-0.004
70B75LEU00.015-0.0192.419-2.947-1.3216.827-1.569-6.8830.005
71B76LYS10.8470.9395.4791.4451.4450.0000.0000.0000.000
72B77HIS0-0.111-0.0667.3730.1710.1710.0000.0000.0000.000
73B78MET0-0.080-0.0132.592-0.7250.1640.672-0.232-1.3290.000
74B79LYS10.8850.9306.0110.1250.1250.0000.0000.0000.000
75B80HIS00.1180.0617.3110.0370.0370.0000.0000.0000.000
76B81GLU-1-0.838-0.9128.6050.7300.7300.0000.0000.0000.000
77B82ASN0-0.018-0.0138.6810.0430.0430.0000.0000.0000.000
78B83VAL0-0.032-0.0113.015-0.6650.0950.285-0.157-0.8880.000
79B84ILE0-0.047-0.0092.379-3.621-0.8821.288-0.849-3.1780.003
80B85GLY00.0420.0254.331-0.821-0.5820.000-0.026-0.2130.000
81B86LEU0-0.044-0.0434.539-0.1790.042-0.001-0.008-0.2120.000
82B87LEU0-0.015-0.0086.4560.2050.2050.0000.0000.0000.000
83B88ASP-1-0.859-0.9216.960-0.345-0.3450.0000.0000.0000.000
84B89VAL0-0.0130.0146.632-0.561-0.5610.0000.0000.0000.000
85B90PHE00.0030.0018.5200.2920.2920.0000.0000.0000.000
86B91THR0-0.034-0.04310.566-0.144-0.1440.0000.0000.0000.000
87B92PRO00.0050.00913.3640.0730.0730.0000.0000.0000.000
88B93ALA0-0.0300.00316.2670.0580.0580.0000.0000.0000.000
89B94ARG10.9260.96218.2440.3150.3150.0000.0000.0000.000
90B95SER0-0.068-0.04021.0200.0380.0380.0000.0000.0000.000
91B96LEU00.0620.03117.803-0.049-0.0490.0000.0000.0000.000
92B97GLU-1-0.896-0.96119.346-0.407-0.4070.0000.0000.0000.000
93B98GLU-1-0.955-0.96221.041-0.392-0.3920.0000.0000.0000.000
94B99PHE00.0240.02512.687-0.051-0.0510.0000.0000.0000.000
95B100ASN0-0.086-0.08015.0200.0080.0080.0000.0000.0000.000
96B101ASP-1-0.898-0.93813.079-0.913-0.9130.0000.0000.0000.000
97B102VAL0-0.025-0.0268.3400.0980.0980.0000.0000.0000.000
98B103TYR00.0330.0157.080-0.244-0.2440.0000.0000.0000.000
99B104LEU00.001-0.0052.971-1.526-0.1000.292-0.383-1.3350.000
100B105VAL00.0140.0203.145-1.3300.0010.102-0.631-0.803-0.007
101B106THR00.0070.0092.510-4.642-1.3362.072-1.538-3.840-0.004
102B107HIS00.1000.0464.9640.2770.598-0.001-0.031-0.2890.000
103B108LEU0-0.064-0.0212.636-7.180-2.8261.825-2.195-3.9850.003
104B109MET0-0.008-0.0082.187-9.183-6.4033.770-2.051-4.4990.014
105B110GLY0-0.021-0.0053.2480.5481.9510.142-0.436-1.110-0.003
106B111ALA00.0100.0125.199-0.489-0.411-0.001-0.003-0.0750.000
107B112ASP-1-0.808-0.9047.1780.2050.2050.0000.0000.0000.000
108B113LEU00.0320.0048.664-0.243-0.2430.0000.0000.0000.000
109B114ASN0-0.010-0.01311.423-0.241-0.2410.0000.0000.0000.000
110B115ASN0-0.036-0.0228.7890.0860.0860.0000.0000.0000.000
111B116ILE00.0650.02912.382-0.007-0.0070.0000.0000.0000.000
112B117VAL0-0.051-0.01515.075-0.026-0.0260.0000.0000.0000.000
113B118LYS10.8510.92813.9350.2690.2690.0000.0000.0000.000
114B119CYS0-0.0290.00116.904-0.023-0.0230.0000.0000.0000.000
115B120GLN00.0490.02518.851-0.019-0.0190.0000.0000.0000.000
116B121LYS10.9010.95921.578-0.155-0.1550.0000.0000.0000.000
117B122LEU0-0.023-0.00418.913-0.005-0.0050.0000.0000.0000.000
118B123THR00.0360.01923.214-0.018-0.0180.0000.0000.0000.000
119B124ASP-1-0.765-0.90323.5750.2850.2850.0000.0000.0000.000
120B125ASP-1-0.872-0.92622.9680.3700.3700.0000.0000.0000.000
121B126HIS00.015-0.01118.208-0.017-0.0170.0000.0000.0000.000
122B127VAL0-0.027-0.02119.0590.0470.0470.0000.0000.0000.000
123B128GLN0-0.059-0.02718.0480.0480.0480.0000.0000.0000.000
124B129PHE00.0780.04417.6020.0290.0290.0000.0000.0000.000
125B130LEU00.003-0.00214.5000.0580.0580.0000.0000.0000.000
126B131ILE0-0.034-0.03713.4020.0610.0610.0000.0000.0000.000
127B132TYR0-0.030-0.02613.3700.0570.0570.0000.0000.0000.000
128B133GLN00.0390.00711.5990.0930.0930.0000.0000.0000.000
129B134ILE0-0.047-0.0098.5170.0740.0740.0000.0000.0000.000
130B135LEU0-0.010-0.0068.7130.0490.0490.0000.0000.0000.000
131B136ARG10.8450.91510.908-0.573-0.5730.0000.0000.0000.000
132B137GLY00.0340.0106.954-0.024-0.0240.0000.0000.0000.000
133B138LEU0-0.037-0.0356.005-0.033-0.0330.0000.0000.0000.000
134B139LYS10.8860.9537.675-0.392-0.3920.0000.0000.0000.000
135B140TYR00.0230.0265.588-0.008-0.0080.0000.0000.0000.000
136B141ILE00.0240.0242.347-1.363-0.3691.445-0.331-2.108-0.003
137B142HIS0-0.105-0.0665.585-0.044-0.0440.0000.0000.0000.000
138B143SER0-0.071-0.0388.351-0.091-0.0910.0000.0000.0000.000
139B144ALA00.0250.0047.134-0.093-0.0930.0000.0000.0000.000
140B145ASP-1-0.931-0.9589.2790.5200.5200.0000.0000.0000.000
141B146ILE0-0.068-0.0173.071-0.4040.2000.092-0.103-0.5930.000
142B147ILE0-0.081-0.0566.224-0.188-0.1880.0000.0000.0000.000
143B148HIS00.0310.0062.428-1.3720.2991.390-0.645-2.4170.000
144B149ARG10.8700.9334.297-1.852-1.7130.000-0.003-0.1360.000
145B150ASP-1-0.874-0.9386.020-1.002-1.0020.0000.0000.0000.000
146B151LEU00.0740.0495.826-0.140-0.1400.0000.0000.0000.000
147B152LYS10.8940.9307.8170.7980.7980.0000.0000.0000.000
148B153PRO00.0360.0109.2950.1570.1570.0000.0000.0000.000
149B154SER00.0180.0027.7790.3320.3320.0000.0000.0000.000
150B155ASN0-0.032-0.0035.292-0.617-0.6170.0000.0000.0000.000
151B156LEU0-0.057-0.0215.8270.8000.8000.0000.0000.0000.000
152B157ALA00.0470.0255.813-0.212-0.2120.0000.0000.0000.000
153B158VAL0-0.039-0.0317.867-0.201-0.2010.0000.0000.0000.000
154B159ASN00.0060.0189.799-0.017-0.0170.0000.0000.0000.000
155B160GLU-1-0.931-0.99111.0231.1031.1030.0000.0000.0000.000
156B161ASP-1-0.895-0.93114.3810.6270.6270.0000.0000.0000.000
157B162CYS0-0.098-0.02614.670-0.095-0.0950.0000.0000.0000.000
158B163GLU-1-0.899-0.93212.9170.8210.8210.0000.0000.0000.000
159B164LEU0-0.033-0.0238.5380.1970.1970.0000.0000.0000.000
160B165LYS10.8840.9546.604-1.471-1.4710.0000.0000.0000.000
161B166ILE0-0.028-0.0182.510-0.3360.1320.707-0.166-1.0100.000
162B167LEU0-0.036-0.0292.040-3.460-0.4925.293-3.034-5.2280.006
163B168ASP-1-0.896-0.9552.393-10.206-6.1873.215-0.348-6.8860.009
164B169PHE00.0250.0012.780-11.720-5.1804.202-2.709-8.032-0.005
165B170GLY0-0.0190.0153.413-4.057-2.9410.013-0.411-0.718-0.003
166B171LEU00.010-0.0012.549-2.329-1.0750.501-0.370-1.3850.003
167B172ALA0-0.006-0.0246.1890.9690.9690.0000.0000.0000.000
168B173ARG10.8730.9368.7620.8850.8850.0000.0000.0000.000
169B174HIS00.013-0.0128.8050.1890.1890.0000.0000.0000.000
170B175THR0-0.0030.0088.1120.1720.1720.0000.0000.0000.000
171B176ASP-1-0.798-0.8855.500-2.895-2.8950.0000.0000.0000.000
172B177ASP-1-0.894-0.9565.173-1.097-1.0970.0000.0000.0000.000
173B178GLU-1-0.972-0.9726.742-0.519-0.5190.0000.0000.0000.000
174B179MET0-0.091-0.0469.3180.1790.1790.0000.0000.0000.000
175B180THR0-0.058-0.03110.6110.2520.2520.0000.0000.0000.000
176B181GLY0-0.035-0.02110.388-0.275-0.2750.0000.0000.0000.000
177B182TYR00.0130.0048.5850.2820.2820.0000.0000.0000.000
178B183VAL0-0.017-0.01010.583-0.020-0.0200.0000.0000.0000.000
179B184ALA00.0000.01412.714-0.026-0.0260.0000.0000.0000.000
180B185THR00.0370.01811.568-0.015-0.0150.0000.0000.0000.000
181B186ARG10.7810.88613.9690.4820.4820.0000.0000.0000.000
182B187TRP0-0.006-0.01816.6400.0400.0400.0000.0000.0000.000
183B188TYR0-0.049-0.07412.7690.0130.0130.0000.0000.0000.000
184B189ARG10.8490.92110.086-0.120-0.1200.0000.0000.0000.000
185B190ALA00.0530.02413.867-0.035-0.0350.0000.0000.0000.000
186B191PRO00.0100.01515.765-0.033-0.0330.0000.0000.0000.000
187B192GLU-1-0.732-0.85316.3920.2930.2930.0000.0000.0000.000
188B193ILE00.0040.00012.162-0.021-0.0210.0000.0000.0000.000
189B194MET0-0.105-0.04216.350-0.050-0.0500.0000.0000.0000.000
190B195LEU0-0.067-0.02118.985-0.039-0.0390.0000.0000.0000.000
191B196ASN0-0.062-0.02617.5940.0070.0070.0000.0000.0000.000
192B197TRP0-0.0030.00618.486-0.024-0.0240.0000.0000.0000.000
193B198MET0-0.036-0.02517.6720.0130.0130.0000.0000.0000.000
194B199HIS00.0120.02916.6470.0590.0590.0000.0000.0000.000
195B200TYR00.020-0.03410.938-0.054-0.0540.0000.0000.0000.000
196B201ASN00.0380.01613.1030.0860.0860.0000.0000.0000.000
197B202GLN00.0960.0389.654-0.052-0.0520.0000.0000.0000.000
198B203THR00.0210.02010.6790.0790.0790.0000.0000.0000.000
199B204VAL0-0.061-0.03410.248-0.049-0.0490.0000.0000.0000.000
200B205ASP-1-0.716-0.8376.9411.4701.4700.0000.0000.0000.000
201B206ILE0-0.0020.00510.157-0.039-0.0390.0000.0000.0000.000
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