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: XN2QX

Calculation Name: 3GCV-A-Xray9

Preferred Name: MAP kinase p38 alpha

Target Type: SINGLE PROTEIN

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

ligand 3-letter code: SS6

PDB ID: 3GCV

Chain ID: A

ChEMBL ID: CHEMBL260

UniProt ID: Q16539

Base Structure: X-ray

Registration Date: 2017-05-08

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 SS6
LigandFragmentNumber 347
LigandCharge
Software MIZUHO/ABINIT-MP 4.0(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -5775955.305139
FMO2-HF: Nuclear repulsion 5635374.015624
FMO2-HF: Total energy -140581.289515
FMO2-MP2: Total energy -140992.34717


3D Structure
Snapshot
 
Ligand structure

SS6

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.
-149.654-94.70094.503-41.797-107.662-0.004


Interactive mode: IFIE and PIEDA for fragment #347(A:361:SS6)


Summations of interaction energy for fragment #347(A:361:SS6)
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.
-149.654-94.794.503-41.797-107.6620.004
Interaction energy analysis for fragmet #347(A:361:SS6)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.003 / q_NPA : 0.008
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].
1A6PRO10.8480.90215.7080.1330.1330.0000.0000.0000.000
2A7THR00.0910.06518.881-0.048-0.0480.0000.0000.0000.000
3A8PHE00.0120.00613.6420.0460.0460.0000.0000.0000.000
4A9TYR0-0.050-0.04214.956-0.018-0.0180.0000.0000.0000.000
5A10ARG10.9850.98216.9140.3550.3550.0000.0000.0000.000
6A11GLN00.0520.02015.3050.0660.0660.0000.0000.0000.000
7A12GLU-1-0.852-0.88317.091-0.560-0.5600.0000.0000.0000.000
8A13LEU00.009-0.00411.9420.0350.0350.0000.0000.0000.000
9A14ASN00.0280.01510.3330.0500.0500.0000.0000.0000.000
10A15LYS10.8160.87214.2790.4480.4480.0000.0000.0000.000
11A16THR0-0.0230.00412.565-0.077-0.0770.0000.0000.0000.000
12A17ILE00.0050.00615.2990.0800.0800.0000.0000.0000.000
13A18TRP00.0100.0197.341-0.095-0.0950.0000.0000.0000.000
14A19GLU-1-0.953-0.98713.612-0.298-0.2980.0000.0000.0000.000
15A20VAL0-0.0070.00610.760-0.073-0.0730.0000.0000.0000.000
16A21PRO0-0.021-0.00411.9230.0400.0400.0000.0000.0000.000
17A22GLU-1-0.840-0.93114.5490.0860.0860.0000.0000.0000.000
18A23ARG10.7990.90313.240-0.368-0.3680.0000.0000.0000.000
19A24TYR0-0.039-0.04410.0420.1500.1500.0000.0000.0000.000
20A25GLN00.0110.00413.298-0.145-0.1450.0000.0000.0000.000
21A26ASN0-0.035-0.03513.1080.2140.2140.0000.0000.0000.000
22A27LEU00.0250.01710.2670.1110.1110.0000.0000.0000.000
23A28SER0-0.039-0.0179.155-0.323-0.3230.0000.0000.0000.000
24A29PRO00.008-0.0127.7330.2720.2720.0000.0000.0000.000
25A30VAL0-0.0040.0013.026-1.799-0.0580.529-0.627-1.6430.006
26A31GLY00.0230.0153.301-4.107-2.9940.044-0.560-0.597-0.003
27A32SER0-0.023-0.0184.4531.2511.333-0.001-0.004-0.0780.000
28A33GLY0-0.014-0.0256.8670.0680.0680.0000.0000.0000.000
29A34ALA00.0550.0496.305-0.677-0.6770.0000.0000.0000.000
30A35TYR0-0.072-0.0495.182-0.222-0.127-0.001-0.001-0.0940.000
31A36GLY00.0320.0076.799-0.055-0.0550.0000.0000.0000.000
32A37SER0-0.0300.0206.311-0.517-0.5170.0000.0000.0000.000
33A38VAL00.0320.0122.297-3.344-0.4432.512-1.220-4.1930.012
34A39CYS0-0.0450.0045.445-0.862-0.8620.0000.0000.0000.000
35A40ALA00.0470.0295.3981.1011.1010.0000.0000.0000.000
36A41ALA0-0.012-0.0046.505-0.876-0.8760.0000.0000.0000.000
37A42PHE0-0.0020.0049.3890.3750.3750.0000.0000.0000.000
38A43ASP-1-0.732-0.84211.0220.4630.4630.0000.0000.0000.000
39A44THR0-0.022-0.03212.783-0.032-0.0320.0000.0000.0000.000
40A45LYS10.8950.95515.720-0.302-0.3020.0000.0000.0000.000
41A46THR0-0.007-0.01412.620-0.001-0.0010.0000.0000.0000.000
42A47GLY0-0.0050.01215.1090.0110.0110.0000.0000.0000.000
43A48LEU00.0220.0189.6930.0760.0760.0000.0000.0000.000
44A49ARG10.9490.9767.594-1.616-1.6160.0000.0000.0000.000
45A50VAL00.0260.0165.6600.3760.3760.0000.0000.0000.000
46A51ALA0-0.014-0.0112.639-2.214-0.6994.676-1.851-4.3390.013
47A52VAL00.000-0.0033.964-2.626-1.9270.005-0.156-0.5490.000
48A53LYS10.8370.8792.5396.50812.7802.839-3.003-6.1080.035
49A54LYS10.8530.9164.468-0.1430.0640.001-0.042-0.1670.000
50A55LEU00.007-0.0015.347-0.068-0.0680.0000.0000.0000.000
51A56SER0-0.017-0.0168.6570.5290.5290.0000.0000.0000.000
52A57ARG10.8980.95010.4320.9760.9760.0000.0000.0000.000
53A58PRO00.0590.0529.5500.0370.0370.0000.0000.0000.000
54A59PHE00.0610.00910.3100.0590.0590.0000.0000.0000.000
55A60GLN00.0650.03012.7770.0950.0950.0000.0000.0000.000
56A61SER00.0080.01411.5680.0860.0860.0000.0000.0000.000
57A62ILE00.1090.04511.833-0.080-0.0800.0000.0000.0000.000
58A63ILE0-0.0030.0058.098-0.027-0.0270.0000.0000.0000.000
59A64HIS0-0.094-0.0697.373-0.138-0.1380.0000.0000.0000.000
60A65ALA00.0310.0517.589-0.221-0.2210.0000.0000.0000.000
61A66LYS10.8530.9316.433-0.060-0.0600.0000.0000.0000.000
62A67ARG10.9310.9582.1930.9221.7661.387-0.467-1.7640.002
63A68THR0-0.009-0.0253.071-2.308-0.9110.125-0.708-0.815-0.007
64A69TYR00.0060.0115.664-0.395-0.3950.0000.0000.0000.000
65A70ARG10.9220.9522.561-2.551-1.3860.843-0.418-1.5910.000
66A71GLU-1-0.750-0.8291.950-45.418-42.46716.507-6.963-12.495-0.065
67A72LEU0-0.014-0.0093.389-0.326-0.5680.1040.657-0.5190.000
68A73ARG10.8830.9206.6370.7670.7670.0000.0000.0000.000
69A74LEU00.0360.0222.365-2.0330.0031.561-0.662-2.934-0.001
70A75LEU0-0.002-0.0242.412-3.469-0.6913.920-1.167-5.5310.006
71A76LYS10.7480.8605.4221.2471.2470.0000.0000.0000.000
72A77HIS0-0.096-0.0687.3970.1690.1690.0000.0000.0000.000
73A78MET0-0.088-0.0142.771-0.8610.0750.503-0.201-1.2370.000
74A79LYS10.9220.9466.162-0.064-0.0640.0000.0000.0000.000
75A80HIS00.1160.0637.0920.0270.0270.0000.0000.0000.000
76A81GLU-1-0.821-0.9068.5461.2301.2300.0000.0000.0000.000
77A82ASN0-0.016-0.0138.5360.0770.0770.0000.0000.0000.000
78A83VAL0-0.0280.0012.664-0.529-0.0541.108-0.233-1.351-0.001
79A84ILE0-0.065-0.0262.352-4.114-1.1172.158-1.235-3.9190.008
80A85GLY00.0670.0414.313-1.266-1.0150.000-0.030-0.2200.000
81A86LEU0-0.068-0.0454.2140.3840.6280.000-0.016-0.2280.000
82A87LEU0-0.029-0.0176.411-0.003-0.0030.0000.0000.0000.000
83A88ASP-1-0.824-0.9036.837-0.198-0.1980.0000.0000.0000.000
84A89VAL0-0.0120.0096.482-0.522-0.5220.0000.0000.0000.000
85A90PHE0-0.016-0.0058.4300.2270.2270.0000.0000.0000.000
86A91THR0-0.004-0.03410.404-0.163-0.1630.0000.0000.0000.000
87A92PRO00.000-0.00313.1900.0790.0790.0000.0000.0000.000
88A93ALA0-0.055-0.00216.2060.0590.0590.0000.0000.0000.000
89A94ARG10.9410.96818.4410.2590.2590.0000.0000.0000.000
90A95SER0-0.010-0.00121.2010.0230.0230.0000.0000.0000.000
91A96LEU00.0830.03817.487-0.057-0.0570.0000.0000.0000.000
92A97GLU-1-0.905-0.96719.863-0.378-0.3780.0000.0000.0000.000
93A98GLU-1-0.955-0.96920.667-0.374-0.3740.0000.0000.0000.000
94A99PHE0-0.058-0.02712.951-0.056-0.0560.0000.0000.0000.000
95A100ASN0-0.072-0.05416.299-0.061-0.0610.0000.0000.0000.000
96A101ASP-1-0.933-0.95712.665-1.090-1.0900.0000.0000.0000.000
97A102VAL00.0240.0137.8190.1210.1210.0000.0000.0000.000
98A103TYR00.000-0.0016.871-0.146-0.1460.0000.0000.0000.000
99A104LEU00.0070.0072.725-1.830-0.1650.591-0.574-1.6820.002
100A105VAL00.0010.0073.062-1.664-0.2450.141-0.673-0.886-0.008
101A106THR00.0390.0262.385-9.520-6.6345.407-2.447-5.8460.003
102A107HIS00.1100.0484.311-0.3470.1600.000-0.089-0.4190.000
103A108LEU0-0.092-0.0342.178-8.275-5.0165.546-3.174-5.630-0.009
104A109MET00.0190.0102.075-11.855-12.5629.677-3.100-5.8710.029
105A110GLY00.0120.0032.854-5.128-3.0480.256-0.894-1.442-0.010
106A111ALA00.0150.0105.439-0.249-0.2490.0000.0000.0000.000
107A112ASP-1-0.798-0.8767.8880.8510.8510.0000.0000.0000.000
108A113LEU00.0400.0089.369-0.256-0.2560.0000.0000.0000.000
109A114ASN00.0390.01911.862-0.092-0.0920.0000.0000.0000.000
110A115ASN0-0.032-0.0249.3890.0280.0280.0000.0000.0000.000
111A116ILE00.0500.04113.001-0.066-0.0660.0000.0000.0000.000
112A117VAL0-0.018-0.00315.593-0.079-0.0790.0000.0000.0000.000
113A118LYS10.8420.92016.018-0.069-0.0690.0000.0000.0000.000
114A119CYS0-0.040-0.00616.448-0.051-0.0510.0000.0000.0000.000
115A120GLN0-0.026-0.01217.9540.0400.0400.0000.0000.0000.000
116A121LYS10.9280.96621.319-0.217-0.2170.0000.0000.0000.000
117A122LEU00.0170.01019.1290.0050.0050.0000.0000.0000.000
118A123THR00.0030.00523.489-0.021-0.0210.0000.0000.0000.000
119A124ASP-1-0.722-0.84323.5290.3990.3990.0000.0000.0000.000
120A125ASP-1-0.867-0.88722.7360.5240.5240.0000.0000.0000.000
121A126HIS00.0550.02018.000-0.022-0.0220.0000.0000.0000.000
122A127VAL0-0.020-0.01518.8630.0690.0690.0000.0000.0000.000
123A128GLN0-0.021-0.02117.8680.0700.0700.0000.0000.0000.000
124A129PHE00.0680.05517.3250.0330.0330.0000.0000.0000.000
125A130LEU0-0.012-0.01014.6320.0970.0970.0000.0000.0000.000
126A131ILE0-0.035-0.03713.1560.0940.0940.0000.0000.0000.000
127A132TYR0-0.041-0.04813.3040.0610.0610.0000.0000.0000.000
128A133GLN00.0320.00111.5320.1310.1310.0000.0000.0000.000
129A134ILE0-0.037-0.0088.2160.0950.0950.0000.0000.0000.000
130A135LEU0-0.017-0.0118.6410.0170.0170.0000.0000.0000.000
131A136ARG10.8310.91610.859-0.880-0.8800.0000.0000.0000.000
132A137GLY00.0400.0137.124-0.032-0.0320.0000.0000.0000.000
133A138LEU0-0.035-0.0285.660-0.117-0.1170.0000.0000.0000.000
134A139LYS10.8670.9337.451-0.553-0.5530.0000.0000.0000.000
135A140TYR00.0200.0265.531-0.024-0.0240.0000.0000.0000.000
136A141ILE00.004-0.0062.593-1.747-0.3401.035-0.326-2.116-0.003
137A142HIS0-0.105-0.0745.477-0.032-0.0320.0000.0000.0000.000
138A143SER0-0.058-0.0167.951-0.069-0.0690.0000.0000.0000.000
139A144ALA00.0170.0057.057-0.068-0.0680.0000.0000.0000.000
140A145ASP-1-0.906-0.9389.1150.4510.4510.0000.0000.0000.000
141A146ILE0-0.066-0.0142.848-0.4950.1520.162-0.115-0.6950.000
142A147ILE0-0.033-0.0306.051-0.129-0.1290.0000.0000.0000.000
143A148HIS0-0.031-0.0132.352-1.472-0.2682.003-0.739-2.4670.001
144A149ARG10.9090.9394.161-1.569-1.4390.0000.000-0.1300.000
145A150ASP-1-0.874-0.9216.264-0.480-0.4800.0000.0000.0000.000
146A151LEU00.0550.0325.5150.0230.0230.0000.0000.0000.000
147A152LYS10.8810.9407.8160.1780.1780.0000.0000.0000.000
148A153PRO00.0580.0199.2410.2440.2440.0000.0000.0000.000
149A154SER00.0240.0079.0660.3230.3230.0000.0000.0000.000
150A155ASN0-0.008-0.0055.461-0.546-0.5460.0000.0000.0000.000
151A156LEU0-0.021-0.0045.9251.0301.0300.0000.0000.0000.000
152A157ALA00.0300.0156.359-0.448-0.4480.0000.0000.0000.000
153A158VAL0-0.0010.0048.386-0.174-0.1740.0000.0000.0000.000
154A159ASN0-0.083-0.0479.799-0.125-0.1250.0000.0000.0000.000
155A160GLU-1-0.920-0.98110.9681.3211.3210.0000.0000.0000.000
156A161ASP-1-0.941-0.96313.6330.6820.6820.0000.0000.0000.000
157A162CYS0-0.081-0.03614.835-0.087-0.0870.0000.0000.0000.000
158A163GLU-1-0.836-0.88312.3371.3471.3470.0000.0000.0000.000
159A164LEU0-0.045-0.0168.5470.2610.2610.0000.0000.0000.000
160A165LYS10.8410.9226.533-2.423-2.4230.0000.0000.0000.000
161A166ILE0-0.001-0.0122.391-0.232-0.0601.411-0.260-1.323-0.001
162A167LEU0-0.057-0.0352.015-4.304-1.5836.906-3.608-6.0190.009
163A168ASP-1-0.870-0.9211.944-21.411-19.89411.857-3.349-10.0250.003
164A169PHE0-0.001-0.0282.356-12.994-7.3706.958-2.903-9.679-0.020
165A170GLY0-0.042-0.0224.074-1.990-1.5250.000-0.076-0.3890.000
166A171LEU0-0.031-0.0415.0311.2321.2320.0000.0000.0000.000
167A172ALA0-0.028-0.0042.4240.017-0.8473.721-0.665-2.1920.003
168A173ARG10.8030.8733.3691.0531.3840.0130.105-0.4480.000
169A174HIS0-0.0140.0025.1910.6120.646-0.001-0.003-0.0310.000
170A175THR0-0.045-0.0397.685-0.422-0.4220.0000.0000.0000.000
171A176ASP-1-0.867-0.92910.362-1.470-1.4700.0000.0000.0000.000
172A177ASP-1-0.929-0.96011.179-0.587-0.5870.0000.0000.0000.000
173A178GLU-1-0.781-0.83411.838-1.112-1.1120.0000.0000.0000.000
174A179MET00.0010.0107.6370.3910.3910.0000.0000.0000.000
175A180THR0-0.049-0.05111.3010.2570.2570.0000.0000.0000.000
176A181GLY0-0.023-0.01313.7590.1680.1680.0000.0000.0000.000
177A182TYR0-0.147-0.11111.8610.1830.1830.0000.0000.0000.000
178A183VAL0-0.061-0.04112.4190.1630.1630.0000.0000.0000.000
179A184ALA00.0300.03613.706-0.098-0.0980.0000.0000.0000.000
180A185THR00.023-0.00811.5150.0120.0120.0000.0000.0000.000
181A186ARG10.8140.89613.9570.3620.3620.0000.0000.0000.000
182A187TRP0-0.036-0.02316.6880.0350.0350.0000.0000.0000.000
183A188TYR0-0.018-0.05112.8510.0240.0240.0000.0000.0000.000
184A189ARG10.8890.97710.306-0.226-0.2260.0000.0000.0000.000
185A190ALA00.0370.01814.149-0.046-0.0460.0000.0000.0000.000
186A191PRO00.0410.01216.117-0.032-0.0320.0000.0000.0000.000
187A192GLU-1-0.773-0.86116.4710.3180.3180.0000.0000.0000.000
188A193ILE00.0420.01212.075-0.022-0.0220.0000.0000.0000.000
189A194MET0-0.095-0.03016.449-0.073-0.0730.0000.0000.0000.000
190A195LEU0-0.041-0.01919.140-0.042-0.0420.0000.0000.0000.000
191A196ASN0-0.065-0.02817.7670.0000.0000.0000.0000.0000.000
192A197TRP0-0.0100.00318.533-0.017-0.0170.0000.0000.0000.000
193A198MET00.0000.00917.0100.0240.0240.0000.0000.0000.000
194A199HIS00.0080.02015.4400.0250.0250.0000.0000.0000.000
195A200TYR0-0.022-0.03412.752-0.002-0.0020.0000.0000.0000.000
196A201ASN00.0180.00913.7470.0360.0360.0000.0000.0000.000
197A202GLN00.1160.0319.7570.0020.0020.0000.0000.0000.000
198A203THR00.0120.00910.6920.0790.0790.0000.0000.0000.000
199A204VAL0-0.044-0.03010.252-0.034-0.0340.0000.0000.0000.000
200A205ASP-1-0.726-0.8487.0801.4571.4570.0000.0000.0000.000
201A206ILE00.0150.00810.2760.0050.0050.0000.0000.0000.000
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