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: P9J2X

Calculation Name: 3HV3-A-Xray12

Preferred Name: MAP kinase p38 alpha

Target Type: SINGLE PROTEIN

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

ligand 3-letter code: R49

PDB ID: 3HV3

Chain ID: A

ChEMBL ID: CHEMBL260

UniProt ID: Q16539

Base Structure: X-ray

Registration Date: 2017-08-22

Reference:

DOI:


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 R49
LigandFragmentNumber 347
LigandCharge
Software MIZUHO/ABINIT-MP 4.0(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -5799856.678793
FMO2-HF: Nuclear repulsion 5659291.182125
FMO2-HF: Total energy -140565.496667
FMO2-MP2: Total energy -140976.376565


3D Structure
Snapshot
 
Ligand structure

R49

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.
-153.783-102.206108.681-45.630-114.637-0.009


Interactive mode: IFIE and PIEDA for fragment #347(A:361:R49)


Summations of interaction energy for fragment #347(A:361:R49)
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.
-153.783-102.206108.681-45.63-114.6370.009
Interaction energy analysis for fragmet #347(A:361:R49)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.008 / q_NPA : -0.017
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].
1A6PRO10.8590.91118.2010.2040.2040.0000.0000.0000.000
2A7THR00.1000.06321.411-0.056-0.0560.0000.0000.0000.000
3A8PHE00.0060.01715.5840.0450.0450.0000.0000.0000.000
4A9TYR0-0.042-0.04416.365-0.005-0.0050.0000.0000.0000.000
5A10ARG10.9270.96718.1370.4300.4300.0000.0000.0000.000
6A11GLN00.0500.01215.3100.0940.0940.0000.0000.0000.000
7A12GLU-1-0.986-0.98116.667-0.583-0.5830.0000.0000.0000.000
8A13LEU0-0.015-0.01211.1710.0350.0350.0000.0000.0000.000
9A14ASN00.013-0.0068.4480.0120.0120.0000.0000.0000.000
10A15LYS10.9720.99812.5000.9150.9150.0000.0000.0000.000
11A16THR0-0.039-0.02011.753-0.064-0.0640.0000.0000.0000.000
12A17ILE00.0410.01714.3550.0820.0820.0000.0000.0000.000
13A18TRP00.006-0.0157.807-0.086-0.0860.0000.0000.0000.000
14A19GLU-1-0.923-0.96814.679-0.350-0.3500.0000.0000.0000.000
15A20VAL00.0050.00812.079-0.096-0.0960.0000.0000.0000.000
16A21PRO0-0.0050.00014.0010.0480.0480.0000.0000.0000.000
17A22GLU-1-0.885-0.95216.3260.0980.0980.0000.0000.0000.000
18A23ARG10.8260.89913.513-0.300-0.3000.0000.0000.0000.000
19A24TYR0-0.052-0.03211.5640.1910.1910.0000.0000.0000.000
20A25GLN00.0020.01114.507-0.135-0.1350.0000.0000.0000.000
21A26ASN0-0.015-0.02013.3220.1030.1030.0000.0000.0000.000
22A27LEU00.0190.01411.1830.1380.1380.0000.0000.0000.000
23A28SER0-0.004-0.0048.974-0.364-0.3640.0000.0000.0000.000
24A29PRO0-0.005-0.0037.0400.3180.3180.0000.0000.0000.000
25A30VAL0-0.006-0.0052.433-2.273-0.2672.740-1.286-3.4600.013
26A31GLY00.0180.0312.238-8.105-6.9472.415-1.602-1.970-0.021
27A32SER0-0.048-0.0544.2130.4810.6780.000-0.029-0.1690.000
28A33GLY00.0180.0164.5360.0790.331-0.001-0.017-0.2340.000
29A34ALA00.0610.0432.383-0.971-0.1121.130-0.560-1.4290.005
30A35TYR0-0.065-0.0374.039-0.405-0.1290.000-0.018-0.2590.000
31A36GLY00.0010.0025.9560.4870.4870.0000.0000.0000.000
32A37SER0-0.0090.0085.995-0.406-0.4060.0000.0000.0000.000
33A38VAL00.016-0.0072.335-4.160-0.7372.399-1.438-4.3840.015
34A39CYS0-0.054-0.0015.121-1.357-1.189-0.001-0.008-0.1590.000
35A40ALA00.0320.0255.4241.3581.3580.0000.0000.0000.000
36A41ALA0-0.0040.0006.642-1.006-1.0060.0000.0000.0000.000
37A42PHE0-0.0080.0039.6700.4050.4050.0000.0000.0000.000
38A43ASP-1-0.708-0.82811.2570.4350.4350.0000.0000.0000.000
39A44THR0-0.054-0.05013.013-0.046-0.0460.0000.0000.0000.000
40A45LYS10.9170.97416.063-0.273-0.2730.0000.0000.0000.000
41A46THR0-0.026-0.03112.9550.0210.0210.0000.0000.0000.000
42A47GLY00.0120.01615.0710.0060.0060.0000.0000.0000.000
43A48LEU0-0.0050.0079.5980.1250.1250.0000.0000.0000.000
44A49ARG10.9770.9897.751-2.078-2.0780.0000.0000.0000.000
45A50VAL0-0.008-0.0116.0300.4080.4080.0000.0000.0000.000
46A51ALA00.0110.0032.805-1.4980.3542.329-1.155-3.0250.012
47A52VAL00.000-0.0014.897-2.408-2.0820.000-0.033-0.2920.000
48A53LYS10.8790.9542.4828.88211.3334.058-1.762-4.7480.021
49A54LYS10.9040.9714.6080.3370.472-0.001-0.014-0.1200.000
50A55LEU0-0.007-0.0115.323-0.233-0.2330.0000.0000.0000.000
51A56SER0-0.0120.0027.5860.6480.6480.0000.0000.0000.000
52A57ARG10.9120.9429.0391.2001.2000.0000.0000.0000.000
53A58PRO00.0770.0528.7220.0490.0490.0000.0000.0000.000
54A59PHE00.0630.0029.7450.0270.0270.0000.0000.0000.000
55A60GLN0-0.0280.01312.0240.1620.1620.0000.0000.0000.000
56A61SER00.034-0.00411.9330.1170.1170.0000.0000.0000.000
57A62ILE00.0940.04311.871-0.122-0.1220.0000.0000.0000.000
58A63ILE0-0.024-0.0028.182-0.046-0.0460.0000.0000.0000.000
59A64HIS0-0.095-0.0577.454-0.036-0.0360.0000.0000.0000.000
60A65ALA00.0360.0187.312-0.299-0.2990.0000.0000.0000.000
61A66LYS10.9150.9897.8540.3020.3020.0000.0000.0000.000
62A67ARG10.9430.9792.1510.6411.6201.443-0.498-1.9230.007
63A68THR0-0.019-0.0073.513-1.307-0.6340.031-0.290-0.414-0.002
64A69TYR00.0370.0156.019-0.299-0.2990.0000.0000.0000.000
65A70ARG10.9100.9592.398-6.234-3.9351.338-0.897-2.7410.007
66A71GLU-1-0.837-0.9061.808-52.797-51.60722.532-9.578-14.144-0.085
67A72LEU0-0.024-0.0113.434-0.026-0.9300.1531.520-0.7690.002
68A73ARG10.9870.9876.9240.9590.9590.0000.0000.0000.000
69A74LEU00.0350.0272.232-2.313-0.2172.740-0.840-3.9960.000
70A75LEU0-0.020-0.0092.609-3.1130.3321.657-0.873-4.2300.006
71A76LYS10.7940.8925.4001.3281.447-0.001-0.002-0.1160.000
72A77HIS0-0.080-0.0626.7940.3590.3590.0000.0000.0000.000
73A78MET0-0.0670.0062.257-0.793-0.7882.739-0.504-2.240-0.003
74A79LYS10.9200.9515.7460.0630.0630.0000.0000.0000.000
75A80HIS00.0990.0487.5020.0660.0660.0000.0000.0000.000
76A81GLU-1-0.817-0.8958.6731.0411.0410.0000.0000.0000.000
77A82ASN0-0.024-0.0108.6370.0860.0860.0000.0000.0000.000
78A83VAL0-0.017-0.0092.839-0.7990.0800.415-0.196-1.0990.000
79A84ILE0-0.050-0.0122.298-5.233-1.4173.233-1.638-5.4120.013
80A85GLY00.0530.0274.474-1.159-0.904-0.001-0.019-0.2360.000
81A86LEU0-0.070-0.0465.378-0.061-0.0610.0000.0000.0000.000
82A87LEU0-0.030-0.0117.3910.2290.2290.0000.0000.0000.000
83A88ASP-1-0.834-0.9198.780-0.242-0.2420.0000.0000.0000.000
84A89VAL0-0.012-0.0018.287-0.455-0.4550.0000.0000.0000.000
85A90PHE0-0.0240.0029.9640.2390.2390.0000.0000.0000.000
86A91THR00.014-0.02211.834-0.190-0.1900.0000.0000.0000.000
87A92PRO0-0.021-0.01414.6260.0890.0890.0000.0000.0000.000
88A93ALA0-0.0450.00717.6300.0660.0660.0000.0000.0000.000
89A94ARG10.9260.94419.6480.3200.3200.0000.0000.0000.000
90A95SER0-0.013-0.01022.0430.0380.0380.0000.0000.0000.000
91A96LEU00.0610.02818.834-0.059-0.0590.0000.0000.0000.000
92A97GLU-1-0.896-0.95820.687-0.491-0.4910.0000.0000.0000.000
93A98GLU-1-0.931-0.94522.067-0.466-0.4660.0000.0000.0000.000
94A99PHE0-0.068-0.02313.491-0.070-0.0700.0000.0000.0000.000
95A100ASN0-0.033-0.04116.080-0.044-0.0440.0000.0000.0000.000
96A101ASP-1-0.940-0.95713.505-1.288-1.2880.0000.0000.0000.000
97A102VAL00.0440.0068.4650.1330.1330.0000.0000.0000.000
98A103TYR0-0.0050.0048.198-0.281-0.2810.0000.0000.0000.000
99A104LEU00.0240.0193.346-0.624-0.0540.017-0.093-0.4950.000
100A105VAL0-0.001-0.0015.5440.6920.6920.0000.0000.0000.000
101A106THR00.0590.0292.490-2.771-0.4950.443-0.833-1.887-0.004
102A107HIS00.0660.0254.6860.7181.086-0.001-0.062-0.3050.000
103A108LEU0-0.050-0.0192.354-7.001-2.9653.278-2.576-4.738-0.004
104A109MET0-0.028-0.0211.844-8.508-16.93822.541-5.351-8.7600.030
105A110GLY0-0.024-0.0042.761-4.383-2.5950.440-0.616-1.611-0.011
106A111ALA00.0180.0185.229-0.648-0.6480.0000.0000.0000.000
107A112ASP-1-0.837-0.9217.3291.9471.9470.0000.0000.0000.000
108A113LEU00.0620.0129.092-0.397-0.3970.0000.0000.0000.000
109A114ASN00.0280.02711.721-0.276-0.2760.0000.0000.0000.000
110A115ASN0-0.005-0.0138.6180.1130.1130.0000.0000.0000.000
111A116ILE00.0470.03611.690-0.117-0.1170.0000.0000.0000.000
112A117VAL0-0.021-0.01714.824-0.105-0.1050.0000.0000.0000.000
113A118LYS10.8120.91911.957-0.295-0.2950.0000.0000.0000.000
114A119CYS0-0.092-0.03215.467-0.099-0.0990.0000.0000.0000.000
115A120GLN0-0.036-0.02417.3750.0110.0110.0000.0000.0000.000
116A121LYS10.9460.98020.235-0.347-0.3470.0000.0000.0000.000
117A122LEU0-0.049-0.00718.016-0.008-0.0080.0000.0000.0000.000
118A123THR00.0230.00922.233-0.026-0.0260.0000.0000.0000.000
119A124ASP-1-0.744-0.88923.2490.4680.4680.0000.0000.0000.000
120A125ASP-1-0.898-0.94222.8840.4730.4730.0000.0000.0000.000
121A126HIS00.0370.01317.3240.1070.1070.0000.0000.0000.000
122A127VAL0-0.007-0.00918.6730.0820.0820.0000.0000.0000.000
123A128GLN00.0060.00818.0020.0570.0570.0000.0000.0000.000
124A129PHE00.0690.04017.2450.0090.0090.0000.0000.0000.000
125A130LEU0-0.002-0.00114.6870.0770.0770.0000.0000.0000.000
126A131ILE0-0.023-0.03413.4150.0580.0580.0000.0000.0000.000
127A132TYR0-0.038-0.02213.4620.0300.0300.0000.0000.0000.000
128A133GLN00.0340.00311.7100.1120.1120.0000.0000.0000.000
129A134ILE0-0.052-0.0208.2330.0360.0360.0000.0000.0000.000
130A135LEU0-0.005-0.0088.758-0.034-0.0340.0000.0000.0000.000
131A136ARG10.8120.89810.892-0.811-0.8110.0000.0000.0000.000
132A137GLY00.0290.0087.138-0.057-0.0570.0000.0000.0000.000
133A138LEU0-0.047-0.0335.423-0.183-0.1830.0000.0000.0000.000
134A139LYS10.8680.9207.543-0.469-0.4690.0000.0000.0000.000
135A140TYR00.0430.0385.723-0.049-0.0490.0000.0000.0000.000
136A141ILE00.0120.0022.406-1.421-0.3810.981-0.303-1.719-0.003
137A142HIS0-0.102-0.0805.7480.0130.0130.0000.0000.0000.000
138A143SER0-0.081-0.0288.376-0.023-0.0230.0000.0000.0000.000
139A144ALA00.0360.0217.169-0.038-0.0380.0000.0000.0000.000
140A145ASP-1-0.973-0.9899.2850.2870.2870.0000.0000.0000.000
141A146ILE0-0.077-0.0163.245-0.3410.2170.077-0.103-0.5330.000
142A147ILE0-0.048-0.0365.968-0.154-0.1540.0000.0000.0000.000
143A148HIS0-0.038-0.0332.575-1.5960.0541.288-0.624-2.3140.000
144A149ARG10.9020.9434.159-1.482-1.3550.0000.003-0.1300.000
145A150ASP-1-0.784-0.8545.9240.2370.2370.0000.0000.0000.000
146A151LEU00.0530.0405.533-0.068-0.0680.0000.0000.0000.000
147A152LYS10.8920.9267.756-0.054-0.0540.0000.0000.0000.000
148A153PRO00.0320.0219.3560.2230.2230.0000.0000.0000.000
149A154SER00.026-0.0027.9350.3110.3110.0000.0000.0000.000
150A155ASN0-0.073-0.0305.378-0.785-0.7850.0000.0000.0000.000
151A156LEU0-0.0040.0025.9370.8210.8210.0000.0000.0000.000
152A157ALA00.0260.0145.813-0.201-0.2010.0000.0000.0000.000
153A158VAL00.012-0.0027.827-0.367-0.3670.0000.0000.0000.000
154A159ASN0-0.082-0.0389.0380.0370.0370.0000.0000.0000.000
155A160GLU-1-0.950-1.00610.3620.9240.9240.0000.0000.0000.000
156A161ASP-1-0.901-0.92913.0290.9040.9040.0000.0000.0000.000
157A162CYS0-0.117-0.05514.152-0.131-0.1310.0000.0000.0000.000
158A163GLU-1-0.863-0.91311.8971.4461.4460.0000.0000.0000.000
159A164LEU0-0.037-0.0278.4630.3270.3270.0000.0000.0000.000
160A165LYS10.8800.9366.518-2.343-2.3430.0000.0000.0000.000
161A166ILE0-0.025-0.0122.655-0.2160.2970.661-0.168-1.0060.000
162A167LEU0-0.0050.0082.466-5.219-0.6873.031-2.066-5.4970.010
163A168ASP-1-0.843-0.9431.902-10.886-7.94012.078-5.132-9.8910.025
164A169PHE0-0.020-0.0242.168-24.035-15.4708.201-4.497-12.269-0.039
165A170GLY0-0.017-0.0053.938-0.457-0.0850.004-0.049-0.3280.000
166A171LEU0-0.010-0.0042.413-5.334-2.7484.296-1.418-5.4650.015
167A172ALA0-0.0260.0064.970-0.132-0.007-0.001-0.005-0.1200.000
168A173ARG10.7710.8415.987-0.075-0.0750.0000.0000.0000.000
169A174HIS0-0.021-0.0108.9900.1140.1140.0000.0000.0000.000
170A175THR00.031-0.0118.8740.0270.0270.0000.0000.0000.000
171A176ASP-1-0.821-0.9237.121-1.105-1.1050.0000.0000.0000.000
172A177ASP-1-0.822-0.88410.3590.0770.0770.0000.0000.0000.000
173A178GLU-1-0.807-0.88613.979-0.508-0.5080.0000.0000.0000.000
174A179MET0-0.053-0.0119.712-0.036-0.0360.0000.0000.0000.000
175A180THR0-0.008-0.01614.4980.1100.1100.0000.0000.0000.000
176A181GLY0-0.048-0.00617.1270.0540.0540.0000.0000.0000.000
177A182TYR0-0.098-0.0549.8840.0150.0150.0000.0000.0000.000
178A183VAL00.002-0.01113.8100.1070.1070.0000.0000.0000.000
179A184ALA00.0060.02714.311-0.078-0.0780.0000.0000.0000.000
180A185THR0-0.001-0.03211.5760.1110.1110.0000.0000.0000.000
181A186ARG10.7810.85013.9070.2240.2240.0000.0000.0000.000
182A187TRP0-0.004-0.01216.5490.0380.0380.0000.0000.0000.000
183A188TYR0-0.039-0.06412.8150.0170.0170.0000.0000.0000.000
184A189ARG10.8110.9189.725-0.407-0.4070.0000.0000.0000.000
185A190ALA00.0350.02313.942-0.044-0.0440.0000.0000.0000.000
186A191PRO00.0070.01015.904-0.028-0.0280.0000.0000.0000.000
187A192GLU-1-0.736-0.87616.4050.3210.3210.0000.0000.0000.000
188A193ILE0-0.006-0.00812.197-0.021-0.0210.0000.0000.0000.000
189A194MET0-0.063-0.00916.564-0.063-0.0630.0000.0000.0000.000
190A195LEU0-0.062-0.03519.441-0.037-0.0370.0000.0000.0000.000
191A196ASN0-0.067-0.03118.902-0.003-0.0030.0000.0000.0000.000
192A197TRP0-0.0020.00418.092-0.024-0.0240.0000.0000.0000.000
193A198MET0-0.047-0.01617.7640.0120.0120.0000.0000.0000.000
194A199HIS00.0040.00816.5790.0410.0410.0000.0000.0000.000
195A200TYR00.0430.00410.8260.0650.0650.0000.0000.0000.000
196A201ASN00.0590.03913.6550.0700.0700.0000.0000.0000.000
197A202GLN00.1240.0399.4930.0410.0410.0000.0000.0000.000
198A203THR0-0.021-0.00410.5950.0740.0740.0000.0000.0000.000
199A204VAL0-0.028-0.0139.948-0.029-0.0290.0000.0000.0000.000
200A205ASP-1-0.715-0.8356.8461.2821.2820.0000.0000.0000.000
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