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: P5MZP

Calculation Name: 3FC1-X-Xray12

Preferred Name: MAP kinase p38 alpha

Target Type: SINGLE PROTEIN

Ligand Name: 5-(2,6-dichlorophenyl)-2-[(2,4-difluorophenyl)sulfanyl]-6h-pyrimido[1,6-b]pyridazin-6-one

ligand 3-letter code: 52P

PDB ID: 3FC1

Chain ID: X

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 348
LigandResidueName 52P
LigandFragmentNumber 348
LigandCharge CL1=-1
Software MIZUHO/ABINIT-MP 4.0(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -5765086.450958
FMO2-HF: Nuclear repulsion 5623193.096937
FMO2-HF: Total energy -141893.354022
FMO2-MP2: Total energy -142302.89973


3D Structure
Snapshot
 
Ligand structure

52P

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.
-89.889-79.269102.471-30.457-82.634-0.083


Interactive mode: IFIE and PIEDA for fragment #348(X:362:52P)


Summations of interaction energy for fragment #348(X:362:52P)
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.
-89.889-79.269102.471-30.457-82.6340.083
Interaction energy analysis for fragmet #348(X:362:52P)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.086 / q_NPA : 0.092
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].
1X6PRO10.8590.90715.2210.0990.0990.0000.0000.0000.000
2X7THR00.0860.05818.288-0.070-0.0700.0000.0000.0000.000
3X8PHE00.0110.01313.0160.0350.0350.0000.0000.0000.000
4X9TYR0-0.040-0.02814.1960.0050.0050.0000.0000.0000.000
5X10ARG10.9380.96516.0530.1150.1150.0000.0000.0000.000
6X11GLN00.0280.00814.7950.0820.0820.0000.0000.0000.000
7X12GLU-1-0.845-0.93315.713-0.129-0.1290.0000.0000.0000.000
8X13LEU0-0.027-0.00411.5130.1050.1050.0000.0000.0000.000
9X14ASN0-0.0030.01914.437-0.107-0.1070.0000.0000.0000.000
10X15LYS10.8470.89715.7290.1920.1920.0000.0000.0000.000
11X16THR00.0150.00311.918-0.127-0.1270.0000.0000.0000.000
12X17ILE0-0.026-0.00114.7760.0860.0860.0000.0000.0000.000
13X18TRP0-0.033-0.0076.533-0.079-0.0790.0000.0000.0000.000
14X19GLU-1-0.892-0.96212.817-0.125-0.1250.0000.0000.0000.000
15X20VAL00.0060.0089.509-0.140-0.1400.0000.0000.0000.000
16X21PRO0-0.024-0.01110.9830.1000.1000.0000.0000.0000.000
17X22GLU-1-0.867-0.94913.3400.3020.3020.0000.0000.0000.000
18X23ARG10.8110.90011.098-0.190-0.1900.0000.0000.0000.000
19X24TYR0-0.054-0.0478.5670.1540.1540.0000.0000.0000.000
20X25GLN00.0100.00811.929-0.103-0.1030.0000.0000.0000.000
21X26ASN0-0.029-0.02712.7170.1320.1320.0000.0000.0000.000
22X27LEU0-0.0040.0119.2110.3040.3040.0000.0000.0000.000
23X28SER0-0.109-0.0478.455-0.374-0.3740.0000.0000.0000.000
24X29PRO00.0050.0387.8680.5100.5100.0000.0000.0000.000
25X30VAL00.014-0.0028.533-0.081-0.0810.0000.0000.0000.000
26X31GLY00.027-0.00510.4030.0180.0180.0000.0000.0000.000
27X32SER0-0.043-0.01210.922-0.266-0.2660.0000.0000.0000.000
28X33GLY00.0280.0097.6490.0620.0620.0000.0000.0000.000
29X34ALA00.0040.0066.028-0.701-0.7010.0000.0000.0000.000
30X35TYR00.0680.0127.2240.6300.6300.0000.0000.0000.000
31X36GLY00.0800.0195.487-0.415-0.4150.0000.0000.0000.000
32X37SER00.010-0.0192.214-3.419-2.1987.272-3.054-5.4390.016
33X38VAL0-0.001-0.0282.159-5.853-13.66530.630-8.335-14.4830.007
34X39CYS0-0.105-0.0453.3873.055-1.9300.1686.251-1.433-0.003
35X40ALA0-0.0440.0044.672-0.845-0.5500.000-0.028-0.2670.000
36X41ALA00.0860.0436.044-1.076-1.006-0.001-0.002-0.0670.000
37X42PHE0-0.0060.0019.0710.6640.6640.0000.0000.0000.000
38X43ASP-1-0.704-0.8049.7400.3040.3040.0000.0000.0000.000
39X44THR0-0.052-0.03511.7020.0850.0850.0000.0000.0000.000
40X45LYS10.8920.95513.835-0.307-0.3070.0000.0000.0000.000
41X46THR0-0.013-0.04911.6120.0850.0850.0000.0000.0000.000
42X47GLY0-0.0010.01514.4110.0430.0430.0000.0000.0000.000
43X48LEU00.0040.0119.5310.3400.3400.0000.0000.0000.000
44X49ARG10.9670.9817.453-5.758-5.7580.0000.0000.0000.000
45X50VAL00.006-0.0095.6540.8420.8420.0000.0000.0000.000
46X51ALA00.0150.0202.412-2.3740.7602.015-1.616-3.5330.012
47X52VAL00.002-0.0052.487-9.275-6.5661.456-1.549-2.615-0.014
48X53LYS10.8040.8902.4072.7986.4444.840-2.346-6.1390.013
49X54LYS10.8970.9643.835-0.761-0.3350.018-0.105-0.3400.001
50X55LEU0-0.016-0.0087.3610.0920.0920.0000.0000.0000.000
51X56SER00.0440.0039.8670.1700.1700.0000.0000.0000.000
52X57ARG10.8350.90612.9250.8230.8230.0000.0000.0000.000
53X58PRO00.0290.03312.792-0.024-0.0240.0000.0000.0000.000
54X59PHE00.040-0.00214.289-0.037-0.0370.0000.0000.0000.000
55X60GLN0-0.0150.01217.9700.0250.0250.0000.0000.0000.000
56X61SER00.022-0.03619.4000.0580.0580.0000.0000.0000.000
57X62ILE00.0790.02619.735-0.055-0.0550.0000.0000.0000.000
58X63ILE00.0040.01117.436-0.061-0.0610.0000.0000.0000.000
59X64HIS00.0200.03815.182-0.061-0.0610.0000.0000.0000.000
60X65ALA00.0300.01914.890-0.134-0.1340.0000.0000.0000.000
61X66LYS10.8430.93015.4220.8510.8510.0000.0000.0000.000
62X67ARG10.8240.8989.6022.1312.1310.0000.0000.0000.000
63X68THR0-0.005-0.00610.554-0.328-0.3280.0000.0000.0000.000
64X69TYR00.0310.02510.310-0.217-0.2170.0000.0000.0000.000
65X70ARG10.8010.85611.1531.4791.4790.0000.0000.0000.000
66X71GLU-1-0.861-0.9104.795-5.620-5.408-0.001-0.008-0.2030.000
67X72LEU0-0.017-0.0116.780-0.571-0.5710.0000.0000.0000.000
68X73ARG10.8780.9318.2281.1551.1550.0000.0000.0000.000
69X74LEU0-0.0110.0037.9180.1200.1200.0000.0000.0000.000
70X75LEU0-0.005-0.0112.467-1.524-0.4900.897-0.380-1.551-0.003
71X76LYS10.7980.8995.8411.5331.5330.0000.0000.0000.000
72X77HIS0-0.048-0.0188.9020.2530.2530.0000.0000.0000.000
73X78MET0-0.076-0.0157.4980.3830.3830.0000.0000.0000.000
74X79LYS10.9510.9728.9410.5590.5590.0000.0000.0000.000
75X80HIS00.0890.04310.9120.1800.1800.0000.0000.0000.000
76X81GLU-1-0.835-0.91711.0410.9460.9460.0000.0000.0000.000
77X82ASN0-0.0070.00210.4020.2860.2860.0000.0000.0000.000
78X83VAL0-0.044-0.0227.871-0.204-0.2040.0000.0000.0000.000
79X84ILE0-0.045-0.0122.677-1.990-0.0930.644-0.496-2.0450.000
80X85GLY00.0820.0485.570-0.738-0.7380.0000.0000.0000.000
81X86LEU0-0.056-0.0222.591-1.951-0.8710.623-0.548-1.1550.005
82X87LEU0-0.018-0.0084.6320.2540.429-0.001-0.006-0.1680.000
83X88ASP-1-0.857-0.9275.360-0.294-0.2940.0000.0000.0000.000
84X89VAL0-0.0140.0115.214-0.479-0.454-0.001-0.005-0.0190.000
85X90PHE0-0.017-0.0017.3260.2680.2680.0000.0000.0000.000
86X91THR0-0.002-0.03010.251-0.107-0.1070.0000.0000.0000.000
87X92PRO0-0.004-0.00112.9790.0590.0590.0000.0000.0000.000
88X93ALA0-0.0330.00715.7440.0610.0610.0000.0000.0000.000
89X94ARG10.9400.95918.0300.1770.1770.0000.0000.0000.000
90X95SER00.0060.00820.8280.0130.0130.0000.0000.0000.000
91X96LEU00.0700.03419.779-0.041-0.0410.0000.0000.0000.000
92X97GLU-1-0.942-0.98921.133-0.415-0.4150.0000.0000.0000.000
93X98GLU-1-0.906-0.95320.572-0.329-0.3290.0000.0000.0000.000
94X99PHE0-0.075-0.01913.226-0.032-0.0320.0000.0000.0000.000
95X100ASN0-0.037-0.02616.8540.0310.0310.0000.0000.0000.000
96X101ASP-1-0.891-0.93512.455-0.696-0.6960.0000.0000.0000.000
97X102VAL00.0250.0048.0780.0410.0410.0000.0000.0000.000
98X103TYR00.0160.0126.9270.0100.0100.0000.0000.0000.000
99X104LEU00.0190.0062.572-2.2370.0051.041-1.112-2.1710.009
100X105VAL00.0030.0082.400-6.510-4.5792.734-1.579-3.087-0.014
101X106THR0-0.002-0.0132.350-3.0840.8684.410-2.067-6.2960.007
102X107HIS00.0920.0264.018-0.1050.4840.008-0.064-0.5330.000
103X108LEU0-0.081-0.0342.648-4.328-4.1208.264-2.682-5.791-0.005
104X109MET0-0.013-0.0131.962-8.633-12.63511.793-2.597-5.1940.031
105X110GLY00.010-0.0091.681-10.181-21.27718.582-3.923-3.5620.034
106X111ALA0-0.020-0.0082.966-11.881-9.3201.183-0.825-2.9200.002
107X112ASP-1-0.847-0.9072.477-7.433-4.1052.405-1.303-4.431-0.018
108X113LEU00.0490.0173.6450.5340.6760.0430.083-0.2680.000
109X114ASN00.0180.0056.1970.5620.5620.0000.0000.0000.000
110X115ASN0-0.192-0.0933.413-2.589-1.8520.021-0.200-0.558-0.002
111X116ILE00.0810.0366.9020.5710.5710.0000.0000.0000.000
112X117VAL00.0290.0129.5860.0690.0690.0000.0000.0000.000
113X118LYS10.9100.9668.8310.4550.4550.0000.0000.0000.000
114X119CYS0-0.081-0.0409.324-0.112-0.1120.0000.0000.0000.000
115X120GLN00.0200.02212.6580.2850.2850.0000.0000.0000.000
116X121LYS10.9710.98615.325-0.369-0.3690.0000.0000.0000.000
117X122LEU00.0080.00713.8480.0850.0850.0000.0000.0000.000
118X123THR0-0.022-0.01017.993-0.114-0.1140.0000.0000.0000.000
119X124ASP-1-0.776-0.91420.0600.3350.3350.0000.0000.0000.000
120X125ASP-1-0.832-0.90721.6170.7710.7710.0000.0000.0000.000
121X126HIS00.0790.03416.397-0.055-0.0550.0000.0000.0000.000
122X127VAL00.0020.00116.6400.0830.0830.0000.0000.0000.000
123X128GLN0-0.0200.00017.6080.0080.0080.0000.0000.0000.000
124X129PHE00.0750.04414.204-0.120-0.1200.0000.0000.0000.000
125X130LEU0-0.0060.00411.3340.0370.0370.0000.0000.0000.000
126X131ILE0-0.024-0.02713.861-0.083-0.0830.0000.0000.0000.000
127X132TYR0-0.037-0.02316.172-0.084-0.0840.0000.0000.0000.000
128X133GLN00.024-0.00612.6550.1740.1740.0000.0000.0000.000
129X134ILE0-0.029-0.00311.493-0.151-0.1510.0000.0000.0000.000
130X135LEU00.002-0.00513.852-0.242-0.2420.0000.0000.0000.000
131X136ARG10.8090.90915.783-0.827-0.8270.0000.0000.0000.000
132X137GLY00.0410.01313.771-0.079-0.0790.0000.0000.0000.000
133X138LEU0-0.044-0.03114.386-0.251-0.2510.0000.0000.0000.000
134X139LYS10.8840.94516.129-0.069-0.0690.0000.0000.0000.000
135X140TYR00.0150.02512.128-0.126-0.1260.0000.0000.0000.000
136X141ILE00.0190.01411.044-0.105-0.1050.0000.0000.0000.000
137X142HIS0-0.118-0.08214.4230.0370.0370.0000.0000.0000.000
138X143SER0-0.058-0.02717.5440.0320.0320.0000.0000.0000.000
139X144ALA0-0.0020.00715.2730.0320.0320.0000.0000.0000.000
140X145ASP-1-0.934-0.97617.184-0.671-0.6710.0000.0000.0000.000
141X146ILE0-0.0410.00211.991-0.091-0.0910.0000.0000.0000.000
142X147ILE0-0.035-0.03315.5500.1050.1050.0000.0000.0000.000
143X148HIS0-0.044-0.0378.6560.1830.1830.0000.0000.0000.000
144X149ARG10.8900.92512.5771.0991.0990.0000.0000.0000.000
145X150ASP-1-0.923-0.97311.685-1.929-1.9290.0000.0000.0000.000
146X151LEU00.0370.03310.696-0.212-0.2120.0000.0000.0000.000
147X152LYS10.9440.9719.6242.3472.3470.0000.0000.0000.000
148X153PRO00.0700.0318.633-0.082-0.0820.0000.0000.0000.000
149X154SER00.000-0.0105.1970.3720.3720.0000.0000.0000.000
150X155ASN0-0.143-0.0504.219-1.796-1.2840.018-0.104-0.425-0.001
151X156LEU00.011-0.0015.146-0.0370.050-0.001-0.015-0.0710.000
152X157ALA0-0.0090.0033.126-2.945-0.8400.988-0.787-2.3050.005
153X158VAL0-0.024-0.0254.108-1.284-1.2610.0300.225-0.2780.000
154X159ASN00.0090.0105.4321.8852.137-0.001-0.010-0.2420.000
155X160GLU-1-0.931-0.9897.0165.4515.4510.0000.0000.0000.000
156X161ASP-1-0.944-0.94710.3832.4002.4000.0000.0000.0000.000
157X162CYS0-0.083-0.06010.954-0.668-0.6680.0000.0000.0000.000
158X163GLU-1-0.876-0.9139.8142.9552.9550.0000.0000.0000.000
159X164LEU0-0.016-0.0148.2961.1931.1930.0000.0000.0000.000
160X165LYS10.8680.9335.639-3.246-3.2460.0000.0000.0000.000
161X166ILE00.0020.0076.8150.0360.0360.0000.0000.0000.000
162X167LEU0-0.026-0.0272.883-4.745-1.6622.388-1.117-4.3540.001
163X168ASP-1-0.834-0.9304.138-5.447-4.7490.007-0.143-0.5610.000
164X169PHE00.0660.0555.2650.6660.807-0.001-0.010-0.1300.000
165X170GLY0-0.043-0.0237.5050.6070.6070.0000.0000.0000.000
166X171LEU00.0120.0308.241-0.207-0.2070.0000.0000.0000.000
167X172ALA00.001-0.0149.3730.2540.2540.0000.0000.0000.000
168X173ARG10.7510.87810.4691.2931.2930.0000.0000.0000.000
169X174HIS00.0330.01613.1270.0550.0550.0000.0000.0000.000
170X175THR00.005-0.03216.7690.0070.0070.0000.0000.0000.000
171X176ASP-1-0.874-0.90318.145-0.709-0.7090.0000.0000.0000.000
172X177ASP-1-0.757-0.86116.169-1.072-1.0720.0000.0000.0000.000
173X178GLU-1-0.873-0.92613.207-1.724-1.7240.0000.0000.0000.000
174X179MET00.0000.00816.400-0.032-0.0320.0000.0000.0000.000
175X180THR0-0.055-0.04319.7960.0770.0770.0000.0000.0000.000
176X181GLY00.0170.00821.020-0.022-0.0220.0000.0000.0000.000
177X182TYR0-0.014-0.00219.360-0.022-0.0220.0000.0000.0000.000
178X183VAL0-0.0140.00516.539-0.034-0.0340.0000.0000.0000.000
179X184ALA00.0670.01412.6610.0180.0180.0000.0000.0000.000
180X185THR0-0.124-0.07213.252-0.021-0.0210.0000.0000.0000.000
181X186ARG10.8390.90014.7330.7080.7080.0000.0000.0000.000
182X187TRP0-0.0310.00715.3600.0420.0420.0000.0000.0000.000
183X188TYR0-0.040-0.05013.3210.0080.0080.0000.0000.0000.000
184X189ARG10.9310.97916.2691.1571.1570.0000.0000.0000.000
185X190ALA00.0360.02018.9140.0710.0710.0000.0000.0000.000
186X191PRO00.0270.00821.963-0.038-0.0380.0000.0000.0000.000
187X192GLU-1-0.760-0.88524.515-0.525-0.5250.0000.0000.0000.000
188X193ILE0-0.013-0.00118.976-0.007-0.0070.0000.0000.0000.000
189X194MET0-0.044-0.00422.418-0.032-0.0320.0000.0000.0000.000
190X195LEU0-0.027-0.02023.5000.0100.0100.0000.0000.0000.000
191X196ASN0-0.038-0.01124.4420.0010.0010.0000.0000.0000.000
192X197TRP0-0.014-0.00726.7610.0390.0390.0000.0000.0000.000
193X198MET0-0.007-0.01027.6600.0390.0390.0000.0000.0000.000
194X199HIS0-0.006-0.00425.754-0.064-0.0640.0000.0000.0000.000
195X200TYR00.0210.02619.2090.0010.0010.0000.0000.0000.000
196X201ASN00.0880.06122.900-0.050-0.0500.0000.0000.0000.000
197X202GLN00.0850.01519.6040.0220.0220.0000.0000.0000.000
198X203THR0-0.015-0.02219.800-0.015-0.0150.0000.0000.0000.000
199X204VAL0-0.037-0.02118.3120.0340.0340.0000.0000.0000.000
200X205ASP-1-0.717-0.83815.977-1.070-1.0700.0000.0000.0000.000
201X206ILE0-0.010-0.00117.3330.0400.0400.0000.0000.0000.000
202X207TRP0-0.0060.00219.8830.0850.0850.0000.0000.0000.000
203X208SER0-0.004-0.01115.0080.0190.0190.0000.0000.0000.000
204X209VAL00.0110.00715.2810.0270.0270.0000.0000.0000.000
205X210GLY00.0320.01416.6200.0870.0870.0000.0000.0000.000
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