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: PZ8NP

Calculation Name: 3MVL-B-Xray12

Preferred Name: MAP kinase p38 alpha

Target Type: SINGLE PROTEIN

Ligand Name: 4-{[5-(cyclopropylcarbamoyl)-2-methylphenyl]amino}-5-methyl-n-propylpyrrolo[2,1-f][1,2,4]triazine-6-carboxamide

ligand 3-letter code: 38P

PDB ID: 3MVL

Chain ID: B

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 38P
LigandFragmentNumber 347
LigandCharge
Software MIZUHO/ABINIT-MP 4.0(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -5750412.497718
FMO2-HF: Nuclear repulsion 5610134.415759
FMO2-HF: Total energy -140278.08196
FMO2-MP2: Total energy -140687.84187


3D Structure
Snapshot
 
Ligand structure

38P

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.
-83.501-63.776100.165-32.912-86.9780.007


Interactive mode: IFIE and PIEDA for fragment #347(B:361:38P)


Summations of interaction energy for fragment #347(B:361:38P)
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.
-83.501-63.776100.165-32.912-86.978-0.007
Interaction energy analysis for fragmet #347(B:361:38P)
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 : -0.003
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].
1B6PRO10.8140.89515.7010.5630.5630.0000.0000.0000.000
2B7THR00.0320.01918.6830.0240.0240.0000.0000.0000.000
3B8PHE0-0.017-0.00713.343-0.032-0.0320.0000.0000.0000.000
4B9TYR0-0.0120.01514.7350.0420.0420.0000.0000.0000.000
5B10ARG10.9920.99216.4540.0640.0640.0000.0000.0000.000
6B11GLN00.028-0.01015.263-0.034-0.0340.0000.0000.0000.000
7B12GLU-1-0.941-0.96616.5020.1400.1400.0000.0000.0000.000
8B13LEU0-0.0130.00312.418-0.015-0.0150.0000.0000.0000.000
9B14ASN0-0.027-0.02413.5790.0710.0710.0000.0000.0000.000
10B15LYS10.9740.99916.032-0.193-0.1930.0000.0000.0000.000
11B16THR0-0.021-0.01213.080-0.086-0.0860.0000.0000.0000.000
12B17ILE00.0240.00516.132-0.031-0.0310.0000.0000.0000.000
13B18TRP0-0.0010.0077.028-0.061-0.0610.0000.0000.0000.000
14B19GLU-1-0.888-0.97812.837-0.278-0.2780.0000.0000.0000.000
15B20VAL0-0.025-0.00110.053-0.095-0.0950.0000.0000.0000.000
16B21PRO0-0.017-0.00611.6550.0680.0680.0000.0000.0000.000
17B22GLU-1-0.805-0.89614.749-0.424-0.4240.0000.0000.0000.000
18B23ARG10.7720.85312.5861.0301.0300.0000.0000.0000.000
19B24TYR0-0.022-0.0449.5770.0000.0000.0000.0000.0000.000
20B25GLN00.0560.03212.7860.0630.0630.0000.0000.0000.000
21B26ASN0-0.048-0.04112.876-0.043-0.0430.0000.0000.0000.000
22B27LEU00.0360.0199.959-0.026-0.0260.0000.0000.0000.000
23B28SER0-0.022-0.0168.4620.0110.0110.0000.0000.0000.000
24B29PRO0-0.002-0.0098.701-0.026-0.0260.0000.0000.0000.000
25B30VAL0-0.0120.0023.441-1.019-0.1570.014-0.140-0.7360.000
26B31GLY00.0020.0075.679-0.467-0.4670.0000.0000.0000.000
27B32SER0-0.046-0.0275.7860.3370.3370.0000.0000.0000.000
28B33GLY00.0660.0451.8591.0820.2094.526-2.685-0.9690.014
29B34ALA0-0.032-0.0122.8310.059-1.986-0.0312.373-0.297-0.002
30B35TYR00.000-0.0145.226-0.463-0.278-0.001-0.002-0.1830.000
31B36GLY00.0620.0267.170-0.228-0.2280.0000.0000.0000.000
32B37SER0-0.048-0.0196.6930.6670.6670.0000.0000.0000.000
33B38VAL00.0440.0232.605-3.959-1.1342.195-1.234-3.7860.009
34B39CYS0-0.041-0.0305.445-0.862-0.8620.0000.0000.0000.000
35B40ALA00.0210.0325.456-0.181-0.1810.0000.0000.0000.000
36B41ALA0-0.012-0.0037.3950.0350.0350.0000.0000.0000.000
37B42PHE0-0.014-0.0039.326-0.037-0.0370.0000.0000.0000.000
38B43ASP-1-0.723-0.83111.017-0.913-0.9130.0000.0000.0000.000
39B44THR0-0.0290.00512.9150.0400.0400.0000.0000.0000.000
40B45LYS10.9340.96415.1400.7200.7200.0000.0000.0000.000
41B46THR0-0.027-0.01812.9400.0370.0370.0000.0000.0000.000
42B47GLY0-0.0050.00514.8460.0530.0530.0000.0000.0000.000
43B48LEU00.0420.0239.5260.0450.0450.0000.0000.0000.000
44B49ARG10.9130.9535.6880.7080.7080.0000.0000.0000.000
45B50VAL00.0020.0106.0840.1510.1510.0000.0000.0000.000
46B51ALA0-0.004-0.0042.608-0.8530.4350.722-0.554-1.4550.002
47B52VAL0-0.018-0.0132.988-3.273-1.8190.268-0.703-1.019-0.007
48B53LYS10.8620.9292.183-14.821-10.8785.703-2.459-7.1860.023
49B54LYS10.8570.9473.914-1.348-1.1610.004-0.003-0.1870.000
50B55LEU00.0270.0114.5550.6740.814-0.001-0.005-0.1340.000
51B56SER0-0.016-0.0328.023-0.156-0.1560.0000.0000.0000.000
52B57ARG10.8770.94211.551-0.396-0.3960.0000.0000.0000.000
53B58PRO00.0820.04810.7270.0600.0600.0000.0000.0000.000
54B59PHE00.0630.04512.738-0.036-0.0360.0000.0000.0000.000
55B60GLN00.0140.01316.226-0.012-0.0120.0000.0000.0000.000
56B61SER00.009-0.00315.5990.0240.0240.0000.0000.0000.000
57B62ILE00.1000.04915.857-0.039-0.0390.0000.0000.0000.000
58B63ILE00.0280.01513.272-0.057-0.0570.0000.0000.0000.000
59B64HIS0-0.149-0.08111.7160.2330.2330.0000.0000.0000.000
60B65ALA00.0550.03511.142-0.125-0.1250.0000.0000.0000.000
61B66LYS10.8810.97212.192-0.029-0.0290.0000.0000.0000.000
62B67ARG10.8600.9327.594-1.053-1.0530.0000.0000.0000.000
63B68THR0-0.026-0.0346.889-0.200-0.2000.0000.0000.0000.000
64B69TYR00.0420.0277.590-0.601-0.6010.0000.0000.0000.000
65B70ARG10.7560.8675.717-0.251-0.2510.0000.0000.0000.000
66B71GLU-1-0.827-0.9172.396-8.954-5.3653.590-2.236-4.943-0.024
67B72LEU0-0.003-0.0073.121-3.436-2.0870.100-0.683-0.766-0.008
68B73ARG10.9250.9745.9021.4501.4500.0000.0000.0000.000
69B74LEU0-0.0240.0072.241-0.238-0.2963.024-0.716-2.2500.000
70B75LEU0-0.0080.0061.619-0.837-4.20714.316-2.972-7.9740.005
71B76LYS10.8200.9184.5302.1502.2650.001-0.025-0.0910.000
72B77HIS0-0.067-0.0156.9320.3520.3520.0000.0000.0000.000
73B78MET0-0.068-0.0574.8890.4150.4150.0000.0000.0000.000
74B79LYS10.9530.9967.1691.0011.0010.0000.0000.0000.000
75B80HIS00.047-0.0109.5120.1880.1880.0000.0000.0000.000
76B81GLU-1-0.862-0.92710.051-0.021-0.0210.0000.0000.0000.000
77B82ASN00.0030.03010.559-0.047-0.0470.0000.0000.0000.000
78B83VAL0-0.0170.0045.2730.5610.5610.0000.0000.0000.000
79B84ILE0-0.064-0.0152.160-2.521-0.9803.137-0.929-3.7490.003
80B85GLY00.0540.0294.665-0.932-0.660-0.001-0.012-0.2590.000
81B86LEU0-0.070-0.0384.576-0.803-0.5100.000-0.017-0.2760.000
82B87LEU0-0.0090.0106.6890.4330.4330.0000.0000.0000.000
83B88ASP-1-0.827-0.9277.351-1.079-1.0790.0000.0000.0000.000
84B89VAL0-0.0080.0086.791-0.639-0.6390.0000.0000.0000.000
85B90PHE0-0.0080.0138.3970.3550.3550.0000.0000.0000.000
86B91THR0-0.016-0.06410.368-0.038-0.0380.0000.0000.0000.000
87B92PRO0-0.0090.01013.1010.0070.0070.0000.0000.0000.000
88B93ALA0-0.0540.00116.2120.0450.0450.0000.0000.0000.000
89B94ARG10.9260.94617.9730.2880.2880.0000.0000.0000.000
90B95SER00.0060.01220.8080.0080.0080.0000.0000.0000.000
91B96LEU00.0840.04219.188-0.020-0.0200.0000.0000.0000.000
92B97GLU-1-0.962-0.99920.235-0.281-0.2810.0000.0000.0000.000
93B98GLU-1-0.926-0.94820.349-0.297-0.2970.0000.0000.0000.000
94B99PHE0-0.051-0.01712.2210.0080.0080.0000.0000.0000.000
95B100ASN0-0.009-0.02915.8530.0580.0580.0000.0000.0000.000
96B101ASP-1-0.863-0.91212.809-0.124-0.1240.0000.0000.0000.000
97B102VAL0-0.005-0.0037.991-0.086-0.0860.0000.0000.0000.000
98B103TYR0-0.026-0.0256.9090.3000.3000.0000.0000.0000.000
99B104LEU00.0040.0102.397-2.146-0.8091.446-0.563-2.219-0.002
100B105VAL0-0.0080.0073.216-1.306-0.0900.082-0.560-0.738-0.005
101B106THR00.0150.0001.652-0.018-3.98513.590-3.278-6.345-0.007
102B107HIS00.1030.0463.7050.4430.9470.0000.036-0.5400.000
103B108LEU0-0.065-0.0302.158-5.637-3.4425.316-2.192-5.3190.000
104B109MET0-0.0140.0152.359-6.587-4.2292.291-1.643-3.0050.022
105B110GLY00.0660.0322.286-4.809-3.7953.464-1.549-2.929-0.021
106B111ALA0-0.054-0.0312.011-3.832-2.9512.943-1.934-1.891-0.005
107B112ASP-1-0.824-0.9082.1201.0150.7134.146-0.327-3.516-0.014
108B113LEU00.0730.0183.361-0.261-0.3540.0510.303-0.2610.000
109B114ASN00.0180.0046.1880.1100.1100.0000.0000.0000.000
110B115ASN0-0.125-0.0683.5610.2520.4220.002-0.024-0.1490.000
111B116ILE00.006-0.0016.801-0.118-0.1180.0000.0000.0000.000
112B117VAL0-0.0040.0169.805-0.001-0.0010.0000.0000.0000.000
113B118LYS10.9731.00111.151-0.225-0.2250.0000.0000.0000.000
114B119CYS0-0.159-0.08710.171-0.030-0.0300.0000.0000.0000.000
115B120GLN0-0.013-0.02612.782-0.066-0.0660.0000.0000.0000.000
116B121LYS10.9580.98915.245-0.217-0.2170.0000.0000.0000.000
117B122LEU00.0370.03313.660-0.027-0.0270.0000.0000.0000.000
118B123THR0-0.080-0.04518.056-0.001-0.0010.0000.0000.0000.000
119B124ASP-1-0.785-0.92120.1420.3050.3050.0000.0000.0000.000
120B125ASP-1-0.784-0.86321.7200.2610.2610.0000.0000.0000.000
121B126HIS00.0270.01716.3890.0280.0280.0000.0000.0000.000
122B127VAL0-0.040-0.02216.7020.0660.0660.0000.0000.0000.000
123B128GLN00.004-0.00718.1180.0490.0490.0000.0000.0000.000
124B129PHE00.0380.03314.8170.0420.0420.0000.0000.0000.000
125B130LEU0-0.002-0.01211.7070.0590.0590.0000.0000.0000.000
126B131ILE00.0200.00014.8230.1070.1070.0000.0000.0000.000
127B132TYR00.0180.02916.9050.0870.0870.0000.0000.0000.000
128B133GLN00.0680.03312.8200.0280.0280.0000.0000.0000.000
129B134ILE0-0.049-0.02212.4850.1680.1680.0000.0000.0000.000
130B135LEU0-0.064-0.05512.832-0.005-0.0050.0000.0000.0000.000
131B136ARG10.8130.90514.422-0.256-0.2560.0000.0000.0000.000
132B137GLY0-0.021-0.00110.437-0.118-0.1180.0000.0000.0000.000
133B138LEU0-0.018-0.0449.701-0.147-0.1470.0000.0000.0000.000
134B139LYS10.9470.99911.619-0.203-0.2030.0000.0000.0000.000
135B140TYR00.0540.0368.187-0.168-0.1680.0000.0000.0000.000
136B141ILE00.0100.0145.686-0.147-0.1470.0000.0000.0000.000
137B142HIS0-0.105-0.0769.062-0.160-0.1600.0000.0000.0000.000
138B143SER0-0.080-0.06012.081-0.048-0.0480.0000.0000.0000.000
139B144ALA0-0.0100.0059.811-0.018-0.0180.0000.0000.0000.000
140B145ASP-1-0.908-0.94011.085-0.217-0.2170.0000.0000.0000.000
141B146ILE0-0.058-0.0235.490-0.055-0.0550.0000.0000.0000.000
142B147ILE00.004-0.0038.8380.1550.1550.0000.0000.0000.000
143B148HIS0-0.053-0.0296.146-1.157-1.1570.0000.0000.0000.000
144B149ARG10.8850.9387.187-0.521-0.5210.0000.0000.0000.000
145B150ASP-1-0.892-0.9208.9722.5832.5830.0000.0000.0000.000
146B151LEU00.0180.0339.1750.7240.7240.0000.0000.0000.000
147B152LYS10.8650.9008.825-3.956-3.9560.0000.0000.0000.000
148B153PRO00.0480.0099.4620.4440.4440.0000.0000.0000.000
149B154SER0-0.0090.0086.141-0.003-0.0030.0000.0000.0000.000
150B155ASN0-0.065-0.0305.511-0.147-0.1470.0000.0000.0000.000
151B156LEU00.0400.0287.0600.4730.4730.0000.0000.0000.000
152B157ALA00.0170.0063.232-1.777-0.6490.105-0.370-0.8630.002
153B158VAL0-0.031-0.0425.026-0.219-0.2190.0000.0000.0000.000
154B159ASN00.0200.0146.250-0.308-0.3080.0000.0000.0000.000
155B160GLU-1-0.898-0.9497.868-0.281-0.2810.0000.0000.0000.000
156B161ASP-1-0.950-0.98110.3330.3410.3410.0000.0000.0000.000
157B162CYS0-0.056-0.04410.9740.0170.0170.0000.0000.0000.000
158B163GLU-1-0.890-0.90610.8160.5030.5030.0000.0000.0000.000
159B164LEU0-0.020-0.0308.5340.3420.3420.0000.0000.0000.000
160B165LYS10.8870.9345.371-0.779-0.7790.0000.0000.0000.000
161B166ILE0-0.0060.0055.7290.6990.6990.0000.0000.0000.000
162B167LEU0-0.009-0.0062.284-6.387-2.3046.587-2.003-8.6680.005
163B168ASP-1-0.877-0.9611.7696.5021.77613.378-4.279-4.3730.037
164B169PHE00.012-0.0082.674-10.334-8.2683.1600.247-5.473-0.018
165B170GLY00.0670.0292.223-1.839-2.9945.061-1.410-2.496-0.018
166B171LEU00.0190.0182.453-2.184-0.8800.978-0.362-1.9200.002
167B172ALA0-0.009-0.0105.263-0.597-0.582-0.001-0.002-0.0130.000
168B173ARG10.8620.8987.999-0.615-0.6150.0000.0000.0000.000
169B174HIS0-0.057-0.01912.0600.0500.0500.0000.0000.0000.000
170B175THR00.0340.02115.0540.1640.1640.0000.0000.0000.000
171B176ASP-1-0.760-0.86317.0880.8600.8600.0000.0000.0000.000
172B177ASP-1-0.941-0.96219.8780.4890.4890.0000.0000.0000.000
173B178GLU-1-0.821-0.91718.6410.7480.7480.0000.0000.0000.000
174B179MET0-0.0090.00913.5750.0060.0060.0000.0000.0000.000
175B180THR00.0020.00018.6900.0730.0730.0000.0000.0000.000
176B181GLY0-0.044-0.00520.560-0.029-0.0290.0000.0000.0000.000
177B182TYR0-0.085-0.06317.684-0.052-0.0520.0000.0000.0000.000
178B183VAL0-0.047-0.00614.7140.0510.0510.0000.0000.0000.000
179B184ALA00.0470.01917.129-0.072-0.0720.0000.0000.0000.000
180B185THR0-0.053-0.00314.865-0.053-0.0530.0000.0000.0000.000
181B186ARG10.8310.89316.929-0.735-0.7350.0000.0000.0000.000
182B187TRP0-0.034-0.02714.9900.1440.1440.0000.0000.0000.000
183B188TYR00.026-0.00513.927-0.023-0.0230.0000.0000.0000.000
184B189ARG10.8180.89313.745-1.253-1.2530.0000.0000.0000.000
185B190ALA00.0410.00916.917-0.100-0.1000.0000.0000.0000.000
186B191PRO0-0.0050.00518.899-0.005-0.0050.0000.0000.0000.000
187B192GLU-1-0.799-0.89019.8170.5420.5420.0000.0000.0000.000
188B193ILE0-0.051-0.03514.236-0.024-0.0240.0000.0000.0000.000
189B194MET0-0.0140.03018.8380.0190.0190.0000.0000.0000.000
190B195LEU0-0.039-0.03820.964-0.039-0.0390.0000.0000.0000.000
191B196ASN00.0080.02221.808-0.014-0.0140.0000.0000.0000.000
192B197TRP00.026-0.00123.882-0.036-0.0360.0000.0000.0000.000
193B198MET0-0.0420.01924.449-0.040-0.0400.0000.0000.0000.000
194B199HIS00.0100.00521.4590.0110.0110.0000.0000.0000.000
195B200TYR0-0.0050.00214.6390.0450.0450.0000.0000.0000.000
196B201ASN00.0510.01617.783-0.008-0.0080.0000.0000.0000.000
197B202GLN00.0640.01513.2300.0560.0560.0000.0000.0000.000
198B203THR0-0.0120.00314.8530.1060.1060.0000.0000.0000.000
199B204VAL0-0.032-0.02113.5500.0280.0280.0000.0000.0000.000
200B205ASP-1-0.735-0.86311.0731.2851.2850.0000.0000.0000.000
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