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MAPK2_HUMAN_42_364

MAP kinase-activated protein kinase 2 [Protein kinase superfamily. CAMK Ser/Thr protein kinase family]

Composition of the binding site

Protein chains monomer [domain annotation]
A1 (MAPK2_HUMAN):D: Protein kinase (68:78, 80:82, 89:91, 93, 108, 118, 138:142, 144, 145, 190, 191, 193, 206, 207)
R: Staurosporine binding (139:141)
68:78, 80:82, 89:91, 93, 108, 118, 138:142, 144, 145, 190, 191, 193, 206, 207

Full PDB list

1kwp, 1nxk, 1ny3, 2jbo, 2jbp, 2oza, 2pzy, 3a2c, 3fpm, 3fyk, 3gok, 3ka0, 3kc3, 3kga, 3m2w, 3m42, 3r2b, 3r2y, 3r30, 3wi6, 4tyh (redundant Pocketome entry)

Pocket contact map

[download in TSV format]
   
PDB.ch
   
ligand
A1
L
7
0
G
7
1
L
7
2
G
7
3
I
7
4
N
7
5
G
7
6
V
7
8
Q
8
0
I
8
1
F
8
2
K
8
9
F
9
0
A
9
1
K
9
3
H
1
0
8
V
1
1
8
M
1
3
8
E
1
3
9
C
1
4
0
L
1
4
1
D
1
4
2
G
1
4
4
E
1
4
5
E
1
9
0
N
1
9
1
L
1
9
3
T
2
0
6
D
2
0
7
[1]1nxk.c stu35 . . . . . . . . . . . . . . . . . * . . . . . . . . . . .
[1]2pzy.a b1831 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]2pzy.c stu35 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]3gok.a p4o26 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]3kga.a lx932 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]3m2w.a l8i29 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]3m42.a hgf29 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]3r2b.a 05b30 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]3r2b.c none . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]3wi6.b yrz19 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[2]1ny3.a adp27 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[2]3fpm.a 79322 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[2]3fyk.x b9819 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[2]3kc3.a mk226 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[2]3r30.a cd227 . . . . . - . . . . . . . . . . . . . . . . . . . . . . .
[3]1kwp.b hg1 . . . . . . . . . . . . . . . . . . . * . . . . . . . . .
[3]2oza.a K9 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[3]3a2c.a pdy27 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[3]3ka0.a mk328 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .

Legend

B backbone contact  S side chain contact  F BB + SCh
.
 no contact C covalent bond
X mutation to X * complex cases - deletion
M contact with cofactors/metals (if any)

Site contact map

[download in TSV format]
   
PDB.ch
A1
Q
6
8
V
6
9
L
7
0
G
7
1
L
7
2
G
7
3
I
7
4
N
7
5
G
7
6
K
7
7
V
7
8
Q
8
0
I
8
1
F
8
2
K
8
9
F
9
0
A
9
1
K
9
3
H
1
0
8
V
1
1
8
M
1
3
8
E
1
3
9
C
1
4
0
L
1
4
1
D
1
4
2
G
1
4
4
E
1
4
5
E
1
9
0
N
1
9
1
L
1
9
3
T
2
0
6
D
2
0
7
[1]1nxk.c . . * . * * * . . . . * . . * . . . . . * . . . . . . . . . . .
[1]2pzy.a . . * . * * * . * . . * . . * . . . . . . . . . . . . . . . . .
[1]2pzy.c . . * . * * * . . . . * . . . . . . . . . . . . . . . . . . . .
[1]3gok.a . . * * * * . . . . . * . . . . . . . . . . . . . . . . . . . .
[1]3kga.a . . * . * * . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]3m2w.a . . * . * . . . . . . . . . * . . . . . . . . . . . . . . . . .
[1]3m42.a . . * . * * . . . . . * . . * . . . . . . . . . . . . . . . . .
[1]3r2b.a . . * . * . . . . . . * . . . . . . . . . . . . . . . . . . . .
[1]3r2b.c . . * . * . . . . . . * . . . . . . . . . . . . . . . . . . . .
[1]3wi6.b * . * . * . . . . . . * . . . . . . . . . . . . . . . . . . . *
[2]1ny3.a . . * . . . . . . . . * . . . . . . . . . . . . . . . . . . . .
[2]3fpm.a * . * . * . . . . . . * . . . . . . . . . . . . . . . * . . . .
[2]3fyk.x . . * * * * . . . . . * . . . . . . . . . . . . . . . . . . . .
[2]3kc3.a * . * * * * * . . . . * . . . . . . . . . . . . . . . . . . . .
[2]3r30.a . . * . * * . - . . . * . . . . . . . . . . . . . . . . . . . .
[3]1kwp.b . . . . . . . . * . . * . . . . . . . . . . * . . . . . . . . .
[3]2oza.a . . * . . . . . . . . * . . . . . . . . . . . . . . . . . . . *
[3]3a2c.a . . . . . . . . . . . * . . . . . . . . . . . . . . . . . . . *
[3]3ka0.a . . . . . . . . . . . * . . . . . . . . . . . . . . . . . . . .

Legend

B backbone contact  S side chain contact  F BB + SCh
.
 no contact C covalent bond
X X X X X  clash
X mutation to X * complex cases - deletion
M contact with cofactors/metals (if any)

Pocket-ligand steric compatibility

Ligands (x) vs pockets (y) colored by number of steric clashes

zoom: [−] [+]; [view as image]; [download as text]

pocketligand
≥10
9
8
7
6
5
4
3
2
1
0
1nxk.c:stu
2pzy.a:b18
2pzy.c:stu
3gok.a:p4o
3kga.a:lx9
3m2w.a:l8i
3m42.a:hgf
3r2b.a:05b
3r2b.c is apo
3wi6.b:yrz
1ny3.a:adp
3fpm.a:793
3fyk.x:b98
3kc3.a:mk2
3r30.a:cd2
1kwp.b:hg
2oza.a:K
3a2c.a:pdy
3ka0.a:mk3
[1] 1nxk.c
0
0.1 0.2 0.4 2.1 0.4 0.4 0.2 - 0 3.1 3.7 0 0.3 0 0.4 1.6 1.8 1.3
[1] 2pzy.a 2.0
0.1
1.6 0.3 3.6 1.1 0.3 0.8 - 0.9 4.4 4.5 0 0.4 0.1 0.7 2.6 2.8 1.9
[1] 2pzy.c 0.1 0.1
0
0.3 2.5 0.3 0.2 0.2 - 0 3.9 3.8 0 0.4 0.1 0.2 2.0 1.3 1.6
[1] 3gok.a 1.7 0.2 1.4
0
2.9 0.9 0.1 0.8 - 0.6 4.7 2.8 0.1 0.3 0.3 0.4 3.4 3.5 2.1
[1] 3kga.a 0.7 0.5 0.4 0.1
0
0.1 0.1 0.2 - 0.1 2.5 1.8 0.1 0.4 0.3 0.1 3.1 1.1 1.0
[1] 3m2w.a 0.6 0.4 0.5 0.1 0.6
0
0 0.1 - 0.1 0.8 0.2 0 0.4 0.3 0.1 1.7 0.9 0.8
[1] 3m42.a 1.5 0.1 1.4 0 3.0 0.4
0
0.7 - 0.9 3.9 2.3 0.1 0.5 0.2 0.4 3.4 3.2 1.9
[1] 3r2b.a 0.7 0.5 0.6 0 2.0 0.2 0.1
0
- 0.1 1.3 0.8 0 0.1 0.1 0 4.0 1.7 2.0
[1] 3r2b.c 0.7 0.6 0.6 0 1.5 0.1 0.2 0.1
-
0 1.3 0.9 0.1 0.7 0.1 0.1 3.9 1.7 1.5
[1] 3wi6.b 0.9 1.4 1.0 1.3 3.5 1.1 1.4 1.1 -
0.1
1.9 0.9 0.9 0.8 0.7 0.4 2.9 2.5 2.4
[2] 1ny3.a 0.8 0.6 0.6 0.4 3.0 0.9 0.5 0.7 - 0
0.1
0.1 0.3 0.5 0.7 1.0 1.5 3.2 2.9
[2] 3fpm.a 1.9 0.8 1.3 0.2 3.4 1.4 0.3 0.6 - 0.2 1.1
0
0.1 0.5 0.2 0.7 2.2 4.5 2.8
[2] 3fyk.x 1.6 0.2 1.4 0.3 2.3 0.2 0.1 0.2 - 0.3 3.4 2.7
0
0.2 0.2 0.3 1.3 2.4 2.0
[2] 3kc3.a 2.5 0.7 1.7 0.4 4.2 1.4 0.8 1.2 - 0.8 3.9 2.8 0.2
0.1
0.4 0.7 2.2 5.1 3.1
[2] 3r30.a 1.8 0.3 1.5 0 2.8 0.6 0.3 0.4 - 0.4 2.5 0.8 0.2 0.2
0.1
0.6 1.8 3.8 2.5
[3] 1kwp.b 0.4 0.1 0.5 0.1 2.8 0.4 0.2 0.4 - 0.1 0.1 1.2 0.3 0.2 0.3
0.5
0 0.2 0.2
[3] 2oza.a 0.5 0.9 0.8 0.9 3.7 0.8 1.0 1.1 - 0.1 0.7 1.2 0.3 1.0 0.6 0.6
0.1
1.3 1.5
[3] 3a2c.a 0.8 1.2 1.3 1.6 4.4 1.0 1.6 1.1 - 0 1.2 1.0 1.0 1.2 0.5 0.1 0
0
1.2
[3] 3ka0.a 0.8 0.1 0.7 0 2.2 0 0.3 0.1 - 0.1 0.2 0.4 0.2 0.2 0.1 0 0.1 0.3
0
[Pocket-ligand steric clashes matrix]

Pocket clash dissimilarity (3 clusters)

Pockets (x) vs pockets (y) colored by ligand clash profile difference

zoom: [−] [+]; [view as image]; [download as text]

pocketpocket
≥1.
.9
.8
.7
.6
.5
.4
.3
.2
.1
.0
1nxk.c
2pzy.a
2pzy.c
3gok.a
3kga.a
3m2w.a
3m42.a
3r2b.a
3r2b.c
3wi6.b
1ny3.a
3fpm.a
3fyk.x
3kc3.a
3r30.a
1kwp.b
2oza.a
3a2c.a
3ka0.a
[1] 1nxk.c
0
.19 .10 .22 .17 .18 .22 .25 .24 .24 .28 .31 .20 .34 .25 .30 .27 .34 .24
[1] 2pzy.a .19
0
.14 .16 .24 .31 .13 .24 .25 .27 .33 .31 .21 .34 .25 .40 .38 .47 .35
[1] 2pzy.c .10 .14
0
.18 .18 .21 .20 .19 .21 .19 .24 .27 .16 .29 .19 .29 .25 .33 .28
[1] 3gok.a .22 .16 .18
0
.21 .30 .08 .17 .19 .23 .28 .26 .19 .27 .18 .39 .36 .43 .35
[1] 3kga.a .17 .24 .18 .21
0
.15 .19 .18 .17 .22 .29 .34 .22 .39 .26 .35 .27 .37 .32
[1] 3m2w.a .18 .31 .21 .30 .15
0
.27 .20 .20 .23 .22 .24 .23 .34 .24 .25 .21 .28 .21
[1] 3m42.a .22 .13 .20 .08 .19 .27
0
.18 .18 .22 .26 .27 .18 .31 .20 .39 .34 .43 .33
[1] 3r2b.a .25 .24 .19 .17 .18 .20 .18
0
.08 .16 .23 .25 .22 .34 .21 .29 .25 .32 .29
[1] 3r2b.c .24 .25 .21 .19 .17 .20 .18 .08
0
.17 .24 .27 .25 .37 .26 .30 .27 .36 .29
[1] 3wi6.b .24 .27 .19 .23 .22 .23 .22 .16 .17
0
.18 .22 .18 .30 .18 .32 .20 .28 .32
[2] 1ny3.a .28 .33 .24 .28 .29 .22 .26 .23 .24 .18
0
.18 .16 .26 .16 .23 .19 .25 .28
[2] 3fpm.a .31 .31 .27 .26 .34 .24 .27 .25 .27 .22 .18
0
.21 .19 .14 .33 .28 .38 .32
[2] 3fyk.x .20 .21 .16 .19 .22 .23 .18 .22 .25 .18 .16 .21
0
.22 .12 .29 .22 .31 .30
[2] 3kc3.a .34 .34 .29 .27 .39 .34 .31 .34 .37 .30 .26 .19 .22
0
.19 .42 .36 .44 .44
[2] 3r30.a .25 .25 .19 .18 .26 .24 .20 .21 .26 .18 .16 .14 .12 .19
0
.33 .28 .33 .33
[3] 1kwp.b .30 .40 .29 .39 .35 .25 .39 .29 .30 .32 .23 .33 .29 .42 .33
0
.17 .16 .12
[3] 2oza.a .27 .38 .25 .36 .27 .21 .34 .25 .27 .20 .19 .28 .22 .36 .28 .17
0
.15 .19
[3] 3a2c.a .34 .47 .33 .43 .37 .28 .43 .32 .36 .28 .25 .38 .31 .44 .33 .16 .15
0
.17
[3] 3ka0.a .24 .35 .28 .35 .32 .21 .33 .29 .29 .32 .28 .32 .30 .44 .33 .12 .19 .17
0
[Pocket clash dissimilarity matrix]

Site backbone RMSD (median 1.6 Å)

Pockets (x) vs pockets (y) colored by RMSD of site residue backbone atoms

zoom: [−] [+]; [view as image]; [download as text]

pocketpocket
≥10 Å
9 Å
8 Å
7 Å
6 Å
5 Å
4 Å
3 Å
2 Å
1 Å
0 Å
1nxk.c
2pzy.a
2pzy.c
3gok.a
3kga.a
3m2w.a
3m42.a
3r2b.a
3r2b.c
3wi6.b
1ny3.a
3fpm.a
3fyk.x
3kc3.a
3r30.a
1kwp.b
2oza.a
3a2c.a
3ka0.a
[1] 1nxk.c
0
0.7 0.4 0.8 0.7 1.2 0.9 0.9 0.9 1.4 1.9 1.7 1.4 1.2 1.3 4.6 2.4 4.8 4.8
[1] 2pzy.a 0.7
0
0.6 0.7 0.9 1.2 0.7 0.9 0.9 1.3 1.8 1.7 1.2 1.0 1.2 4.9 2.3 5.1 5.0
[1] 2pzy.c 0.4 0.6
0
0.8 0.8 1.2 0.9 0.9 0.9 1.4 1.9 1.7 1.4 1.1 1.3 4.7 2.4 4.9 4.9
[1] 3gok.a 0.8 0.7 0.8
0
0.8 1.0 0.4 0.8 0.9 1.3 1.8 1.6 1.3 1.0 0.9 5.0 2.5 5.2 5.1
[1] 3kga.a 0.7 0.9 0.8 0.8
0
0.9 0.7 0.9 0.9 1.2 1.8 1.5 1.3 1.1 1.1 4.7 2.3 4.9 4.8
[1] 3m2w.a 1.2 1.2 1.2 1.0 0.9
0
0.9 0.9 0.9 0.9 1.3 0.8 1.1 1.2 0.9 4.7 2.0 4.8 4.8
[1] 3m42.a 0.9 0.7 0.9 0.4 0.7 0.9
0
0.8 0.8 1.1 1.7 1.5 1.2 0.9 0.8 5.0 2.4 5.2 5.2
[1] 3r2b.a 0.9 0.9 0.9 0.8 0.9 0.9 0.8
0
0.5 1.1 1.6 1.4 1.2 1.0 1.0 4.9 2.3 5.1 5.1
[1] 3r2b.c 0.9 0.9 0.9 0.9 0.9 0.9 0.8 0.5
0
1.0 1.5 1.4 1.2 1.1 1.0 4.8 2.2 5.0 5.0
[1] 3wi6.b 1.4 1.3 1.4 1.3 1.2 0.9 1.1 1.1 1.0
0
0.8 1.1 0.8 1.1 0.9 4.7 1.7 4.8 4.8
[2] 1ny3.a 1.9 1.8 1.9 1.8 1.8 1.3 1.7 1.6 1.5 0.8
0
1.1 1.0 1.6 1.1 4.6 1.3 4.6 4.7
[2] 3fpm.a 1.7 1.7 1.7 1.6 1.5 0.8 1.5 1.4 1.4 1.1 1.1
0
1.3 1.5 1.1 4.6 1.8 4.7 4.7
[2] 3fyk.x 1.4 1.2 1.4 1.3 1.3 1.1 1.2 1.2 1.2 0.8 1.0 1.3
0
1.1 0.9 4.7 1.6 4.8 4.8
[2] 3kc3.a 1.2 1.0 1.1 1.0 1.1 1.2 0.9 1.0 1.1 1.1 1.6 1.5 1.1
0
1.1 5.1 2.3 5.2 5.2
[2] 3r30.a 1.3 1.2 1.3 0.9 1.1 0.9 0.8 1.0 1.0 0.9 1.1 1.1 0.9 1.1
0
4.9 2.0 5.0 5.0
[3] 1kwp.b 4.6 4.9 4.7 5.0 4.7 4.7 5.0 4.9 4.8 4.7 4.6 4.6 4.7 5.1 4.9
0
4.2 1.0 0.8
[3] 2oza.a 2.4 2.3 2.4 2.5 2.3 2.0 2.4 2.3 2.2 1.7 1.3 1.8 1.6 2.3 2.0 4.2
0
4.2 4.3
[3] 3a2c.a 4.8 5.1 4.9 5.2 4.9 4.8 5.2 5.1 5.0 4.8 4.6 4.7 4.8 5.2 5.0 1.0 4.2
0
0.7
[3] 3ka0.a 4.8 5.0 4.9 5.1 4.8 4.8 5.2 5.1 5.0 4.8 4.7 4.7 4.8 5.2 5.0 0.8 4.3 0.7
0
[Binding site backbone RMSD matrix]

Site full-atom RMSD (median 1.3 Å)

Pockets (x) vs pockets (y) colored by RMSD of all site residue atoms

zoom: [−] [+]; [view as image]; [download as text]

pocketpocket
≥10 Å
9 Å
8 Å
7 Å
6 Å
5 Å
4 Å
3 Å
2 Å
1 Å
0 Å
1nxk.c
2pzy.a
2pzy.c
3gok.a
3kga.a
3m2w.a
3m42.a
3r2b.a
3r2b.c
3wi6.b
1ny3.a
3fpm.a
3fyk.x
3kc3.a
3r30.a
1kwp.b
2oza.a
3a2c.a
3ka0.a
[1] 1nxk.c
0
1.0 0.7 1.1 1.2 1.3 1.2 1.1 1.2 1.4 1.9 2.1 1.8 1.5 1.3 4.7 2.5 5.1 5.0
[1] 2pzy.a 1.0
0
1.1 1.0 1.3 1.2 0.9 1.1 1.2 1.4 1.9 2.0 1.6 1.3 1.3 4.9 2.5 5.4 5.4
[1] 2pzy.c 0.7 1.1
0
1.2 1.3 1.3 1.3 1.1 1.1 1.5 2.0 2.1 1.9 1.6 1.4 4.8 2.7 5.3 5.3
[1] 3gok.a 1.1 1.0 1.2
0
1.4 1.2 1.0 1.0 1.1 1.4 1.9 1.8 1.7 1.2 1.1 4.9 2.7 5.5 5.5
[1] 3kga.a 1.2 1.3 1.3 1.4
0
0.9 1.2 1.2 1.2 1.5 2.0 2.0 1.6 1.6 1.5 4.8 2.4 5.1 5.1
[1] 3m2w.a 1.3 1.2 1.3 1.2 0.9
0
0.9 1.1 1.2 1.2 1.4 1.2 1.2 1.4 1.1 4.3 2.0 4.4 4.4
[1] 3m42.a 1.2 0.9 1.3 1.0 1.2 0.9
0
1.1 1.2 1.4 1.9 1.9 1.5 1.2 1.2 5.0 2.5 5.5 5.5
[1] 3r2b.a 1.1 1.1 1.1 1.0 1.2 1.1 1.1
0
0.8 1.2 1.7 1.6 1.4 1.2 1.1 4.5 2.4 4.8 4.8
[1] 3r2b.c 1.2 1.2 1.1 1.1 1.2 1.2 1.2 0.8
0
1.3 1.6 1.6 1.5 1.4 1.1 4.5 2.3 4.9 4.8
[1] 3wi6.b 1.4 1.4 1.5 1.4 1.5 1.2 1.4 1.2 1.3
0
1.0 1.6 1.3 1.4 1.0 4.6 1.9 5.1 5.2
[2] 1ny3.a 1.9 1.9 2.0 1.9 2.0 1.4 1.9 1.7 1.6 1.0
0
1.4 1.4 1.7 1.1 4.3 1.6 4.8 5.0
[2] 3fpm.a 2.1 2.0 2.1 1.8 2.0 1.2 1.9 1.6 1.6 1.6 1.4
0
1.9 1.8 1.5 4.3 2.1 5.0 5.0
[2] 3fyk.x 1.8 1.6 1.9 1.7 1.6 1.2 1.5 1.4 1.5 1.3 1.4 1.9
0
1.6 1.2 4.6 1.9 5.0 5.1
[2] 3kc3.a 1.5 1.3 1.6 1.2 1.6 1.4 1.2 1.2 1.4 1.4 1.7 1.8 1.6
0
1.2 4.9 2.6 5.5 5.5
[2] 3r30.a 1.3 1.3 1.4 1.1 1.5 1.1 1.2 1.1 1.1 1.0 1.1 1.5 1.2 1.2
0
4.4 2.0 4.9 5.1
[3] 1kwp.b 4.7 4.9 4.8 4.9 4.8 4.3 5.0 4.5 4.5 4.6 4.3 4.3 4.6 4.9 4.4
0
4.1 1.4 1.1
[3] 2oza.a 2.5 2.5 2.7 2.7 2.4 2.0 2.5 2.4 2.3 1.9 1.6 2.1 1.9 2.6 2.0 4.1
0
4.6 4.7
[3] 3a2c.a 5.1 5.4 5.3 5.5 5.1 4.4 5.5 4.8 4.9 5.1 4.8 5.0 5.0 5.5 4.9 1.4 4.6
0
1.3
[3] 3ka0.a 5.0 5.4 5.3 5.5 5.1 4.4 5.5 4.8 4.8 5.2 5.0 5.0 5.1 5.5 5.1 1.1 4.7 1.3
0
[Binding site full-atom RMSD matrix]







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