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CLK3_HUMAN_275_633

Dual specificity protein kinase CLK3 [Protein kinase superfamily. CMGC Ser/Thr protein kinase family. Lammer subfamily]

Composition of the binding site

Protein chains monomer [domain annotation]
A1 (CLK3_HUMAN):D: Protein kinase (309:312, 315, 318, 332, 334, 368, 384:390, 393, 435, 436, 438, 467, 468)309:312, 315, 318, 332, 334, 368, 384:390, 393, 435, 436, 438, 467, 468

Full PDB list

2eu9, 2exe, 2wu6, 2wu7, 3raw (redundant Pocketome entry)

Pocket contact map

[download in TSV format]
   
PDB.ch
   
ligand
A1
L
3
1
0
G
3
1
1
E
3
1
2
F
3
1
5
V
3
1
8
A
3
3
2
K
3
3
4
V
3
6
8
F
3
8
4
E
3
8
5
L
3
8
6
L
3
8
7
G
3
8
8
K
3
8
9
N
3
9
0
E
3
9
3
E
4
3
5
N
4
3
6
L
4
3
8
A
4
6
7
D
4
6
8
[1]2eu9.a none . . . . . . . . . . . . . . . . . . . . .
[1]2wu6.a dki28 . . . . . . . . . . . . . . . . . . . . .
[1]2wu7.a v2522 . . . . . . . . . . . . . . . . . . . . .
[1]3raw.b 3ra23 . . . . . . . . . . . . . . . . . . . . .

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
N
3
0
9
L
3
1
0
G
3
1
1
E
3
1
2
F
3
1
5
V
3
1
8
A
3
3
2
K
3
3
4
V
3
6
8
F
3
8
4
E
3
8
5
L
3
8
6
L
3
8
7
G
3
8
8
K
3
8
9
N
3
9
0
E
3
9
3
E
4
3
5
N
4
3
6
L
4
3
8
A
4
6
7
D
4
6
8
[1]2eu9.a . . . . . . . . . . * . . . . . . . . . . .
[1]2wu6.a . . . . . . . . . . . . . . . . . . . . . .
[1]2wu7.a . . . . . . . . . . . . . . . . . . . . . .
[1]3raw.b . . . . . . . . . . . . . . . . . . . . . .

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

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pocketligand
≥10
9
8
7
6
5
4
3
2
1
0
2eu9.a is apo
2wu6.a:dki
2wu7.a:v25
3raw.b:3ra
[1] 2eu9.a
-
0.3 0.6 0.1
[1] 2wu6.a -
0.1
0.2 0
[1] 2wu7.a - 0.7
0
0
[1] 3raw.b - 0.2 0.1
0
[Pocket-ligand steric clashes matrix]

Pocket clash dissimilarity (1 cluster)

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

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pocketpocket
≥1.
.9
.8
.7
.6
.5
.4
.3
.2
.1
.0
2eu9.a
2wu6.a
2wu7.a
3raw.b
[1] 2eu9.a
0
.03 .06 .03
[1] 2wu6.a .03
0
.04 .02
[1] 2wu7.a .06 .04
0
.03
[1] 3raw.b .03 .02 .03
0
[Pocket clash dissimilarity matrix]

Site backbone RMSD (median 0.9 Å)

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

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pocketpocket
≥10 Å
9 Å
8 Å
7 Å
6 Å
5 Å
4 Å
3 Å
2 Å
1 Å
0 Å
2eu9.a
2wu6.a
2wu7.a
3raw.b
[1] 2eu9.a
0
0.9 1.3 1.2
[1] 2wu6.a 0.9
0
0.7 0.7
[1] 2wu7.a 1.3 0.7
0
0.3
[1] 3raw.b 1.2 0.7 0.3
0
[Binding site backbone RMSD matrix]

Site full-atom RMSD (median 0.7 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
2eu9.a
2wu6.a
2wu7.a
3raw.b
[1] 2eu9.a
0
1.4 1.7 1.5
[1] 2wu6.a 1.4
0
0.8 0.9
[1] 2wu7.a 1.7 0.8
0
0.5
[1] 3raw.b 1.5 0.9 0.5
0
[Binding site full-atom RMSD matrix]







[show 3D visualization]

[ENTRY 2D visualization]

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