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NTRK3_HUMAN_526_836

NT-3 growth factor receptor [Protein kinase superfamily. Tyr protein kinase family. Insulin receptor subfamily]

Composition of the binding site

Protein chains monomer [domain annotation]
A1 (NTRK3_HUMAN):D: Protein kinase (544, 545, 552, 570, 572, 588, 591, 592, 595, 600, 617:621, 623, 670, 675, 677, 686, 695:698)544, 545, 552, 570, 572, 588, 591, 592, 595, 600, 617:621, 623, 670, 675, 677, 686, 695:698

Full PDB list

3v5q, 4ymj

Pocket contact map

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PDB.ch
   
ligand
A1
L
5
4
4
G
5
4
5
V
5
5
2
A
5
7
0
K
5
7
2
E
5
8
8
L
5
9
1
L
5
9
2
L
5
9
5
I
6
0
0
F
6
1
7
E
6
1
8
Y
6
1
9
M
6
2
0
K
6
2
1
G
6
2
3
L
6
7
0
F
6
7
5
H
6
7
7
L
6
8
6
I
6
9
5
G
6
9
6
D
6
9
7
F
6
9
8
[1]3v5q.b 0f437 . . . . . . . . . . . . . . . . . . . . . . . .
[1]4ymj.a 4ej25 . . . . . . . . . . . . . . . . . . . . . . . .

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

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PDB.ch
A1
L
5
4
4
G
5
4
5
V
5
5
2
A
5
7
0
K
5
7
2
E
5
8
8
L
5
9
1
L
5
9
2
L
5
9
5
I
6
0
0
F
6
1
7
E
6
1
8
Y
6
1
9
M
6
2
0
K
6
2
1
G
6
2
3
L
6
7
0
F
6
7
5
H
6
7
7
L
6
8
6
I
6
9
5
G
6
9
6
D
6
9
7
F
6
9
8
[1]3v5q.b . . . . . . . . . . . . . . . . . . . . . . . .
[1]4ymj.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

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pocketligand
≥10
9
8
7
6
5
4
3
2
1
0
3v5q.b:0f4
4ymj.a:4ej
[1] 3v5q.b
0
0.1
[1] 4ymj.a 0.3
0.1
[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
3v5q.b
4ymj.a
[1] 3v5q.b
0
.02
[1] 4ymj.a .02
0
[Pocket clash dissimilarity matrix]

Site backbone RMSD (median 0.3 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
3v5q.b
4ymj.a
[1] 3v5q.b
0
0.5
[1] 4ymj.a 0.5
0
[Binding site backbone RMSD matrix]

Site full-atom RMSD (median 0.3 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
3v5q.b
4ymj.a
[1] 3v5q.b
0
0.7
[1] 4ymj.a 0.7
0
[Binding site full-atom RMSD matrix]







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[ENTRY 2D visualization]

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