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CLPS2_AGRFC_1_103

ATP-dependent Clp protease adapter protein ClpS 2 [ClpS family]

Composition of the binding site

Protein chains monomer
A1 (CLPS2_AGRFC):28:31, 34, 36, 39, 58, 61, 62, 9528:31, 34, 36, 39, 58, 61, 62, 95

Full PDB list

4yjm, 4yjx, 4yka (redundant Pocketome entry)

Pocket contact map

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PDB.ch
   
ligand
A1
L
2
8
L
2
9
N
3
0
D
3
1
T
3
4
R
3
6
V
3
9
M
5
8
A
6
1
H
6
2
[1]4yjx.a none . . . . . . . . . .
[1]4yka.a tyc13 . . . . . . . . . .

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
2
8
L
2
9
N
3
0
D
3
1
T
3
4
R
3
6
V
3
9
M
5
8
A
6
1
H
6
2
L
9
5
[1]4yjx.a . . . . . . . . . . .
[1]4yka.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
4yjx.a is apo
4yka.a:tyc
[1] 4yjx.a
-
0
[1] 4yka.a -
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
4yjx.a
4yka.a
[1] 4yjx.a
0
.01
[1] 4yka.a .01
0
[Pocket clash dissimilarity matrix]

Site backbone RMSD (median 0.1 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
4yjx.a
4yka.a
[1] 4yjx.a
0
0.2
[1] 4yka.a 0.2
0
[Binding site backbone RMSD matrix]

Site full-atom RMSD (median 0.1 Å)

Pockets (x) vs pockets (y) colored by RMSD of all site residue 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
4yjx.a
4yka.a
[1] 4yjx.a
0
0.3
[1] 4yka.a 0.3
0
[Binding site full-atom RMSD matrix]







[show 3D visualization]

[ENTRY 2D visualization]

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