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CYH3_HUMAN_63_258

Cytohesin-3

Composition of the binding site

Protein chains monomer [domain annotation]
A1 (CYH3_HUMAN):D: SEC7 (196, 199)
R: C-terminal autoinhibitory region (393, 394, 397)
221:225, 386, 389, 390
196, 199, 221:225, 290, 386, 389, 390, 393, 394, 397

Full PDB list

2r09, 2r0d

Pocket contact map

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PDB.ch
   
ligand
A1
A
1
9
6
M
1
9
9
M
2
2
1
N
2
2
2
R
2
2
3
G
2
2
4
T
2
9
0
Y
3
8
6
L
3
8
9
A
3
9
0
K
3
9
3
R
3
9
4
A
3
9
7
[1]2r09.a pe527 . * * . . . . . . . . . .
[1]2r09.b none . * * . . . . . . . . . -
[1]2r0d.a none . . . . . . . . . . . . .

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
A
1
9
6
M
1
9
9
M
2
2
1
N
2
2
2
R
2
2
3
G
2
2
4
I
2
2
5
T
2
9
0
Y
3
8
6
L
3
8
9
A
3
9
0
K
3
9
3
R
3
9
4
A
3
9
7
[1]2r09.a . * * . . . . . . . . . . .
[1]2r09.b . * * . . . . . . . . . . -
[1]2r0d.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
2r09.a:pe5
2r09.b is apo
2r0d.a is apo
[1] 2r09.a
0
- -
[1] 2r09.b 0.4
-
-
[1] 2r0d.a 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
2r09.a
2r09.b
2r0d.a
[1] 2r09.a
0
.03 0
[1] 2r09.b .03
0
.03
[1] 2r0d.a 0 .03
0
[Pocket clash dissimilarity matrix]

Site backbone RMSD (median 0.6 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
2r09.a
2r09.b
2r0d.a
[1] 2r09.a
0
1.4 0.2
[1] 2r09.b 1.4
0
1.4
[1] 2r0d.a 0.2 1.4
0
[Binding site backbone RMSD matrix]

Site full-atom RMSD (median 0.2 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
2r09.a
2r09.b
2r0d.a
[1] 2r09.a
0
2.2 0.6
[1] 2r09.b 2.2
0
2.1
[1] 2r0d.a 0.6 2.1
0
[Binding site full-atom RMSD matrix]







[show 3D visualization]

[ENTRY 2D visualization]

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