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CLC4K_HUMAN_193_328

C-type lectin domain family 4 member K

Composition of the binding site

Protein chains monomer [domain annotation]
A1 (CLC4K_HUMAN):D: C-type lectin (282:285, 287, 289, 293, 299, 307:310, 313, 315)282:285, 287, 289, 293, 299, 307:310, 313, 315
Metals (Me):Ca

Full PDB list

3c22, 3kqg, 3p5d, 3p5e, 3p5f, 3p5g, 3p5h, 3p5i, 3p7f, 3p7g, 3p7h, 4ak8, 4n32, 4n33, 4n34, 4n35, 4n36, 4n37, 4n38, 5g6u (redundant Pocketome entry)

Pocket contact map

[download in TSV format]
   
PDB.ch
   
ligand
A1 Me
I
2
8
2
P
2
8
3
G
2
8
4
E
2
8
5
N
2
8
7
E
2
9
3
K
2
9
9
N
3
0
7
D
3
0
8
K
3
1
3
[1]3p5g.b gla.gla.fuc33 . . . . . . . . . . Ca
[1]3p7h.b mal23 . . . . . . . . . . Ca
[1]4ak8.a none . . . . . . . . . . Ca
[1]4n32.a 2f816 . . . . . . . . . . Ca
[1]4n34.d 2f816 . . . . . . . . . I Ca
[1]4n35.a none . . . . . . . . . I Ca
[1]4n37.c mma13 . . . . . . . . . I Ca
[1]5g6u.c yjm20 . . . . . . . . . . Ca

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 Me
I
2
8
2
P
2
8
3
G
2
8
4
E
2
8
5
N
2
8
7
A
2
8
9
E
2
9
3
K
2
9
9
N
3
0
7
D
3
0
8
A
3
0
9
P
3
1
0
K
3
1
3
F
3
1
5
[1]3p5g.b . . . . . . . . . . . . . . Ca
[1]3p7h.b . . . . . . . . . . . . . . Ca
[1]4ak8.a . . . . . . . . . . . . . . Ca
[1]4n32.a . . . . . . . . . . . . . . Ca
[1]4n34.d . . . . . . . . . . . . I . Ca
[1]4n35.a . . . . . . . . . . . . I . Ca
[1]4n37.c . . . . . . . . . . . . I . Ca
[1]5g6u.c . . . . . . . . . . . . . . Ca

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
3p5g.b:gla.gla.fuc
3p7h.b:mal
4ak8.a is apo
4n32.a:2f8
4n34.d:2f8
4n35.a is apo
4n37.c:mma
5g6u.c:yjm
[1] 3p5g.b
0.1
0 - 0.2 0.1 - 0 0.1
[1] 3p7h.b 0.2
0.1
- 0.3 0.1 - 0.1 0.3
[1] 4ak8.a 0.1 0
-
0.1 0 - 0 0.1
[1] 4n32.a 0.1 0.1 -
0.2
0.1 - 0.1 0.1
[1] 4n34.d 0.2 0 - 0.1
0.2
- 0.1 0.2
[1] 4n35.a 0.2 0 - 0.1 0.1
-
0.1 0.2
[1] 4n37.c 0.2 0 - 0.3 0.2 -
0.2
0.1
[1] 5g6u.c 0.2 0 - 0.2 0.1 - 0
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
3p5g.b
3p7h.b
4ak8.a
4n32.a
4n34.d
4n35.a
4n37.c
5g6u.c
[1] 3p5g.b
0
.02 .01 0 0 .02 .01 .01
[1] 3p7h.b .02
0
.03 .02 .02 .04 .01 .01
[1] 4ak8.a .01 .03
0
.01 .01 .01 .01 .01
[1] 4n32.a 0 .02 .01
0
0 .02 .01 .01
[1] 4n34.d 0 .02 .01 0
0
.02 .01 .01
[1] 4n35.a .02 .04 .01 .02 .02
0
.03 .03
[1] 4n37.c .01 .01 .01 .01 .01 .03
0
0
[1] 5g6u.c .01 .01 .01 .01 .01 .03 0
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
3p5g.b
3p7h.b
4ak8.a
4n32.a
4n34.d
4n35.a
4n37.c
5g6u.c
[1] 3p5g.b
0
0.3 0.1 0.2 0.2 0.3 0.3 0.2
[1] 3p7h.b 0.3
0
0.3 0.3 0.2 0.2 0.1 0.2
[1] 4ak8.a 0.1 0.3
0
0.2 0.2 0.3 0.3 0.2
[1] 4n32.a 0.2 0.3 0.2
0
0.2 0.2 0.3 0.2
[1] 4n34.d 0.2 0.2 0.2 0.2
0
0.3 0.2 0.2
[1] 4n35.a 0.3 0.2 0.3 0.2 0.3
0
0.3 0.3
[1] 4n37.c 0.3 0.1 0.3 0.3 0.2 0.3
0
0.2
[1] 5g6u.c 0.2 0.2 0.2 0.2 0.2 0.3 0.2
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
3p5g.b
3p7h.b
4ak8.a
4n32.a
4n34.d
4n35.a
4n37.c
5g6u.c
[1] 3p5g.b
0
0.3 0.3 0.7 0.3 0.3 0.3 0.3
[1] 3p7h.b 0.3
0
0.4 0.7 0.3 0.3 0.2 0.3
[1] 4ak8.a 0.3 0.4
0
0.6 0.3 0.3 0.3 0.4
[1] 4n32.a 0.7 0.7 0.6
0
0.3 0.2 0.3 0.6
[1] 4n34.d 0.3 0.3 0.3 0.3
0
0.5 0.2 0.2
[1] 4n35.a 0.3 0.3 0.3 0.2 0.5
0
0.5 0.3
[1] 4n37.c 0.3 0.2 0.3 0.3 0.2 0.5
0
0.3
[1] 5g6u.c 0.3 0.3 0.4 0.6 0.2 0.3 0.3
0
[Binding site full-atom RMSD matrix]







[show 3D visualization]

[ENTRY 2D visualization]

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