If you see this message after the page is completely loaded, then JavaScript is not supported or disabled in your browser. Please consider enabling JavaScript for this site.

CBPD_LOPSP_1_380

Carboxypeptidase D [Peptidase M14 family]

Composition of the binding site

Protein chains monomer [domain annotation]
A1 (CBPD_LOPSP):R: Carboxypeptidase 2 (71, 74, 132, 141, 142, 178, 185, 189, 243, 246, 247, 249, 267, 269)71, 74, 132, 141, 142, 178, 185, 189, 243, 246, 247, 249, 267, 269
Metals (Me):Zn

Full PDB list

1h8l, 1qmu

Pocket contact map

[download in TSV format]
   
PDB.ch
   
ligand
A1 Me
H
7
1
E
7
4
R
1
3
2
N
1
4
1
R
1
4
2
H
1
7
8
N
1
8
5
D
1
8
9
G
2
4
3
W
2
4
6
Y
2
4
7
V
2
4
9
T
2
6
7
E
2
6
9
[1]1h8l.a gem15 . . . . . . . . . . . . . . Zn
[1]1qmu.a none . . . . . . . . . . . . . . Zn

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 Me
H
7
1
E
7
4
R
1
3
2
N
1
4
1
R
1
4
2
H
1
7
8
N
1
8
5
D
1
8
9
G
2
4
3
W
2
4
6
Y
2
4
7
V
2
4
9
T
2
6
7
E
2
6
9
[1]1h8l.a . . . . . . . . . . . . . . Zn
[1]1qmu.a . . . . . . . . . . . . . . Zn

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

zoom: [−] [+]; [view as image]; [download as text]

pocketligand
≥10
9
8
7
6
5
4
3
2
1
0
1h8l.a:gem
1qmu.a is apo
[1] 1h8l.a
0.2
-
[1] 1qmu.a 0.9
-
[Pocket-ligand steric clashes matrix]

Pocket clash dissimilarity (1 cluster)

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

zoom: [−] [+]; [view as image]; [download as text]

pocketpocket
≥1.
.9
.8
.7
.6
.5
.4
.3
.2
.1
.0
1h8l.a
1qmu.a
[1] 1h8l.a
0
.05
[1] 1qmu.a .05
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

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
1h8l.a
1qmu.a
[1] 1h8l.a
0
0.2
[1] 1qmu.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

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
1h8l.a
1qmu.a
[1] 1h8l.a
0
0.6
[1] 1qmu.a 0.6
0
[Binding site full-atom RMSD matrix]







[show 3D visualization]

[ENTRY 2D visualization]

L C X E | Background Color: | Anaglyph Stereo:

loading...