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.

DCAS_RHIRD_1_304

N-carbamoyl-D-amino acid hydrolase

Composition of the binding site

Protein chains homodimer [domain annotation]
A1 (DCAS_RHIRD):D: CN hydrolase (47, 53, 127, 131, 132, 144, 146, 172, 173, 175, 176, 197:199, 202)
286
47, 53, 127, 131, 132, 144, 146, 172, 173, 175, 176, 197:199, 202, 286
A2 (DCAS_RHIRD):D: CN hydrolase (47, 53, 127, 131, 144, 146, 172, 173, 175, 176, 197:199)
286
47, 53, 127, 131, 144, 146, 172, 173, 175, 176, 197:199, 286

Full PDB list

1erz, 1fo6, 1uf4, 1uf5, 1uf7, 1uf8, 2ggk, 2ggl (redundant Pocketome entry)

Pocket contact map

[download in TSV format]
   
PDB.ch
   
ligand
A1 A2
E
4
7
F
5
3
K
1
2
7
P
1
3
1
G
1
3
2
H
1
4
4
E
1
4
6
C
1
7
2
N
1
7
3
R
1
7
5
R
1
7
6
N
1
9
7
T
1
9
8
P
1
9
9
N
2
0
2
I
2
8
6
E
4
7
K
1
2
7
P
1
3
1
H
1
4
4
E
1
4
6
C
1
7
2
N
1
7
3
R
1
7
5
R
1
7
6
N
1
9
7
T
1
9
8
I
2
8
6
[1]1fo6.d none . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]1uf4.a none . . . . . . . A . . . . . . . . . . . . . A . . . . . .
[1]1uf5.a cdt12 . . . . . . . A . . . . . . . . . . . . . A . . . . . .
[1]1uf7.a cdv.cdv22 . . . . . . . A . . . . . . . . . . . . . A . . . . . .
[1]1uf8.b ing15 . . . . . . . A . . . . . . . . . . . . . A . . . . . .

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 A2
E
4
7
F
5
3
K
1
2
7
P
1
3
1
G
1
3
2
H
1
4
4
E
1
4
6
C
1
7
2
N
1
7
3
R
1
7
5
R
1
7
6
N
1
9
7
T
1
9
8
P
1
9
9
N
2
0
2
I
2
8
6
E
4
7
F
5
3
K
1
2
7
P
1
3
1
H
1
4
4
E
1
4
6
C
1
7
2
N
1
7
3
R
1
7
5
R
1
7
6
N
1
9
7
T
1
9
8
P
1
9
9
I
2
8
6
[1]1fo6.d . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]1uf4.a . . . . . . . A . . . . . . . . . . . . . . A . . . . . . .
[1]1uf5.a . . . . . . . A . . . . . . . . . . . . . . A . . . . . . .
[1]1uf7.a . . . . . . . A . . . . . . . . . . . . . . A . . . . . . .
[1]1uf8.b . . . . . . . A . . . . . . . . . . . . . . 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

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

pocketligand
≥10
9
8
7
6
5
4
3
2
1
0
1fo6.d is apo
1uf4.a is apo
1uf5.a:cdt
1uf7.a:cdv.cdv
1uf8.b:ing
[1] 1fo6.d
-
- 0.5 1.2 0.7
[1] 1uf4.a -
-
0.2 0.2 0.2
[1] 1uf5.a - -
0
0.1 0
[1] 1uf7.a - - 0
0
0
[1] 1uf8.b - - 0 0
0
[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
1fo6.d
1uf4.a
1uf5.a
1uf7.a
1uf8.b
[1] 1fo6.d
0
.04 .05 .05 .05
[1] 1uf4.a .04
0
.01 .01 .01
[1] 1uf5.a .05 .01
0
0 0
[1] 1uf7.a .05 .01 0
0
0
[1] 1uf8.b .05 .01 0 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

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
1fo6.d
1uf4.a
1uf5.a
1uf7.a
1uf8.b
[1] 1fo6.d
0
0.4 0.5 0.5 0.5
[1] 1uf4.a 0.4
0
0.2 0.2 0.3
[1] 1uf5.a 0.5 0.2
0
0.1 0.2
[1] 1uf7.a 0.5 0.2 0.1
0
0.2
[1] 1uf8.b 0.5 0.3 0.2 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

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
1fo6.d
1uf4.a
1uf5.a
1uf7.a
1uf8.b
[1] 1fo6.d
0
0.6 0.6 0.7 0.6
[1] 1uf4.a 0.6
0
0.3 0.3 0.4
[1] 1uf5.a 0.6 0.3
0
0.1 0.2
[1] 1uf7.a 0.7 0.3 0.1
0
0.2
[1] 1uf8.b 0.6 0.4 0.2 0.2
0
[Binding site full-atom RMSD matrix]







[show 3D visualization]

[ENTRY 2D visualization]

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

loading...