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.

BSD_ASPTE_1_130

Blasticidin-S deaminase [Cytidine and deoxycytidylate deaminase family]

Composition of the binding site

Protein chains homotrimer [domain annotation]
A1 (BSD_ASPTE):D: CMP/dCMP-type deaminase (25, 26, 28, 29, 45, 47, 54:56, 76, 82, 86:88, 91)25, 26, 28, 29, 45, 47, 54:56, 76, 82, 86:88, 91
A2 (BSD_ASPTE):D: CMP/dCMP-type deaminase (128)
130
128, 130
A3 (BSD_ASPTE):D: CMP/dCMP-type deaminase (49)49
Metals (Me):Zn

Full PDB list

1wn5, 1wn6, 2z3g, 2z3h, 2z3i, 2z3j (redundant Pocketome entry)

Pocket contact map

[download in TSV format]
   
PDB.ch
   
ligand
A1 A2 A3 Me
E
2
5
D
2
6
S
2
8
V
2
9
N
4
5
Y
4
7
C
5
4
A
5
5
E
5
6
R
8
2
S
8
6
P
8
7
C
8
8
C
9
1
W
1
2
8
G
1
3
0
F
4
9
[1]1wn6.a bst31 . . . . . . . . . . . . . . . - . Zn
[1]2z3g.b none . . . . . . . . . . . . . . - - . Zn
[1]2z3h.a blo30 . . . . . . . . . . . . . . - - . Zn
[1]2z3i.a bls30 . . . . . . . . Q . . . . . . . . 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 A2 A3 Me
E
2
5
D
2
6
S
2
8
V
2
9
N
4
5
Y
4
7
C
5
4
A
5
5
E
5
6
A
7
6
R
8
2
S
8
6
P
8
7
C
8
8
C
9
1
W
1
2
8
G
1
3
0
F
4
9
[1]1wn6.a . . . . . . . . . . . . . . . . - . Zn
[1]2z3g.b . . . . . . . . . . . . . . . - - . Zn
[1]2z3h.a . . . . . . . . . . . . . . . - - . Zn
[1]2z3i.a . . . . . . . . Q . . . . . . . . . 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
1wn6.a:bst
2z3g.b is apo
2z3h.a:blo
2z3i.a:bls
[1] 1wn6.a
0
- 0.1 0
[1] 2z3g.b 0.2
-
0.1 0.2
[1] 2z3h.a 0.1 -
0
0.1
[1] 2z3i.a 0 - 0.2
0.1
[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
1wn6.a
2z3g.b
2z3h.a
2z3i.a
[1] 1wn6.a
0
.02 .01 .01
[1] 2z3g.b .02
0
.01 .02
[1] 2z3h.a .01 .01
0
.02
[1] 2z3i.a .01 .02 .02
0
[Pocket clash dissimilarity matrix]

Site backbone RMSD (median 0.4 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
1wn6.a
2z3g.b
2z3h.a
2z3i.a
[1] 1wn6.a
0
0.2 0.2 0.4
[1] 2z3g.b 0.2
0
0.2 0.2
[1] 2z3h.a 0.2 0.2
0
0.1
[1] 2z3i.a 0.4 0.2 0.1
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
1wn6.a
2z3g.b
2z3h.a
2z3i.a
[1] 1wn6.a
0
0.4 0.4 0.4
[1] 2z3g.b 0.4
0
0.5 0.3
[1] 2z3h.a 0.4 0.5
0
0.4
[1] 2z3i.a 0.4 0.3 0.4
0
[Binding site full-atom RMSD matrix]







[show 3D visualization]

[ENTRY 2D visualization]

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

loading...