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.

ALBU_RABIT_25_608

Serum albumin [ALB/AFP/VDB family]

Composition of the binding site

Protein chains monomer [domain annotation]
A1 (ALBU_RABIT):D: Albumin 3 (411, 412, 415, 416, 427, 431, 434, 435, 438, 454, 457, 462, 473, 477, 509, 512, 513)411, 412, 415, 416, 427, 431, 434, 435, 438, 454, 457, 462, 473, 477, 509, 512, 513

Full PDB list

3v09, 4f5v, 4po0

Pocket contact map

[download in TSV format]
   
PDB.ch
   
ligand
A1
V
4
1
2
N
4
1
5
C
4
1
6
F
4
2
7
L
4
3
1
R
4
3
4
Y
4
3
5
K
4
3
8
V
4
7
3
L
4
7
7
R
5
0
9
F
5
1
2
S
5
1
3
[1]3v09.a none . . . . . . . . . . . . .
[1]4f5v.a pge10 . . . . . . . . . . . . .
[1]4po0.a nps17 . . . . . . . . . . . . .

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
L
4
1
1
V
4
1
2
N
4
1
5
C
4
1
6
F
4
2
7
L
4
3
1
R
4
3
4
Y
4
3
5
K
4
3
8
L
4
5
4
V
4
5
7
C
4
6
2
V
4
7
3
L
4
7
7
R
5
0
9
F
5
1
2
S
5
1
3
[1]3v09.a . . . . . . . . . . . . . . . . .
[1]4f5v.a . . . . . . . . . . . . . . . . .
[1]4po0.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
3v09.a is apo
4f5v.a:pge
4po0.a:nps
[1] 3v09.a
-
0.1 0.4
[1] 4f5v.a -
0.1
0.6
[1] 4po0.a - 0.2
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
3v09.a
4f5v.a
4po0.a
[1] 3v09.a
0
.01 .03
[1] 4f5v.a .01
0
.04
[1] 4po0.a .03 .04
0
[Pocket clash dissimilarity matrix]

Site backbone RMSD (median 0.7 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
3v09.a
4f5v.a
4po0.a
[1] 3v09.a
0
0.2 0.4
[1] 4f5v.a 0.2
0
0.5
[1] 4po0.a 0.4 0.5
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
3v09.a
4f5v.a
4po0.a
[1] 3v09.a
0
0.7 0.8
[1] 4f5v.a 0.7
0
0.7
[1] 4po0.a 0.8 0.7
0
[Binding site full-atom RMSD matrix]







[show 3D visualization]

[ENTRY 2D visualization]

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

loading...