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ALBU_BOVIN_25_607

Serum albumin [ALB/AFP/VDB family]

Composition of the binding site

Protein chains monomer [domain annotation]
A1 (ALBU_BOVIN):D: Albumin 1 (173)
D: Albumin 2 (222, 237, 238, 241, 242, 245, 246, 261, 265, 280, 283, 284, 287, 310, 313, 314)
173, 222, 237, 238, 241, 242, 245, 246, 261, 265, 280, 283, 284, 287, 310, 313, 314

Full PDB list

3v03, 4f5s, 4jk4, 4luf, 4luh, 4or0, 5orf, 5ori, 5osw, 5otb (redundant Pocketome entry)

Pocket contact map

[download in TSV format]
   
PDB.ch
   
ligand
A1
Y
1
7
3
R
2
2
2
S
2
3
8
R
2
4
1
L
2
4
2
K
2
4
5
F
2
4
6
L
2
6
1
H
2
6
5
R
2
8
0
L
2
8
3
A
2
8
4
I
2
8
7
S
3
1
0
I
3
1
3
A
3
1
4
[1]4luf.a 2q517 . . . . . . . . . . . . . . . .
[1]5ori.a none . . . . . . . . . . . . . . . .
[1]5osw.a diu12 . . . . . . . . . . . . . . . .

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
Y
1
7
3
R
2
2
2
W
2
3
7
S
2
3
8
R
2
4
1
L
2
4
2
K
2
4
5
F
2
4
6
L
2
6
1
H
2
6
5
R
2
8
0
L
2
8
3
A
2
8
4
I
2
8
7
S
3
1
0
I
3
1
3
A
3
1
4
[1]4luf.a . . . . . . . . . . . . . . . . .
[1]5ori.a . . * . . . . . . . . . . . . . .
[1]5osw.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

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pocketligand
≥10
9
8
7
6
5
4
3
2
1
0
4luf.a:2q5
5ori.a is apo
5osw.a:diu
[1] 4luf.a
0.1
- 0.2
[1] 5ori.a 4.0
-
0.5
[1] 5osw.a 2.5 -
0.2
[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
4luf.a
5ori.a
5osw.a
[1] 4luf.a
0
.24 .14
[1] 5ori.a .24
0
.26
[1] 5osw.a .14 .26
0
[Pocket clash dissimilarity matrix]

Site backbone RMSD (median 1.1 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
4luf.a
5ori.a
5osw.a
[1] 4luf.a
0
0.8 0.4
[1] 5ori.a 0.8
0
0.6
[1] 5osw.a 0.4 0.6
0
[Binding site backbone RMSD matrix]

Site full-atom RMSD (median 0.4 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
4luf.a
5ori.a
5osw.a
[1] 4luf.a
0
1.8 1.1
[1] 5ori.a 1.8
0
1.5
[1] 5osw.a 1.1 1.5
0
[Binding site full-atom RMSD matrix]







[show 3D visualization]

[ENTRY 2D visualization]

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