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FA9_PIG_48_409

Coagulation factor IX [Peptidase S1 family]

Composition of the binding site

Protein chains monomer [domain annotation]
A1 (FA9_PIG):D: Peptidase S1 (223, 266:268, 314, 344, 361:365, 367, 385:391, 398)223, 266:268, 314, 344, 361:365, 367, 385:391, 398

Full PDB list

1pfx, 1x7a

Pocket contact map

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PDB.ch
   
ligand
A1
H
2
2
3
N
2
6
6
K
2
6
7
Y
2
6
8
R
3
1
4
V
3
4
4
D
3
6
1
S
3
6
2
C
3
6
3
L
3
6
4
G
3
6
5
S
3
6
7
I
3
8
5
S
3
8
6
W
3
8
7
G
3
8
8
E
3
8
9
E
3
9
0
C
3
9
1
G
3
9
8
[1]1pfx.l 0g629 . . . . . F . . . Q . * . . . . . . . .
[1]1x7a.l 18737 . . . . . F . . . Q . . . . . . . . . .

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

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PDB.ch
A1
H
2
2
3
N
2
6
6
K
2
6
7
Y
2
6
8
R
3
1
4
V
3
4
4
D
3
6
1
S
3
6
2
C
3
6
3
L
3
6
4
G
3
6
5
S
3
6
7
I
3
8
5
S
3
8
6
W
3
8
7
G
3
8
8
E
3
8
9
E
3
9
0
C
3
9
1
G
3
9
8
[1]1pfx.l . . . * . F . . . Q . * . . . . . . . .
[1]1x7a.l . . . * . F . . . Q . * . . . . . . . .

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
1pfx.l:0g6
1x7a.l:187
[1] 1pfx.l
0.7
3.1
[1] 1x7a.l 3.0
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
1pfx.l
1x7a.l
[1] 1pfx.l
0
.07
[1] 1x7a.l .07
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

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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
1pfx.l
1x7a.l
[1] 1pfx.l
0
0.8
[1] 1x7a.l 0.8
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
1pfx.l
1x7a.l
[1] 1pfx.l
0
1.4
[1] 1x7a.l 1.4
0
[Binding site full-atom RMSD matrix]







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[ENTRY 2D visualization]

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