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US28_HCMVA_1_354_Galpha

G-protein coupled receptor homolog US28 [G-protein coupled receptor 1 family]

Composition of the binding site

Protein chains monomer
A1 (US28_HCMVA):129, 133, 214, 215, 218, 220, 222, 225, 226, 229, 230, 295:306129, 133, 214, 215, 218, 220, 222, 225, 226, 229, 230, 295:306

Full PDB list

4xt1, 4xt3

Pocket contact map

[download in TSV format]
   
PDB.ch
   
ligand
A1
R
1
2
9
I
1
3
3
I
2
1
4
V
2
1
5
S
2
1
8
S
2
2
0
H
2
2
2
R
2
2
5
I
2
2
6
V
2
2
9
L
2
3
0
G
2
9
5
T
2
9
6
K
2
9
7
F
2
9
8
[1]4xt1.a FT-ETIVEE67 . . . . . . . . . . . . . . .
[2]4xt3.a none . . . . . . . . . . . . . . .

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
R
1
2
9
I
1
3
3
I
2
1
4
V
2
1
5
S
2
1
8
S
2
2
0
H
2
2
2
R
2
2
5
I
2
2
6
V
2
2
9
L
2
3
0
G
2
9
5
T
2
9
6
K
2
9
7
F
2
9
8
R
2
9
9
Q
3
0
0
E
3
0
1
L
3
0
2
H
3
0
3
C
3
0
4
L
3
0
5
L
3
0
6
[1]4xt1.a . . . . . . . . . . . . . . . . . . . . . . .
[2]4xt3.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
4xt1.a:FT-ETIVEE
4xt3.a is apo
[1] 4xt1.a
0.1
-
[2] 4xt3.a 16
-
[Pocket-ligand steric clashes matrix]

Pocket clash dissimilarity (2 clusters)

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
4xt1.a
4xt3.a
[1] 4xt1.a
0
.68
[2] 4xt3.a .68
0
[Pocket clash dissimilarity matrix]

Site backbone RMSD (median 7.2 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
4xt1.a
4xt3.a
[1] 4xt1.a
0
15
[2] 4xt3.a 15
0
[Binding site backbone RMSD matrix]

Site full-atom RMSD (median 7.7 Å)

Pockets (x) vs pockets (y) colored by RMSD of all site residue 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
4xt1.a
4xt3.a
[1] 4xt1.a
0
14
[2] 4xt3.a 14
0
[Binding site full-atom RMSD matrix]







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[ENTRY 2D visualization]

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