Target Information

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Target General Information
Drug Binding Sites of Target
Different Human System Profiles of Target
Target Regulators
References
Drug Binding Sites of Target  Top
Ligand Name: Phosphonotyrosine Ligand Info
Structure Description Crystal Structure of T-cell Lymphoma Invasion and Metastasis-1 PDZ in complex with phosphorylated Syndecan1 Peptide PDB:4GVC
Method X-ray diffraction Resolution 1.54 Å Mutation No [2]
PDB Sequence
GAMGKVTHSI
846
HIEKSDTAAD
856
TYGFSLSSVE
866
EDGIRRLYVN
876
SVKETGLASK
886

KGLKAGDEIL
896
EINNRAADAL
906
NSSMLKDFLS
916
QPSLGLLVRT
926
YPEL
Residue
Distance (Å)
THR857
2.878
GLY859
3.992
PHE860
3.279
SER861
3.919
Residue
Distance (Å)
LEU862
4.998
LYS879
3.052
LEU915
4.741
Ligand Name: 5-(Dimethylamino)naphthalene-1-sulfonic acid Ligand Info
Structure Description Crystal Structure of T-cell Lymphoma Invasion and Metastasis-1 PDZ in complex with phosphorylated Syndecan1 Peptide PDB:4GVC
Method X-ray diffraction Resolution 1.54 Å Mutation No [2]
PDB Sequence
GAMGKVTHSI
846
HIEKSDTAAD
856
TYGFSLSSVE
866
EDGIRRLYVN
876
SVKETGLASK
886

KGLKAGDEIL
896
EINNRAADAL
906
NSSMLKDFLS
916
QPSLGLLVRT
926
YPEL
Residue
Distance (Å)
SER863
4.345
VAL865
3.434
Residue
Distance (Å)
GLU867
4.086
TYR874
3.987
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Different Human System Profiles of Target  Top
Human Similarity Proteins of target is determined by comparing the sequence similarity of all human proteins with the target based on BLAST. The similarity proteins for a target are defined as the proteins with E-value < 0.005 and outside the protein families of the target.
A target that has fewer human similarity proteins outside its family is commonly regarded to possess a greater capacity to avoid undesired interactions and thus increase the possibility of finding successful drugs (Brief Bioinform, 21: 649-662, 2020).
Human Tissue Distribution of target is determined from a proteomics study that quantified more than 12,000 genes across 32 normal human tissues. Tissue Specificity (TS) score was used to define the enrichment of target across tissues.
The distribution of targets among different tissues or organs need to be taken into consideration when assessing the target druggability, as it is generally accepted that the wider the target distribution, the greater the concern over potential adverse effects (Nat Rev Drug Discov, 20: 64-81, 2021).
Human Pathway Affiliation of target is determined by the life-essential pathways provided on KEGG database. The target-affiliated pathways were defined based on the following two criteria (a) the pathways of the studied target should be life-essential for both healthy individuals and patients, and (b) the studied target should occupy an upstream position in the pathways and therefore had the ability to regulate biological function.
Targets involved in a fewer pathways have greater likelihood to be successfully developed, while those associated with more human pathways increase the chance of undesirable interferences with other human processes (Pharmacol Rev, 58: 259-279, 2006).
Biological Network Descriptors of target is determined based on a human protein-protein interactions (PPI) network consisting of 9,309 proteins and 52,713 PPIs, which were with a high confidence score of ≥ 0.95 collected from STRING database.
The network properties of targets based on protein-protein interactions (PPIs) have been widely adopted for the assessment of target’s druggability. Proteins with high node degree tend to have a high impact on network function through multiple interactions, while proteins with high betweenness centrality are regarded to be central for communication in interaction networks and regulate the flow of signaling information (Front Pharmacol, 9, 1245, 2018; Curr Opin Struct Biol. 44:134-142, 2017).
Human Similarity Proteins
Human Tissue Distribution
Human Pathway Affiliation
Biological Network Descriptors
Protein Name Pfam ID Percentage of Identity (%) E value
PH and SEC7 domain-containing protein 3 (PSD3)
PF15410 ; 
PF01369
25.581 (55/215) 2.22E-05
PH and SEC7 domain-containing protein 1 (PSD)
PF15410 ; 
PF01369
27.059 (46/170) 6.97E-05
PH and SEC7 domain-containing protein 2 (PSD2)
PF15410 ; 
PF01369
29.268 (36/123) 1.98E-04
Spectrin non-erythroid beta chain 1 (SPTBN1)
PF00307 ; 
PF15410 ; 
PF00435
More >>
 28.713 (29/101) 5.37E-04
PH and SEC7 domain-containing protein 4 (PSD4)
PF15410 ; 
PF01369
28.378 (42/148) 1.00E-03
Note: If a protein has TS (tissue specficity) scores at least in one tissue >= 2.5, this protein is called tissue-enriched (including tissue-enriched-but-not-specific and tissue-specific). In the plots, the vertical lines are at thresholds 2.5 and 4.
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KEGG Pathway Pathway ID Affiliated Target Pathway Map
Ras signaling pathway hsa04014 Affiliated Target
  Class: Environmental Information Processing => Signal transduction Pathway Hierarchy
Rap1 signaling pathway hsa04015 Affiliated Target
  Class: Environmental Information Processing => Signal transduction Pathway Hierarchy
cAMP signaling pathway hsa04024 Affiliated Target
  Class: Environmental Information Processing => Signal transduction Pathway Hierarchy
Chemokine signaling pathway hsa04062 Affiliated Target
  Class: Organismal Systems => Immune system Pathway Hierarchy
Tight junction hsa04530 Affiliated Target
  Class: Cellular Processes => Cellular community - eukaryotes Pathway Hierarchy
Regulation of actin cytoskeleton hsa04810 Affiliated Target
  Class: Cellular Processes => Cell motility Pathway Hierarchy
  Click to Show/Hide the Information of Affiliated Human Pathways
Degree 18 Degree centrality 1.93E-03 Betweenness centrality 5.71E-04
Closeness centrality 2.47E-01 Radiality 1.43E+01 Clustering coefficient 1.76E-01
Neighborhood connectivity 6.06E+01 Topological coefficient 9.55E-02 Eccentricity 12
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