Tbio UBB Polyubiquitin-B

Protein Classes

PANTHER Classes

Protein / Nucleic Acid Binding / Rna Binding Protein / Ribosomal Protein / Polyubiquitin-b

DTO Classes

Protein / Nucleic Acid Binding / Rna Binding Protein / Ribosomal Protein / Polyubiquitin-b

Protein Summary

Description

Ubiquitin: Exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-6-linked may be involved in DNA repair; Lys-11-linked is involved in ERAD (endoplasmic reticulum-associated degradation) and in cell-cycle regulation; Lys-29-linked is involved in lysosomal degradation; Lys-33-linked is involved in kinase modification; Lys-48-linked is involved in protein degradation via the proteasome; Lys-63-linked is involved in endocytosis, DNA-damage responses as well as in signaling processes leading to activation of the transcription factor NF-kappa-B. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling. This gene encodes ubiquitin, one of the most conserved proteins known. Ubiquitin has a major role in targeting cellular proteins for degradation by the 26S proteosome. It is also involved in the maintenance of chromatin structure, the regulation of gene expression, and the stress response. Ubiquitin is synthesized as a precursor protein consisting of either polyubiquitin chains or a single ubiquitin moiety fused to an unrelated protein. This gene consists of three direct repeats of the ubiquitin coding sequence with no spacer sequence. Consequently, the protein is expressed as a polyubiquitin precursor with a final amino acid after the last repeat. An aberrant form of this protein has been detected in patients with Alzheimer's disease and Down syndrome. Pseudogenes of this gene are located on chromosomes 1, 2, 13, and 17. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Aug 2013]

Uniprot Accession IDs

• P0CG47
• P02248
• P02249
• P02250
• P62988
• Q29120
• Q6LBL4
• Q6LDU5
• Q8WYN8
• Q91887
• Q91888
• Q9BWD6
• Q9BX98
• Q9UEF2
• Q9UEG1
• Q9UEK8
• Q9UPK7

Gene Name

• UBB

Ensembl ID

• ENST00000302182
• ENSP00000304697
• ENSG00000170315
• ENST00000395837
• ENSP00000379178
• ENST00000395839
• ENSP00000379180
• ENST00000614404
• ENSP00000478771

Symbol

• HEL-S-50

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
biological process	1
hub protein	1
transcription factor binding site profile	0.98
interacting protein	0.97
cellular component	0.95

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IDG Development Level Summary

Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 147.06   (req: < 5)

Gene RIFs: 26   (req: <= 3)

Antibodies: 608   (req: <= 50)

Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 147.06   (req: >= 5)

Gene RIFs: 26   (req: > 3)

Antibodies: 608   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 61

Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligand: 0

Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0

Orthologs (8)

1 – 5 of 8

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	ubiquitin B		468372
Macaque	ubiquitin B		696110
Mouse	ubiquitin B	MGI:98888	22187
Dog	ubiquitin B	VGNC:49664	479513
Horse	ubiquitin B [Source:HGNC Symbol;Acc:HGNC:12463]

Species	Name	OMA	EggNOG	Inparanoid
Chimp	ubiquitin B
Macaque	ubiquitin B
Mouse	ubiquitin B
Dog	ubiquitin B
Horse	ubiquitin B [Source:HGNC Symbol;Acc:HGNC:12463]

Protein Structure (117 Structures, 1 AlphaFold Model)

Representation

  axes   backbone   ball+stick   cartoon   rocket   rope   spacefill

Color Scheme

  target   atomindex   bfactor   chainname   electrostatic   element   hydrophobicity   resname   sstruc

Click on a row in the table to change the structure displayed.
More information can be found at RCSB PDB

AF-P0CG47-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

1 – 5 of 117

PDB Structure Id	Ligand	Method	Resolution (Å)	Residues	Fraction of Total Protein	Pub Year	Title

PDB Structure Id	Fraction of Total Protein	Resolution	Pub Year

Pathways (336)

Reactome (328)

KEGG (4)

PathwayCommons (1)

WikiPathways (3)

ABC transporter disorders (R-HSA-5619084)

Click on a row in the table to change the structure displayed.

Find Similar Targets

Items per page:

5

1 – 5 of 328

Data Source	Name	Explore in Pharos	Explore in Source
Reactome	ABC transporter disorders	78 targets	R-HSA-5619084
Reactome	ABC-family proteins mediated transport	104 targets	R-HSA-382556
Reactome	APC-Cdc20 mediated degradation of Nek2A	25 targets	R-HSA-179409
Reactome	APC/C-mediated degradation of cell cycle proteins	87 targets	R-HSA-174143
Reactome	APC/C:Cdc20 mediated degradation of Cyclin B	23 targets	R-HSA-174048

Name	Explore in Pharos	Explore in Source
ABC transporter disorders	78 targets	R-HSA-5619084
ABC-family proteins mediated transport	104 targets	R-HSA-382556
APC-Cdc20 mediated degradation of Nek2A	25 targets	R-HSA-179409
APC/C-mediated degradation of cell cycle proteins	87 targets	R-HSA-174143
APC/C:Cdc20 mediated degradation of Cyclin B	23 targets	R-HSA-174048

Gene Ontology Terms (78)

Functions (2)

Components (17)

Processes (59)

Find Similar Targets

Items per page:

10

1 – 2 of 2

GO Term	Evidence	Assigned by
protein tag	Inferred from Biological aspect of Ancestor (IBA)	GO_Central
ubiquitin protein ligase binding	Inferred from Biological aspect of Ancestor (IBA)	GO_Central

Protein-Protein Interactions (1428)

Explore Interacting Targets

1 – 10 of 1428

• See Interactions on String-DB

TNFRSF1A

Tchem

Novelty: 0.00037847

p_int: 0.999998581

p_ni: 0.000001419

Score: 0.912

Data Source: BioPlex,STRINGDB

RNF126

Tbio

Family: Enzyme

Novelty: 0.08123801

p_int: 0.999996673

p_ni: 0.000003327

Score: 0.932

Data Source: BioPlex,STRINGDB

EPN3

Tbio

Novelty: 0.12685855

p_int: 0.999992406

p_ni: 0.000007594

Score: 0.418

Data Source: BioPlex,STRINGDB

CTLA4

Tclin

Novelty: 0.00012781

p_int: 0.999983327

p_ni: 0.000011709

p_wrong: 0.000004965

Data Source: BioPlex

UBE2E3

Tbio

Novelty: 0.03477232

p_int: 0.999975722

p_ni: 0.000024278

Score: 0.946

Data Source: BioPlex,STRINGDB

SCN1B

Tbio

Family: IC

Novelty: 0.00910273

p_int: 0.999971749

p_ni: 0.000027894

p_wrong: 3.58e-7

Data Source: BioPlex

TMEM31

Tdark

Novelty: 0.65381391

p_int: 0.999939253

p_ni: 0.000060565

p_wrong: 1.82e-7

Data Source: BioPlex

OR2G6

Tdark

Family: oGPCR

p_int: 0.999912792

p_ni: 0.000079655

p_wrong: 0.000007554

Data Source: BioPlex

LTBR

Tbio

Novelty: 0.003823

p_int: 0.999908455

p_ni: 0.000091545

Data Source: BioPlex

RNF19B

Tbio

Family: Enzyme

Novelty: 0.20054824

p_int: 0.999897162

p_ni: 0.000102838

Score: 0.92

Data Source: BioPlex,STRINGDB

Publication Statistics

PubMed Score  147.06

PubMed score by year

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PubTator Score  36.35

PubTator score by year

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Amino Acid Sequence

Residue Counts

Protein Sequence

Show Full Sequence

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UniProt Keyword Find Similar Targets

3D-structure
ADP-ribosylation
Complete proteome
Cytoplasm
Direct protein sequencing
Isopeptide bond
Nucleus
Phosphoprotein
Reference proteome
Repeat

MGI Phenotype Find Similar Targets

adipose tissue phenotype
behavior/neurological phenotype
cellular phenotype
endocrine/exocrine gland phenotype
growth/size/body region phenotype
homeostasis/metabolism phenotype
nervous system phenotype
reproductive system phenotype