Tbio LIN28B Protein lin-28 homolog B

Protein Classes

PANTHER Classes

Protein / ... / Dna Binding Protein / Protein Lin-28 Homolog B

Protein Summary

Description

Suppressor of microRNA (miRNA) biogenesis, including that of let-7 and possibly of miR107, miR-143 and miR-200c. Binds primary let-7 transcripts (pri-let-7), including pri-let-7g and pri-let-7a-1, and sequester them in the nucleolus, away from the microprocessor complex, hence preventing their processing into mature miRNA (PubMed:22118463). Does not act on pri-miR21 (PubMed:22118463). The repression of let-7 expression is required for normal development and contributes to maintain the pluripotent state of embryonic stem cells by preventing let-7-mediated differentiation. When overexpressed, recruits ZCCHC11/TUT4 uridylyltransferase to pre-let-7 transcripts, leading to their terminal uridylation and degradation (PubMed:19703396). This activity might not be relevant in vivo, as LIN28B-mediated inhibition of let-7 miRNA maturation appears to be ZCCHC11-independent (PubMed:22118463). Interaction with target pre-miRNAs occurs via an 5'-GGAG-3' motif in the pre-miRNA terminal loop. Mediates MYC-induced let-7 repression (By similarity). When overexpressed, isoform 1 stimulates growth of the breast adenocarcinoma cell line MCF-7. Isoform 2 has no effect on cell growth. The protein encoded by this gene belongs to the lin-28 family, which is characterized by the presence of a cold-shock domain and a pair of CCHC zinc finger domains. This gene is highly expressed in testis, fetal liver, placenta, and in primary human tumors and cancer cell lines. It is negatively regulated by microRNAs that target sites in the 3' UTR, and overexpression of this gene in primary tumors is linked to the repression of let-7 family of microRNAs and derepression of let-7 targets, which facilitates cellular transformation. [provided by RefSeq, Jun 2012]

Uniprot Accession IDs

• Q6ZN17
• A1L165
• B2RPN6
• Q5TCM4
• Lin-28B

Gene Name

• LIN28B

Ensembl ID

• ENST00000345080
• ENSP00000344401
• ENSG00000187772

Symbol

• CSDD2
• CSDD2

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
microRNA	0.9
gene perturbation	0.86
trait	0.75
interacting protein	0.67
biological term	0.61

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: 149.05   (req: < 5)

Gene RIFs: 89   (req: <= 3)

Antibodies: 279   (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: 149.05   (req: >= 5)

Gene RIFs: 89   (req: > 3)

Antibodies: 279   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 7

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

Protein Data Bank (1)

1 – 1 of 1

PDB Structure Id	Ligand	Method	Resolution (Å)	M.W. (kDa)	Pub Year	Title

PDB Structure Id	M.W.	Resolution	Pub Year

Pathways (67)

PathwayCommons (1)

WikiPathways (66)

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5

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Data Source	Name	Explore in Pharos	Explore in Source
PathwayCommons: pid	Validated targets of C-MYC transcriptional activation	80 targets	PathwayCommons: pid

Name	Explore in Pharos	Explore in Source
Validated targets of C-MYC transcriptional activation	80 targets	PathwayCommons: pid

Gene Ontology Terms (10)

Functions (3)

Components (3)

Processes (4)

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10

1 – 3 of 3

GO Term	Evidence	Assigned by
RNA binding	Inferred from Direct Assay (IDA)	UniProtKB
DNA binding	Inferred from Electronic Annotation (IEA)	InterPro
zinc ion binding	Inferred from Electronic Annotation (IEA)	InterPro

Protein-Protein Interactions (74)

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1 – 10 of 74

• See Interactions on String-DB

ZC3HAV1

Tbio

Novelty: 0.01794897

p_int: 0.804825757

p_ni: 0.195174242

p_wrong: 1e-9

Score: 0.181

Data Source: BioPlex,STRINGDB

SURF2

Tdark

Novelty: 0.15957447

p_int: 0.77557109

p_ni: 0.22442891

Score: 0.204

Data Source: BioPlex,STRINGDB

TUT4

Tbio

Family: Enzyme

Novelty: 0.0498615

Score: 0.905

Data Source: STRINGDB

TRIM71

Tbio

Family: Enzyme

Novelty: 0.01727233

Score: 0.881

Data Source: STRINGDB

DIS3L2

Tbio

Family: Enzyme

Novelty: 0.0352418

Score: 0.861

Data Source: STRINGDB

HMGA2

Tbio

Family: TF

Novelty: 0.00091535

Score: 0.818

Data Source: STRINGDB

SOX2

Tbio

Family: TF

Novelty: 0.00050367

Score: 0.816

Data Source: STRINGDB

IGF2BP1

Tbio

Novelty: 0.01140984

Score: 0.8

Data Source: STRINGDB

DICER1

Tbio

Family: Enzyme

Novelty: 0.00042715

Score: 0.796

Data Source: STRINGDB

TUT7

Tbio

Family: Enzyme

Novelty: 0.04755525

Score: 0.784

Data Source: STRINGDB

Publication Statistics

PubMed Score  149.05

PubMed score by year

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PubTator Score  116.51

PubTator score by year

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Amino Acid Sequence

Residue Counts

Protein Sequence

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3D-structure
Alternative splicing
Complete proteome
Cytoplasm
Metal-binding
Nucleus
Phosphoprotein
Reference proteome
Repeat
RNA-binding

GWAS Trait Find Similar Targets

age at menarche
age at voice drop
anthropometric measurement
appendicular lean mass
BMI-adjusted hip circumference
BMI-adjusted waist circumference
body fat distribution
body height
creatine kinase measurement
depressive symptom measurement

MGI Phenotype Find Similar Targets

behavior/neurological phenotype
cardiovascular system phenotype
cellular phenotype
digestive/alimentary phenotype
endocrine/exocrine gland phenotype
growth/size/body region phenotype
hematopoietic system phenotype
homeostasis/metabolism phenotype
immune system phenotype
integument phenotype