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TUBB3 tubulin beta 3 class III [ Homo sapiens (human) ]

Gene ID: 10381, updated on 7-Apr-2024

Summary

Official Symbol
TUBB3provided by HGNC
Official Full Name
tubulin beta 3 class IIIprovided by HGNC
Primary source
HGNC:HGNC:20772
See related
Ensembl:ENSG00000258947 MIM:602661; AllianceGenome:HGNC:20772
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CDCBM; FEOM3; TUBB4; CDCBM1; CFEOM3; beta-4; CFEOM3A
Summary
This gene encodes a class III member of the beta tubulin protein family. Beta tubulins are one of two core protein families (alpha and beta tubulins) that heterodimerize and assemble to form microtubules. This protein is primarily expressed in neurons and may be involved in neurogenesis and axon guidance and maintenance. Mutations in this gene are the cause of congenital fibrosis of the extraocular muscles type 3. Alternate splicing results in multiple transcript variants. A pseudogene of this gene is found on chromosome 6. [provided by RefSeq, Oct 2010]
Expression
Broad expression in brain (RPKM 82.3), testis (RPKM 29.3) and 18 other tissues See more
Orthologs
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Genomic context

Location:
16q24.3
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (89921925..89936097)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (96008170..96022338)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (89988333..90002505)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7929 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:89945913-89946582 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_46826 Neighboring gene transcription factor 25 Neighboring gene Sharpr-MPRA regulatory region 15702 Neighboring gene keratin-associated protein 5-1-like Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:89978467-89978968 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:89978969-89979468 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:89984039-89984924 Neighboring gene H3K27ac-H3K4me1 hESC enhancers GRCh37_chr16:89984925-89985808 and GRCh37_chr16:89985809-89986692 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:89986693-89987576 Neighboring gene Sharpr-MPRA regulatory region 7867 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7932 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:89991680-89992580 Neighboring gene melanocortin 1 receptor Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11428 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11429 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7934 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11430 Neighboring gene small nucleolar RNA, H/ACA box 119 Neighboring gene differentially expressed in FDCP 8 homolog Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11431 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:90039036-90040019 Neighboring gene CENPB DNA-binding domain containing 1, pseudogene

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 ADA, IIIB, and MN Env (gp120) binds to TUBB3 (tubulin beta-3), which can be inhibited by a small peptide (Helix-A) derived from gp120 PubMed
Envelope surface glycoprotein gp160, precursor env Treatment of cells with actin-depolymerizing agents or tubulin polymerization inhibitors largely reduces the percentage of cells with capped HIV-1 Gag and Env, indicating an intact actin and tubulin cytoskeleton is required for efficient assembly of HIV-1 PubMed
Pr55(Gag) gag Treatment of cells with actin-depolymerizing agents or tubulin polymerization inhibitors largely reduces the percentage of cells with capped HIV-1 Gag and Env, indicating an intact actin and tubulin cytoskeleton is required for efficient assembly of HIV-1 PubMed
Rev rev HIV-1 Rev interacting protein, TUBB3, is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells PubMed
rev Rev acts to depolymerize microtubules that are formed by tubulin, an effect that is observed during HIV-1 infection PubMed
Tat tat HIV-1 Tat K29A, K50R, and K51R lysine mutations downregulate the proportion of soluble tubulin in cells, while the majority of other lysine mutations upregulate the percentage of soluble tubulin compared with the wild-type PubMed
tat In Jurkat cells expressing HIV-1 Tat, decreased expression levels are found for basic cytoskeletal proteins such as actin, beta-tubulin, annexin, cofilin, gelsolin, and Rac/Rho-GDI complex PubMed
tat HIV-1 Tat (specifically, amino acids 38-72), enhances tubulin polymerization and triggers the mitochondrial pathway to induce T cell apoptosis as shown in vitro by the release of cytochrome c from isolated mitochondria PubMed
tat HIV-1 Tat (amino acids 36-39) binds tubulin alpha/beta dimers and polymerized microtubules leading to the alteration of microtubule dynamics and activation of a mitochondria-dependent apoptotic pathway that is facilitated by the Bcl-2 relative Bim PubMed
Vpr vpr Concurrent exposure of HIV-1 Vpr with HCV core protein causes significantly increased human fetal neuron (HFN) injury, as indicated by reduced beta-III-tubulin, than HFN treated with HIV-1 Vpr alone PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables GTP binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables GTP binding IDA
Inferred from Direct Assay
more info
PubMed 
enables GTPase activity IEA
Inferred from Electronic Annotation
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables netrin receptor binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables peptide binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables structural constituent of cytoskeleton IBA
Inferred from Biological aspect of Ancestor
more info
 
enables structural constituent of cytoskeleton IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
involved_in axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in axon guidance IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in axon guidance ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in dorsal root ganglion development IDA
Inferred from Direct Assay
more info
PubMed 
involved_in microtubule cytoskeleton organization IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in microtubule cytoskeleton organization IDA
Inferred from Direct Assay
more info
PubMed 
involved_in mitotic cell cycle IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in netrin-activated signaling pathway IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in axon ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in cell periphery IEA
Inferred from Electronic Annotation
more info
 
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in dendrite ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in extracellular exosome HDA PubMed 
located_in filopodium ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in growth cone ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in intercellular bridge IDA
Inferred from Direct Assay
more info
 
located_in lamellipodium ISS
Inferred from Sequence or Structural Similarity
more info
 
is_active_in microtubule IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in microtubule IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in microtubule cytoskeleton IDA
Inferred from Direct Assay
more info
PubMed 
located_in microtubule cytoskeleton IDA
Inferred from Direct Assay
more info
 
located_in mitotic spindle IDA
Inferred from Direct Assay
more info
 
located_in neuronal cell body IEA
Inferred from Electronic Annotation
more info
 
located_in nucleus HDA PubMed 

General protein information

Preferred Names
tubulin beta-3 chain
Names
class III beta-tubulin
tubulin beta-4 chain
tubulin beta-III
tubulin, beta 3

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_027810.1 RefSeqGene

    Range
    6334..19089
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001197181.2NP_001184110.1  tubulin beta-3 chain isoform 2

    See identical proteins and their annotated locations for NP_001184110.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (2) is shorter at the N-terminus, compared to isoform 1.
    Source sequence(s)
    AC092143, AK292219, BC003021
    Consensus CDS
    CCDS56012.1
    UniProtKB/TrEMBL
    Q9BV28
    Related
    ENSP00000451617.1, ENST00000554444.5
    Conserved Domains (1) summary
    PLN00220
    Location:1375
    PLN00220; tubulin beta chain; Provisional
  2. NM_006086.4NP_006077.2  tubulin beta-3 chain isoform 1

    See identical proteins and their annotated locations for NP_006077.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AK223039, BC003021, DA054466
    Consensus CDS
    CCDS10988.1
    UniProtKB/Swiss-Prot
    A8K854, Q13509, Q9BTZ0, Q9BW10
    UniProtKB/TrEMBL
    B2RBD5, Q53G92
    Related
    ENSP00000320295.7, ENST00000315491.12
    Conserved Domains (1) summary
    PLN00220
    Location:1447
    PLN00220; tubulin beta chain; Provisional

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    89921925..89936097
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    96008170..96022338
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)