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ELOC elongin C [ Homo sapiens (human) ]

Gene ID: 6921, updated on 6-Jan-2019

Summary

Official Symbol
ELOCprovided by HGNC
Official Full Name
elongin Cprovided by HGNC
Primary source
HGNC:HGNC:11617
See related
Ensembl:ENSG00000154582 MIM:600788
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
SIII; TCEB1
Summary
This gene encodes the protein elongin C, which is a subunit of the transcription factor B (SIII) complex. The SIII complex is composed of elongins A/A2, B and C. It activates elongation by RNA polymerase II by suppressing transient pausing of the polymerase at many sites within transcription units. Elongin A functions as the transcriptionally active component of the SIII complex, whereas elongins B and C are regulatory subunits. Elongin A2 is specifically expressed in the testis, and capable of forming a stable complex with elongins B and C. The von Hippel-Lindau tumor suppressor protein binds to elongins B and C, and thereby inhibits transcription elongation. Multiple alternatively spliced transcript variants encoding two distinct isoforms have been identified. [provided by RefSeq, Mar 2011]
Expression
Ubiquitous expression in testis (RPKM 15.6), brain (RPKM 14.4) and 25 other tissues See more
Orthologs

Genomic context

See ELOC in Genome Data Viewer
Location:
8q21.11
Exon count:
9
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 8 NC_000008.11 (73945138..73972287, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (74857373..74884522, complement)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 1617 Neighboring gene glycogenin 1 pseudogene 1 Neighboring gene transmembrane protein 70 Neighboring gene ribosomal protein S20 pseudogene 21 Neighboring gene DSTN pseudogene 3

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 FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Meta-analysis of genome-wide association studies of attention-deficit/hyperactivity disorder.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Vif vif HIV-1 complexes with TCEB1 (ELOC) PubMed
vif HIV-1 Vif interacts with TCEB1 (Elongin C) as demonstrated by co-immunoprecipitation assay PubMed
vif ASK1 inhibits the interaction of HIV-1 Vif with ELOB/C in a dose-dependent manner, whereas no significant change is observed in the binding of Vif with CUL5 or CBFbeta PubMed
vif ASK1 markedly inhibits HIV-1 Vif-induced ubiquitination of APOBEC3G by a reduction in the Vif-ELOC interaction PubMed
vif HIV-1 Vif, CBF-beta, CUL5, and ELOB/C form a complex that is required for Vif-mediated downregulation of A3G and A3F. CBF-beta regulates HIV-1 infectivity only in the presence of A3G PubMed
vif An overall crystal structure indicates that the Vif-CBF-beta-CUL5-ELOB-ELOC complex has a U-shape architecture, including the two straight arms Vif-CBF-beta and CUL5 and the bent arm formation between ELOC and CUL5 and Vif interactions PubMed
vif Mutations in HIV-1 Vif PPLP motif (amino acids 161-164) reduces Vif binding to A3G without affecting its interaction with ElonginC and Cullin5 PubMed
vif HIV-1 Vif (amino acids 144-149; SLQXLA motif) interacts with cellular proteins Cul5, elongins B and C, and Rbx1 to form an Skp1-Cullin-F-box (SCF)-like complex that allows Vif to interact with APOBEC3G and induce its ubiquitination and degradation PubMed
vif NMR solution structure indicates that HIV-1 Vif residues L145, A149, and L150 and ELOC residues A99 and L103 are involved in the interaction between Vif and ELOC PubMed
vif Mutagenesis analysis indicates that HIV-1 Vif residues T123, R127, L145, and A149 and ELOC residues A100, L101, and L104 are involved in the interaction between Vif and ELOC PubMed
vif Simultaneous substitution of the three Vif-interacting residues L52, W53, and D55 and the two ELOC-interacting residues P41 and H48 in CUL5 impairs the ability of CUL5 to interact with the Vif-CBF-beta-ELOB-ELOC protein complex PubMed
vif The absence of Vif-CBF-beta reduces the interaction between the CUL5 and the EloC-EloB complex, indicating that the former two proteins have a critical role in promoting assembly of the pentameric complex PubMed
vif Amino acid residues Vif135-158 have the most binding to the Elongin BC complex and undergo a structural change in the presence of Elongin BC PubMed
vif The solubility of HIV-1 Vif is significantly enhanced by co-expression of EloB, EloC, and CBF-beta in vitro PubMed
vif The substitution of Leu64 or Ile66 with serine abolishes the ability of CBF-beta to interact with the Vif-EloB/EloC complex, while the substitution of Thr68 or Tyr69 with alanine has an intermediate effect on the interaction of CBF-beta with the complex PubMed
vif The interaction of HIV-1 Vif with EloB/EloC complex is important for the binding of Vif to CBF-beta in cells. The Vif SOCS box mutant (SLQ to AAA) significantly disrupt its interaction with the EloB/EloC complex PubMed
vif A potent small molecular compound VEC-5 protects APOBEC3G, APOBEC3F, and APOBEC3C from HIV-1 Vif-induced degradation and enhances A3G incorporation into HIV-1 virions by inhibiting the interaction between Vif and elongin C PubMed
vif CUL5/RBX2/ELOB/ELOC/Vif/CBF-beta complex catalyzes polyubiquitin chain formation on A3G in the presence of ubiquitin E2 UBE2R1 (CDC34) or UBCH5b (UBE2D2) PubMed
vif HIV-1 Vif binding to ElonginC is negatively regulated by serine phosphorylation in the BC-box of the Vif SOCS-box motif, and mutating amino acid S144 in Vif prevents phosphorylation at this site, significantly impairing Vif function and viral replication PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
contributes_to ubiquitin-protein transferase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
cytosol TAS
Traceable Author Statement
more info
 
elongin complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleoplasm TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
elongin-C
Names
RNA polymerase II transcription factor SIII subunit C
SIII p15
elongin 15 kDa subunit
transcription elongation factor B (SIII), polypeptide 1 (15kDa, elongin C)
transcription elongation factor B polypeptide 1
transcription elongation factor B subunit 1

NCBI Reference Sequences (RefSeq)

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.

mRNA and Protein(s)

  1. NM_001204857.1NP_001191786.1  elongin-C isoform a

    See identical proteins and their annotated locations for NP_001191786.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the 5' UTR compared to variant 1. Variants 1-7 encode the same protein (isoform a).
    Source sequence(s)
    AK057889, AL832244
    Consensus CDS
    CCDS34910.1
    UniProtKB/Swiss-Prot
    Q15369
    UniProtKB/TrEMBL
    A0A024R7Y5
    Related
    ENSP00000428334.1, ENST00000518127.5
    Conserved Domains (1) summary
    smart00512
    Location:16112
    Skp1; Found in Skp1 protein family
  2. NM_001204858.1NP_001191787.1  elongin-C isoform a

    See identical proteins and their annotated locations for NP_001191787.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) includes an alternate exon in the 5' UTR compared to variant 1. Variants 1-7 encode the same protein (isoform a).
    Source sequence(s)
    AK057889, BG428202, BG767430, DA537957
    Consensus CDS
    CCDS34910.1
    UniProtKB/Swiss-Prot
    Q15369
    UniProtKB/TrEMBL
    A0A024R7Y5
    Conserved Domains (1) summary
    smart00512
    Location:16112
    Skp1; Found in Skp1 protein family
  3. NM_001204859.1NP_001191788.1  elongin-C isoform a

    See identical proteins and their annotated locations for NP_001191788.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) includes an alternate exon in the 5' UTR compared to variant 1. Variants 1-7 encode the same protein (isoform a).
    Source sequence(s)
    AK057889, BG428202, BG767430
    Consensus CDS
    CCDS34910.1
    UniProtKB/Swiss-Prot
    Q15369
    UniProtKB/TrEMBL
    A0A024R7Y5
    Conserved Domains (1) summary
    smart00512
    Location:16112
    Skp1; Found in Skp1 protein family
  4. NM_001204860.1NP_001191789.1  elongin-C isoform a

    See identical proteins and their annotated locations for NP_001191789.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR compared to variant 1. Variants 1-7 encode the same protein (isoform a).
    Source sequence(s)
    AK057889, BG428202, CX166843
    Consensus CDS
    CCDS34910.1
    UniProtKB/Swiss-Prot
    Q15369
    UniProtKB/TrEMBL
    A0A024R7Y5
    Conserved Domains (1) summary
    smart00512
    Location:16112
    Skp1; Found in Skp1 protein family
  5. NM_001204861.1NP_001191790.1  elongin-C isoform a

    See identical proteins and their annotated locations for NP_001191790.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) differs in the 5' UTR compared to variant 1. Variants 1-7 encode the same protein (isoform a).
    Source sequence(s)
    AK057889, BM720777
    Consensus CDS
    CCDS34910.1
    UniProtKB/Swiss-Prot
    Q15369
    UniProtKB/TrEMBL
    A0A024R7Y5
    Related
    ENSP00000428074.1, ENST00000523815.5
    Conserved Domains (1) summary
    smart00512
    Location:16112
    Skp1; Found in Skp1 protein family
  6. NM_001204862.1NP_001191791.1  elongin-C isoform a

    See identical proteins and their annotated locations for NP_001191791.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) differs in the 5' UTR compared to variant 1. Variants 1-7 encode the same protein (isoform a).
    Source sequence(s)
    AK057889, BM720777, CX166168
    Consensus CDS
    CCDS34910.1
    UniProtKB/Swiss-Prot
    Q15369
    UniProtKB/TrEMBL
    A0A024R7Y5
    Related
    ENSP00000478121.1, ENST00000622804.1
    Conserved Domains (1) summary
    smart00512
    Location:16112
    Skp1; Found in Skp1 protein family
  7. NM_001204863.1NP_001191792.1  elongin-C isoform b

    See identical proteins and their annotated locations for NP_001191792.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (8) lacks an internal exon that results in use of a downstream start codon compared to variant 1. The resulting protein (isoform b) has a shorter N-terminus compared to isoform a. Variants 8 and 9 encode the same protein.
    Source sequence(s)
    AK057889, BG428202, BG703267, BX649138
    Consensus CDS
    CCDS56539.1
    UniProtKB/Swiss-Prot
    Q15369
    Related
    ENSP00000430224.1, ENST00000520210.1
    Conserved Domains (1) summary
    smart00512
    Location:196
    Skp1; Found in Skp1 protein family
  8. NM_001204864.1NP_001191793.1  elongin-C isoform b

    See identical proteins and their annotated locations for NP_001191793.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (9) lacks an internal segment in the 5' region that results in use of downstream start codon compared to variant 1. The resulting protein (isoform b) has a shorter N-terminus compared to isoform a. Variants 8 and 9 encode the same protein.
    Source sequence(s)
    AK057889, BG428202, CF129635
    Consensus CDS
    CCDS56539.1
    UniProtKB/Swiss-Prot
    Q15369
    Conserved Domains (1) summary
    smart00512
    Location:196
    Skp1; Found in Skp1 protein family
  9. NM_005648.3NP_005639.1  elongin-C isoform a

    See identical proteins and their annotated locations for NP_005639.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the predominant transcript. Variants 1-7 encode the same protein (isoform a).
    Source sequence(s)
    AK057889, BG428202, BM821650
    Consensus CDS
    CCDS34910.1
    UniProtKB/Swiss-Prot
    Q15369
    UniProtKB/TrEMBL
    A0A024R7Y5
    Related
    ENSP00000428171.1, ENST00000520242.5
    Conserved Domains (1) summary
    smart00512
    Location:16112
    Skp1; Found in Skp1 protein family

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000008.11 Reference GRCh38.p12 Primary Assembly

    Range
    73945138..73972287 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011517581.2XP_011515883.1  elongin-C isoform X1

    See identical proteins and their annotated locations for XP_011515883.1

    UniProtKB/Swiss-Prot
    Q15369
    UniProtKB/TrEMBL
    A0A024R7Y5
    Related
    ENSP00000284811.8, ENST00000284811.12
    Conserved Domains (1) summary
    smart00512
    Location:16112
    Skp1; Found in Skp1 protein family
  2. XM_011517580.2XP_011515882.1  elongin-C isoform X1

    See identical proteins and their annotated locations for XP_011515882.1

    UniProtKB/Swiss-Prot
    Q15369
    UniProtKB/TrEMBL
    A0A024R7Y5
    Related
    ENSP00000429906.1, ENST00000522337.5
    Conserved Domains (1) summary
    smart00512
    Location:16112
    Skp1; Found in Skp1 protein family
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