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WDR5 WD repeat domain 5 [ Homo sapiens (human) ]

Gene ID: 11091, updated on 6-Jan-2019

Summary

Official Symbol
WDR5provided by HGNC
Official Full Name
WD repeat domain 5provided by HGNC
Primary source
HGNC:HGNC:12757
See related
Ensembl:ENSG00000196363 MIM:609012
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
SWD3; BIG-3; CFAP89
Summary
This gene encodes a member of the WD repeat protein family. WD repeats are minimally conserved regions of approximately 40 amino acids typically bracketed by gly-his and trp-asp (GH-WD), which may facilitate formation of heterotrimeric or multiprotein complexes. Members of this family are involved in a variety of cellular processes, including cell cycle progression, signal transduction, apoptosis, and gene regulation. This protein contains 7 WD repeats. Alternatively spliced transcript variants encoding the same protein have been identified. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in testis (RPKM 24.2), skin (RPKM 8.5) and 25 other tissues See more
Orthologs

Genomic context

See WDR5 in Genome Data Viewer
Location:
9q34.2
Exon count:
16
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 9 NC_000009.12 (134135382..134159972)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (137000801..137025094)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene bromodomain containing 3 Neighboring gene uncharacterized LOC100130548 Neighboring gene ADP ribosylation factor 4 pseudogene 1 Neighboring gene RNA, U6atac small nuclear (U12-dependent splicing) Neighboring gene uncharacterized LOC107987137

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?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Tat tat Three components (Setd1A, CXXC1, WDR5) of the Set1 histone methyltransferase complex are identified to interact with HIV-1 Tat in Jurkat cell PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Activation of HOX genes during differentiation, organism-specific biosystem (from REACTOME)
    Activation of HOX genes during differentiation, organism-specific biosystemHox genes encode proteins that contain the DNA-binding homeobox motif and control early patterning of segments in the embryo as well as later events in development (reviewed in Rezsohazy et al. 2015)...
  • Activation of anterior HOX genes in hindbrain development during early embryogenesis, organism-specific biosystem (from REACTOME)
    Activation of anterior HOX genes in hindbrain development during early embryogenesis, organism-specific biosystemIn mammals, anterior Hox genes may be defined as paralog groups 1 to 4 (Natale et al. 2011), which are involved in development of the hindbrain through sequential expression in the rhombomeres, trans...
  • Chromatin modifying enzymes, organism-specific biosystem (from REACTOME)
    Chromatin modifying enzymes, organism-specific biosystemEukaryotic DNA is associated with histone proteins and organized into a complex nucleoprotein structure called chromatin. This structure decreases the accessibility of DNA but also helps to protect i...
  • Chromatin organization, organism-specific biosystem (from REACTOME)
    Chromatin organization, organism-specific biosystemChromatin organization refers to the composition and conformation of complexes between DNA, protein and RNA. It is determined by processes that result in the specification, formation or maintenance o...
  • Circadian rhythm pathway, organism-specific biosystem (from Pathway Interaction Database)
    Circadian rhythm pathway, organism-specific biosystem
    Circadian rhythm pathway
  • Developmental Biology, organism-specific biosystem (from REACTOME)
    Developmental Biology, organism-specific biosystemAs a first step towards capturing the array of processes by which a fertilized egg gives rise to the diverse tissues of the body, examples of three kinds of processes have been annotated. These are a...
  • HATs acetylate histones, organism-specific biosystem (from REACTOME)
    HATs acetylate histones, organism-specific biosystemHistone acetyltransferases (HATs) involved in histone modifications are referred to as A-type or nuclear HATs. They can be grouped into at least four families based on sequence conservation within th...
  • PKMTs methylate histone lysines, organism-specific biosystem (from REACTOME)
    PKMTs methylate histone lysines, organism-specific biosystemLysine methyltransferases (KMTs) and arginine methyltransferases (RMTs) have a common mechanism of catalysis. Both families transfer a methyl group from a common donor, S-adenosyl-L-methionine (SAM),...
  • RMTs methylate histone arginines, organism-specific biosystem (from REACTOME)
    RMTs methylate histone arginines, organism-specific biosystemArginine methylation is a common post-translational modification; around 2% of arginine residues are methylated in rat liver nuclei (Boffa et al. 1977). Arginine can be methylated in 3 different ways...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Process Evidence Code Pubs
histone H3 acetylation IDA
Inferred from Direct Assay
more info
PubMed 
histone H3-K4 methylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
histone H3-K4 methylation IDA
Inferred from Direct Assay
more info
PubMed 
histone H4-K16 acetylation IDA
Inferred from Direct Assay
more info
PubMed 
histone H4-K5 acetylation IDA
Inferred from Direct Assay
more info
PubMed 
histone H4-K8 acetylation IDA
Inferred from Direct Assay
more info
PubMed 
neuron projection development IEA
Inferred from Electronic Annotation
more info
 
positive regulation of gluconeogenesis by positive regulation of transcription from RNA polymerase II promoter IEA
Inferred from Electronic Annotation
more info
 
post-translational protein modification TAS
Traceable Author Statement
more info
 
regulation of megakaryocyte differentiation TAS
Traceable Author Statement
more info
 
skeletal system development IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
Ada2/Gcn5/Ada3 transcription activator complex IDA
Inferred from Direct Assay
more info
PubMed 
MLL1 complex IDA
Inferred from Direct Assay
more info
PubMed 
MLL3/4 complex IDA
Inferred from Direct Assay
more info
PubMed 
Set1C/COMPASS complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Set1C/COMPASS complex IDA
Inferred from Direct Assay
more info
PubMed 
histone acetyltransferase complex IDA
Inferred from Direct Assay
more info
PubMed 
histone methyltransferase complex IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
WD repeat-containing protein 5
Names
BMP2-induced 3-kb gene protein
SWD3, Set1c WD40 repeat protein, homolog
cilia and flagella associated protein 89

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.

Genomic

  1. NG_047125.1 RefSeqGene

    Range
    5410..29294
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_017588.2NP_060058.1  WD repeat-containing protein 5

    See identical proteins and their annotated locations for NP_060058.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. The two variants encode the same protein.
    Source sequence(s)
    AA490313, AK000552, BC029769, BG773451
    Consensus CDS
    CCDS6981.1
    UniProtKB/Swiss-Prot
    P61964
    Related
    ENSP00000351446.3, ENST00000358625.3
    Conserved Domains (2) summary
    cd00200
    Location:37331
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    sd00039
    Location:4885
    7WD40; WD40 repeat [structural motif]
  2. NM_052821.3NP_438172.1  WD repeat-containing protein 5

    See identical proteins and their annotated locations for NP_438172.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. The two variants encode the same protein.
    Source sequence(s)
    AA490313, AJ011376, AK000552, BC029769
    Consensus CDS
    CCDS6981.1
    UniProtKB/Swiss-Prot
    P61964
    Conserved Domains (2) summary
    cd00200
    Location:37331
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    sd00039
    Location:4885
    7WD40; WD40 repeat [structural motif]

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_000009.12 Reference GRCh38.p12 Primary Assembly

    Range
    134135382..134159972
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024447393.1XP_024303161.1  WD repeat-containing protein 5 isoform X1

    Conserved Domains (2) summary
    cd00200
    Location:37331
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    sd00039
    Location:4885
    7WD40; WD40 repeat [structural motif]
  2. XM_005272163.2XP_005272220.1  WD repeat-containing protein 5 isoform X1

    See identical proteins and their annotated locations for XP_005272220.1

    UniProtKB/Swiss-Prot
    P61964
    Conserved Domains (2) summary
    cd00200
    Location:37331
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    sd00039
    Location:4885
    7WD40; WD40 repeat [structural motif]
  3. XM_024447395.1XP_024303163.1  WD repeat-containing protein 5 isoform X1

    Conserved Domains (2) summary
    cd00200
    Location:37331
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    sd00039
    Location:4885
    7WD40; WD40 repeat [structural motif]
  4. XM_024447394.1XP_024303162.1  WD repeat-containing protein 5 isoform X1

    Conserved Domains (2) summary
    cd00200
    Location:37331
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    sd00039
    Location:4885
    7WD40; WD40 repeat [structural motif]
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