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PDS5B PDS5 cohesin associated factor B [ Homo sapiens (human) ]

Gene ID: 23047, updated on 1-Jun-2020

Summary

Official Symbol
PDS5Bprovided by HGNC
Official Full Name
PDS5 cohesin associated factor Bprovided by HGNC
Primary source
HGNC:HGNC:20418
See related
Ensembl:ENSG00000083642 MIM:605333
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
AS3; APRIN; CG008
Summary
This gene encodes a protein that interacts with the conserved protein complex termed cohesin. The cohesin complex holds together sister chromatids and facilitates accurate chromosome segregation during mitosis and meiosis. This protein is also a negative regulator of cell proliferation and may be a tumor-suppressor gene. [provided by RefSeq, Jul 2015]
Expression
Ubiquitous expression in brain (RPKM 8.3), endometrium (RPKM 8.1) and 25 other tissues See more
Orthologs

Genomic context

See PDS5B in Genome Data Viewer
Location:
13q13.1
Exon count:
38
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 13 NC_000013.11 (32586432..32778019)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (33160564..33352158)

Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene NEDD4 binding protein 2 like 2 Neighboring gene N4BPL2 intronic transcript 2 Neighboring gene MICOS10 pseudogene 1 Neighboring gene uncharacterized LOC107984584 Neighboring gene RNY1 pseudogene 4 Neighboring gene long intergenic non-protein coding RNA 423 Neighboring gene TOMM22 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 Functions

What's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Genome-wide association with MRI atrophy measures as a quantitative trait locus for Alzheimer's disease.
NHGRI GWA Catalog
Genome-wide meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture.
NHGRI GWA Catalog

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of PDS5, regulator of cohesion maintenance, homolog B (S. cerevisiae, PDS5B) by shRNA library screening inhibits HIV-1 replication in cultured Jurkat T-cells PubMed

Protein interactions

Protein Gene Interaction Pubs
Tat tat Interaction of HIV-1 Tat with PDS5B in T-cells is identified by a proteomic strategy based on affinity chromatography coupled with mass spectrometry PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ23236, KIAA0979

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
DNA repair IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell division IEA
Inferred from Electronic Annotation
more info
 
cell proliferation TAS
Traceable Author Statement
more info
PubMed 
lens development in camera-type eye IEA
Inferred from Electronic Annotation
more info
 
mitotic sister chromatid cohesion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mitotic sister chromatid cohesion IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of cell proliferation IDA
Inferred from Direct Assay
more info
PubMed 
neuroblast migration IEA
Inferred from Electronic Annotation
more info
 
regulation of cell proliferation IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
chromatin IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
chromatin IDA
Inferred from Direct Assay
more info
PubMed 
chromosome TAS
Traceable Author Statement
more info
 
chromosome, centromeric region TAS
Traceable Author Statement
more info
 
cytosol TAS
Traceable Author Statement
more info
 
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 ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
sister chromatid cohesion protein PDS5 homolog B
Names
androgen induced inhibitor of proliferation
androgen-induced proliferation inhibitor
androgen-induced prostate proliferative shutoff-associated protein AS3
androgen-induced shutoff 3

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_021308.2 RefSeqGene

    Range
    5026..196593
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_015032.4NP_055847.1  sister chromatid cohesion protein PDS5 homolog B

    See identical proteins and their annotated locations for NP_055847.1

    Status: REVIEWED

    Source sequence(s)
    AB023196, AL137201, DA856411
    Consensus CDS
    CCDS41878.1
    UniProtKB/Swiss-Prot
    Q9NTI5
    Related
    ENSP00000313851.10, ENST00000315596.15
    Conserved Domains (3) summary
    sd00044
    Location:240261
    HEAT; HEAT repeat [structural motif]
    cl25751
    Location:10421295
    DUF4045; Domain of unknown function (DUF4045)
    cl26789
    Location:250461
    Toprim_N; DNA primase catalytic core, N-terminal domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000013.11 Reference GRCh38.p13 Primary Assembly

    Range
    32586432..32778019
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011534999.2XP_011533301.1  sister chromatid cohesion protein PDS5 homolog B isoform X2

    See identical proteins and their annotated locations for XP_011533301.1

    Conserved Domains (2) summary
    pfam05029
    Location:11731301
    TIMELESS_C; Timeless protein C terminal region
    sd00044
    Location:240261
    HEAT; HEAT repeat [structural motif]
  2. XM_011535000.2XP_011533302.1  sister chromatid cohesion protein PDS5 homolog B isoform X3

    See identical proteins and their annotated locations for XP_011533302.1

    Conserved Domains (3) summary
    sd00044
    Location:240261
    HEAT; HEAT repeat [structural motif]
    cl26789
    Location:250461
    Toprim_N; DNA primase catalytic core, N-terminal domain
    cl27000
    Location:11751401
    TFIIFa; Transcription initiation factor IIF, alpha subunit, N-terminal region of RAP74. Subunit of transcription initiation complex involved in initiation, elongation and promoter escape.Tetramer of 2 alpha and 2 beta TFIIF subunits interacts directly with RNA ...
  3. XM_017020453.1XP_016875942.1  sister chromatid cohesion protein PDS5 homolog B isoform X6

    Conserved Domains (2) summary
    pfam05029
    Location:11731301
    TIMELESS_C; Timeless protein C terminal region
    sd00044
    Location:240261
    HEAT; HEAT repeat [structural motif]
  4. XM_017020452.2XP_016875941.1  sister chromatid cohesion protein PDS5 homolog B isoform X5

    Conserved Domains (2) summary
    pfam05029
    Location:11731303
    TIMELESS_C; Timeless protein C terminal region
    sd00044
    Location:240261
    HEAT; HEAT repeat [structural motif]
  5. XM_005266298.4XP_005266355.1  sister chromatid cohesion protein PDS5 homolog B isoform X1

    See identical proteins and their annotated locations for XP_005266355.1

    Related
    ENSP00000401619.1, ENST00000450460.5
    Conserved Domains (3) summary
    pfam05029
    Location:11731303
    TIMELESS_C; Timeless protein C terminal region
    pfam13254
    Location:12031415
    DUF4045; Domain of unknown function (DUF4045)
    sd00044
    Location:240261
    HEAT; HEAT repeat [structural motif]
  6. XM_017020448.1XP_016875937.1  sister chromatid cohesion protein PDS5 homolog B isoform X1

    Conserved Domains (3) summary
    pfam05029
    Location:11731303
    TIMELESS_C; Timeless protein C terminal region
    pfam13254
    Location:12031415
    DUF4045; Domain of unknown function (DUF4045)
    sd00044
    Location:240261
    HEAT; HEAT repeat [structural motif]
  7. XM_017020451.1XP_016875940.1  sister chromatid cohesion protein PDS5 homolog B isoform X2

    Conserved Domains (2) summary
    pfam05029
    Location:11731301
    TIMELESS_C; Timeless protein C terminal region
    sd00044
    Location:240261
    HEAT; HEAT repeat [structural motif]
  8. XM_017020449.1XP_016875938.1  sister chromatid cohesion protein PDS5 homolog B isoform X1

    Conserved Domains (3) summary
    pfam05029
    Location:11731303
    TIMELESS_C; Timeless protein C terminal region
    pfam13254
    Location:12031415
    DUF4045; Domain of unknown function (DUF4045)
    sd00044
    Location:240261
    HEAT; HEAT repeat [structural motif]
  9. XM_017020450.1XP_016875939.1  sister chromatid cohesion protein PDS5 homolog B isoform X4

    UniProtKB/Swiss-Prot
    Q9NTI5
    Conserved Domains (3) summary
    sd00044
    Location:240261
    HEAT; HEAT repeat [structural motif]
    cl25751
    Location:10421295
    DUF4045; Domain of unknown function (DUF4045)
    cl26789
    Location:250461
    Toprim_N; DNA primase catalytic core, N-terminal domain
  10. XM_011535002.3XP_011533304.1  sister chromatid cohesion protein PDS5 homolog B isoform X7

    Conserved Domains (2) summary
    pfam05029
    Location:8971027
    TIMELESS_C; Timeless protein C terminal region
    pfam13254
    Location:9271139
    DUF4045; Domain of unknown function (DUF4045)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_015928.1: Suppressed sequence

    Description
    NM_015928.1: This RefSeq was permanently suppressed because it is a nonsense-mediated decay (NMD) candidate.
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