U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

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

Gene ID: 23047, updated on 9-Jun-2024

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; AllianceGenome:HGNC:20418
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
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See PDS5B in Genome Data Viewer
Location:
13q13.1
Exon count:
38
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (32586452..32778019)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (31803785..31995311)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (33160589..33352157)

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 H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:33112107-33112666 Neighboring gene H3K27ac hESC enhancer GRCh37_chr13:33112667-33113227 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5249 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5250 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5251 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7563 Neighboring gene PDS5B divergent transcript Neighboring gene NANOG hESC enhancer GRCh37_chr13:33200082-33200597 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7564 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5252 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr13:33288052-33289036 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr13:33294729-33295322 Neighboring gene MPRA-validated peak2067 silencer Neighboring gene Sharpr-MPRA regulatory region 5009 Neighboring gene RNY1 pseudogene 4 Neighboring gene ReSE screen-validated silencer GRCh37_chr13:33395368-33395536 Neighboring gene long intergenic non-protein coding RNA 423 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7565 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7566 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

EBI GWAS Catalog

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • FLJ23236, KIAA0979

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in DNA repair IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in cell division IEA
Inferred from Electronic Annotation
more info
 
involved_in cell population proliferation TAS
Traceable Author Statement
more info
PubMed 
involved_in mitotic sister chromatid cohesion IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in mitotic sister chromatid cohesion IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of cell population proliferation IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within regulation of cell population proliferation IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
part_of chromatin IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of chromatin IDA
Inferred from Direct Assay
more info
PubMed 
located_in chromosome TAS
Traceable Author Statement
more info
 
located_in chromosome, centromeric region TAS
Traceable Author Statement
more info
 
located_in cytosol TAS
Traceable Author Statement
more info
 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in 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)

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_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
    Q5R3S3, Q5W0K8, Q6NSC3, Q8IXT6, Q9H5N8, Q9NTI5, Q9Y2I5, Q9Y451
    UniProtKB/TrEMBL
    B7Z5S1, E9PHV0
    Related
    ENSP00000313851.10, ENST00000315596.15
    Conserved Domains (3) summary
    PTZ00449
    Location:12151410
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    sd00044
    Location:240261
    HEAT; HEAT repeat [structural motif]
    cd19953
    Location:31661
    PDS5; Sister chromatid cohesion protein PDS5

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_000013.11 Reference GRCh38.p14 Primary Assembly

    Range
    32586452..32778019
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005266298.5XP_005266355.1  sister chromatid cohesion protein PDS5 homolog B isoform X1

    See identical proteins and their annotated locations for XP_005266355.1

    UniProtKB/TrEMBL
    B7Z5S1, E9PHV0
    Conserved Domains (3) summary
    PTZ00449
    Location:10421295
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    sd00044
    Location:240261
    HEAT; HEAT repeat [structural motif]
    cd19953
    Location:31661
    PDS5; Sister chromatid cohesion protein PDS5
  2. XM_017020452.3XP_016875941.1  sister chromatid cohesion protein PDS5 homolog B isoform X4

    UniProtKB/TrEMBL
    B7Z5S1, E9PHV0
    Conserved Domains (3) summary
    PTZ00449
    Location:10421295
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    sd00044
    Location:240261
    HEAT; HEAT repeat [structural motif]
    cd19953
    Location:31661
    PDS5; Sister chromatid cohesion protein PDS5
  3. XM_011534999.3XP_011533301.1  sister chromatid cohesion protein PDS5 homolog B isoform X2

    See identical proteins and their annotated locations for XP_011533301.1

    UniProtKB/TrEMBL
    B7Z5S1, E9PHV0
    Conserved Domains (2) summary
    sd00044
    Location:240261
    HEAT; HEAT repeat [structural motif]
    cd19953
    Location:31661
    PDS5; Sister chromatid cohesion protein PDS5
  4. XM_011535000.3XP_011533302.1  sister chromatid cohesion protein PDS5 homolog B isoform X3

    See identical proteins and their annotated locations for XP_011533302.1

    UniProtKB/TrEMBL
    B7Z5S1, E9PHV0
    Conserved Domains (3) summary
    PTZ00449
    Location:12051408
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    sd00044
    Location:240261
    HEAT; HEAT repeat [structural motif]
    cd19953
    Location:31661
    PDS5; Sister chromatid cohesion protein PDS5
  5. XM_017020453.2XP_016875942.1  sister chromatid cohesion protein PDS5 homolog B isoform X5

    UniProtKB/TrEMBL
    B7Z5S1, E9PHV0
    Conserved Domains (2) summary
    pfam05029
    Location:11731301
    TIMELESS_C; Timeless protein C terminal region
    sd00044
    Location:240261
    HEAT; HEAT repeat [structural motif]
  6. XM_047430186.1XP_047286142.1  sister chromatid cohesion protein PDS5 homolog B isoform X1

    UniProtKB/TrEMBL
    B7Z5S1, E9PHV0
  7. XM_017020448.2XP_016875937.1  sister chromatid cohesion protein PDS5 homolog B isoform X1

    UniProtKB/TrEMBL
    B7Z5S1, E9PHV0
    Conserved Domains (3) summary
    PTZ00449
    Location:10421295
    PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
    sd00044
    Location:240261
    HEAT; HEAT repeat [structural motif]
    cd19953
    Location:31661
    PDS5; Sister chromatid cohesion protein PDS5
  8. XM_011535002.4XP_011533304.1  sister chromatid cohesion protein PDS5 homolog B isoform X6

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

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060937.1 Alternate T2T-CHM13v2.0

    Range
    31803785..31995311
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054374271.1XP_054230246.1  sister chromatid cohesion protein PDS5 homolog B isoform X7

    UniProtKB/TrEMBL
    B7Z5S1, E9PHV0
  2. XM_054374272.1XP_054230247.1  sister chromatid cohesion protein PDS5 homolog B isoform X8

    UniProtKB/TrEMBL
    B7Z5S1, E9PHV0
  3. XM_054374280.1XP_054230255.1  sister chromatid cohesion protein PDS5 homolog B isoform X11

    UniProtKB/TrEMBL
    B7Z5S1, E9PHV0
  4. XM_054374273.1XP_054230248.1  sister chromatid cohesion protein PDS5 homolog B isoform X9

    UniProtKB/TrEMBL
    B7Z5S1, E9PHV0
  5. XM_054374274.1XP_054230249.1  sister chromatid cohesion protein PDS5 homolog B isoform X10

    UniProtKB/TrEMBL
    B7Z5S1, E9PHV0
  6. XM_054374281.1XP_054230256.1  sister chromatid cohesion protein PDS5 homolog B isoform X12

    UniProtKB/TrEMBL
    B7Z5S1, E9PHV0
  7. XM_054374275.1XP_054230250.1  sister chromatid cohesion protein PDS5 homolog B isoform X1

    UniProtKB/TrEMBL
    B7Z5S1, E9PHV0
  8. XM_054374282.1XP_054230257.1  sister chromatid cohesion protein PDS5 homolog B isoform X4

    UniProtKB/TrEMBL
    B7Z5S1, E9PHV0
  9. XM_054374278.1XP_054230253.1  sister chromatid cohesion protein PDS5 homolog B isoform X2

    UniProtKB/TrEMBL
    B7Z5S1, E9PHV0
  10. XM_054374279.1XP_054230254.1  sister chromatid cohesion protein PDS5 homolog B isoform X3

    UniProtKB/TrEMBL
    B7Z5S1, E9PHV0
  11. XM_054374283.1XP_054230258.1  sister chromatid cohesion protein PDS5 homolog B isoform X5

    UniProtKB/TrEMBL
    B7Z5S1, E9PHV0
  12. XM_054374276.1XP_054230251.1  sister chromatid cohesion protein PDS5 homolog B isoform X1

    UniProtKB/TrEMBL
    B7Z5S1, E9PHV0
  13. XM_054374277.1XP_054230252.1  sister chromatid cohesion protein PDS5 homolog B isoform X1

    UniProtKB/TrEMBL
    B7Z5S1, E9PHV0
  14. XM_054374284.1XP_054230259.1  sister chromatid cohesion protein PDS5 homolog B isoform X6

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.