Human Gene PDS5B (ENST00000315596.15_5) from GENCODE V47lift37
  Description: PDS5 cohesin associated factor B (from RefSeq NM_015032.4)
Gencode Transcript: ENST00000315596.15_5
Gencode Gene: ENSG00000083642.19_7
Transcript (Including UTRs)
   Position: hg19 chr13:33,160,589-33,352,157 Size: 191,569 Total Exon Count: 35 Strand: +
Coding Region
   Position: hg19 chr13:33,222,910-33,349,190 Size: 126,281 Coding Exon Count: 34 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr13:33,160,589-33,352,157)mRNA (may differ from genome)Protein (1447 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PDS5B_HUMAN
DESCRIPTION: RecName: Full=Sister chromatid cohesion protein PDS5 homolog B; AltName: Full=Androgen-induced proliferation inhibitor; AltName: Full=Androgen-induced prostate proliferative shutoff-associated protein AS3;
FUNCTION: Regulator of sister chromatid cohesion in mitosis which may stabilize cohesin complex association with chromatin. May couple sister chromatid cohesion during mitosis to DNA replication. Cohesion ensures that chromosome partitioning is accurate in both meiotic and mitotic cells and plays an important role in DNA repair. Plays a role in androgen-induced proliferative arrest in prostate cells.
SUBUNIT: Interacts with the cohesin complex. Interacts with RAD21; the interaction is direct. Interacts with WAPAL (via FGF motifs) or CDCA5 (via the FGF motif); the interaction is direct, cohesin- dependent and competitive (Probable).
INTERACTION: O60216:RAD21; NbExp=3; IntAct=EBI-1175604, EBI-80739; Q9UQE7:SMC3; NbExp=6; IntAct=EBI-1175604, EBI-80718; Q8WVM7:STAG1; NbExp=3; IntAct=EBI-1175604, EBI-1175097; Q8N3U4:STAG2; NbExp=3; IntAct=EBI-1175604, EBI-1057252; Q7Z5K2:WAPAL; NbExp=9; IntAct=EBI-1175604, EBI-1022242;
SUBCELLULAR LOCATION: Nucleus (By similarity).
TISSUE SPECIFICITY: Widely expressed.
INDUCTION: By the synthetic androgen R1881 in prostate carcinoma cells undergoing proliferative arrest. Maximum levels occur 18-20 hours after androgen exposure.
PTM: Phosphorylated upon DNA damage, probably by ATM or ATR.
SIMILARITY: Belongs to the PDS5 family.
SIMILARITY: Contains 3 A.T hook DNA-binding domains.
SIMILARITY: Contains 1 HEAT repeat.
SEQUENCE CAUTION: Sequence=BAA76823.2; Type=Erroneous initiation;

-  Primer design for this transcript
 

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Click here to load the transcript sequence and exon structure into Primer3Plus

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To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 11.28 RPKM in Cervix - Endocervix
Total median expression: 273.94 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -48.00161-0.298 Picture PostScript Text
3' UTR -679.902967-0.229 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR011989 - ARM-like
IPR016024 - ARM-type_fold
IPR017956 - AT_hook_DNA-bd_motif

SCOP Domains:
48371 - ARM repeat
48431 - Lipovitellin-phosvitin complex, superhelical domain

ModBase Predicted Comparative 3D Structure on Q9NTI5
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologGenome BrowserNo ortholog
Gene DetailsGene Details  Gene Details 
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 RGDEnsembl WormBase 
    Protein Sequence 
    Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003677 DNA binding
GO:0005515 protein binding
GO:0005524 ATP binding

Biological Process:
GO:0006281 DNA repair
GO:0007049 cell cycle
GO:0007064 mitotic sister chromatid cohesion
GO:0008283 cell proliferation
GO:0008285 negative regulation of cell proliferation
GO:0042127 regulation of cell proliferation
GO:0051301 cell division

Cellular Component:
GO:0000775 chromosome, centromeric region
GO:0000785 chromatin
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005694 chromosome
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  AL137201 - Novel human gene mapping to chomosome 13.
AB023196 - Homo sapiens KIAA0979 mRNA for KIAA0979 protein.
BC039256 - Homo sapiens PDS5, regulator of cohesion maintenance, homolog B (S. cerevisiae), mRNA (cDNA clone IMAGE:5295109), complete cds.
U95825 - Human androgen-induced prostate proliferative shutoff associated protein (AS3) mRNA, complete cds.
BC070274 - Homo sapiens PDS5, regulator of cohesion maintenance, homolog B (S. cerevisiae), mRNA (cDNA clone IMAGE:6668320), complete cds.
AK299340 - Homo sapiens cDNA FLJ61699 complete cds, highly similar to Homo sapiens androgen-induced proliferation inhibitor (APRIN), transcript variant 1, mRNA.
AB384072 - Synthetic construct DNA, clone: pF1KSDA0979, Homo sapiens PDS5B gene for androgen-induced proliferation inhibitor, complete cds, without stop codon, in Flexi system.
BC172246 - Synthetic construct Homo sapiens clone IMAGE:100068940, MGC:198951 PDS5, regulator of cohesion maintenance, homolog B (S. cerevisiae) (PDS5B) mRNA, encodes complete protein.
U50533 - Human BRCA2 region, mRNA sequence CG008.
AK128502 - Homo sapiens cDNA FLJ46654 fis, clone TRACH3005191, highly similar to Homo sapiens androgen-induced proliferation inhibitor (APRIN).
JD462373 - Sequence 443397 from Patent EP1572962.
BC026240 - Homo sapiens cDNA clone IMAGE:4702089, partial cds.
CU687078 - Synthetic construct Homo sapiens gateway clone IMAGE:100023048 5' read PDS5B mRNA.
KJ902272 - Synthetic construct Homo sapiens clone ccsbBroadEn_11666 PDS5B gene, encodes complete protein.
CU691694 - Synthetic construct Homo sapiens gateway clone IMAGE:100019788 5' read PDS5B mRNA.
JF432219 - Synthetic construct Homo sapiens clone IMAGE:100073383 PDS5, regulator of cohesion maintenance, homolog B (S. cerevisiae) (PDS5B) gene, encodes complete protein.
KJ902271 - Synthetic construct Homo sapiens clone ccsbBroadEn_11665 PDS5B gene, encodes complete protein.
AK026889 - Homo sapiens cDNA: FLJ23236 fis, clone COL00725.
JD025567 - Sequence 6591 from Patent EP1572962.
JD022718 - Sequence 3742 from Patent EP1572962.
JD035965 - Sequence 16989 from Patent EP1572962.
JD031341 - Sequence 12365 from Patent EP1572962.
JD283211 - Sequence 264235 from Patent EP1572962.
JD019352 - Sequence 376 from Patent EP1572962.
JD028711 - Sequence 9735 from Patent EP1572962.
JD453750 - Sequence 434774 from Patent EP1572962.
JD453749 - Sequence 434773 from Patent EP1572962.
JD327439 - Sequence 308463 from Patent EP1572962.
JD147794 - Sequence 128818 from Patent EP1572962.
JD155090 - Sequence 136114 from Patent EP1572962.
JD381910 - Sequence 362934 from Patent EP1572962.
JD224035 - Sequence 205059 from Patent EP1572962.
JD065979 - Sequence 47003 from Patent EP1572962.
JD503521 - Sequence 484545 from Patent EP1572962.
JD342699 - Sequence 323723 from Patent EP1572962.
JD301954 - Sequence 282978 from Patent EP1572962.
JD075115 - Sequence 56139 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9NTI5 (Reactome details) participates in the following event(s):

R-HSA-2468040 Cohesin binds PDS5 and WAPAL
R-HSA-2545203 Deacetylation of cleaved cohesin
R-HSA-2470935 Cohesin binding to decondensed chromatin is facilitated by NIPBL:MAU2
R-HSA-1638821 PP2A-B56 dephosphorylates centromeric cohesin
R-HSA-1638803 Phosphorylation of cohesin by PLK1 at centromeres
R-HSA-2467811 Separation of sister chromatids
R-HSA-2467809 ESPL1 (Separase) cleaves centromeric cohesin
R-HSA-2468287 CDK1 phosphorylates CDCA5 (Sororin) at centromeres
R-HSA-2545253 Deacetylation of cohesin
R-HSA-2467794 Resolution of sister chromatids
R-HSA-2468293 CDK1 phosphorylates CDCA5 (Sororin) at chromosomal arms
R-HSA-2468041 CDCA5 (Sororin) enables cohesion of sister chromosomal arms
R-HSA-2466068 Phosphorylation of cohesin by PLK1 at chromosomal arms
R-HSA-2473152 Acetylation of SMC3 subunit of centromeric chromatin associated cohesin by ESCO1 or ESCO2
R-HSA-2468039 Acetylation of SMC3 subunit of chromosomal arm associated cohesin by ESCO1 or ESCO2
R-HSA-2473151 CDCA5 (Sororin) enables cohesion of sister centromeres
R-HSA-2470946 Cohesin Loading onto Chromatin
R-HSA-2467813 Separation of Sister Chromatids
R-HSA-68884 Mitotic Telophase/Cytokinesis
R-HSA-2500257 Resolution of Sister Chromatid Cohesion
R-HSA-68882 Mitotic Anaphase
R-HSA-2468052 Establishment of Sister Chromatid Cohesion
R-HSA-68886 M Phase
R-HSA-68877 Mitotic Prometaphase
R-HSA-2555396 Mitotic Metaphase and Anaphase
R-HSA-69242 S Phase
R-HSA-69278 Cell Cycle (Mitotic)
R-HSA-1640170 Cell Cycle

-  Other Names for This Gene
  Alternate Gene Symbols: APRIN, AS3 , ENST00000315596.1, ENST00000315596.10, ENST00000315596.11, ENST00000315596.12, ENST00000315596.13, ENST00000315596.14, ENST00000315596.2, ENST00000315596.3, ENST00000315596.4, ENST00000315596.5, ENST00000315596.6, ENST00000315596.7, ENST00000315596.8, ENST00000315596.9, KIAA0979 , NM_015032, PDS5B_HUMAN, Q5R3S3, Q5W0K8, Q6NSC3, Q8IXT6, Q9H5N8, Q9NTI5, Q9Y2I5, Q9Y451, uc317pvp.1, uc317pvp.2
UCSC ID: ENST00000315596.15_5
RefSeq Accession: NM_015032.4
Protein: Q9NTI5 (aka PDS5B_HUMAN)

-  Gene Model Information
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-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.