LOCUS       NM_002817               1589 bp    mRNA    linear   PRI 19-SEP-2024
DEFINITION  Homo sapiens proteasome 26S subunit, non-ATPase 13 (PSMD13),
            transcript variant 1, mRNA.
ACCESSION   NM_002817
VERSION     NM_002817.4
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 1589)
  AUTHORS   He,S., Cao,R., Mao,Y., Li,N., Wang,Y., Ma,H. and Tian,K.
  TITLE     Alternative splicing of PSMD13 mediated by genetic variants is
            significantly associated with endometrial cancer risk
  JOURNAL   J Gynecol Oncol 34 (3), e40 (2023)
   PUBMED   36731897
  REMARK    GeneRIF: Alternative splicing of PSMD13 mediated by genetic
            variants is significantly associated with endometrial cancer risk.
REFERENCE   2  (bases 1 to 1589)
  AUTHORS   Cho,N.H., Cheveralls,K.C., Brunner,A.D., Kim,K., Michaelis,A.C.,
            Raghavan,P., Kobayashi,H., Savy,L., Li,J.Y., Canaj,H., Kim,J.Y.S.,
            Stewart,E.M., Gnann,C., McCarthy,F., Cabrera,J.P., Brunetti,R.M.,
            Chhun,B.B., Dingle,G., Hein,M.Y., Huang,B., Mehta,S.B.,
            Weissman,J.S., Gomez-Sjoberg,R., Itzhak,D.N., Royer,L.A., Mann,M.
            and Leonetti,M.D.
  TITLE     OpenCell: Endogenous tagging for the cartography of human cellular
            organization
  JOURNAL   Science 375 (6585), eabi6983 (2022)
   PUBMED   35271311
REFERENCE   3  (bases 1 to 1589)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   4  (bases 1 to 1589)
  AUTHORS   Zhu,Y., Wang,W.L., Yu,D., Ouyang,Q., Lu,Y. and Mao,Y.
  TITLE     Structural mechanism for nucleotide-driven remodeling of the
            AAA-ATPase unfoldase in the activated human 26S proteasome
  JOURNAL   Nat Commun 9 (1), 1360 (2018)
   PUBMED   29636472
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1589)
  AUTHORS   Sun,S., Liu,S., Zhang,Z., Zeng,W., Sun,C., Tao,T., Lin,X. and
            Feng,X.H.
  TITLE     Phosphatase UBLCP1 controls proteasome assembly
  JOURNAL   Open Biol 7 (5) (2017)
   PUBMED   28539385
  REMARK    GeneRIF: Data show that UBLCP1 selectively binds to the 26S
            proteasome non-ATPase regulatory subunit 13 (19S regulatory
            particle) in regulating proteasome assembly.
REFERENCE   6  (bases 1 to 1589)
  AUTHORS   Simon,J.H., Gaddis,N.C., Fouchier,R.A. and Malim,M.H.
  TITLE     Evidence for a newly discovered cellular anti-HIV-1 phenotype
  JOURNAL   Nat Med 4 (12), 1397-1400 (1998)
   PUBMED   9846577
REFERENCE   7  (bases 1 to 1589)
  AUTHORS   Madani,N. and Kabat,D.
  TITLE     An endogenous inhibitor of human immunodeficiency virus in human
            lymphocytes is overcome by the viral Vif protein
  JOURNAL   J Virol 72 (12), 10251-10255 (1998)
   PUBMED   9811770
REFERENCE   8  (bases 1 to 1589)
  AUTHORS   Hori,T., Kato,S., Saeki,M., DeMartino,G.N., Slaughter,C.A.,
            Takeuchi,J., Toh-e,A. and Tanaka,K.
  TITLE     cDNA cloning and functional analysis of p28 (Nas6p) and p40.5
            (Nas7p), two novel regulatory subunits of the 26S proteasome
  JOURNAL   Gene 216 (1), 113-122 (1998)
   PUBMED   9714768
REFERENCE   9  (bases 1 to 1589)
  AUTHORS   Seeger,M., Ferrell,K., Frank,R. and Dubiel,W.
  TITLE     HIV-1 tat inhibits the 20 S proteasome and its 11 S
            regulator-mediated activation
  JOURNAL   J Biol Chem 272 (13), 8145-8148 (1997)
   PUBMED   9079628
REFERENCE   10 (bases 1 to 1589)
  AUTHORS   Coux,O., Tanaka,K. and Goldberg,A.L.
  TITLE     Structure and functions of the 20S and 26S proteasomes
  JOURNAL   Annu Rev Biochem 65, 801-847 (1996)
   PUBMED   8811196
  REMARK    Review article
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC136475.7, AB009398.1 and AA931044.1.
            
            On Nov 23, 2018 this sequence version replaced NM_002817.3.
            
            Summary: The 26S proteasome is a multicatalytic proteinase complex
            with a highly ordered structure composed of 2 complexes, a 20S core
            and a 19S regulator. The 20S core is composed of 4 rings of 28
            non-identical subunits; 2 rings are composed of 7 alpha subunits
            and 2 rings are composed of 7 beta subunits. The 19S regulator is
            composed of a base, which contains 6 ATPase subunits and 2
            non-ATPase subunits, and a lid, which contains up to 10 non-ATPase
            subunits. Proteasomes are distributed throughout eukaryotic cells
            at a high concentration and cleave peptides in an
            ATP/ubiquitin-dependent process in a non-lysosomal pathway.  An
            essential function of a modified proteasome, the immunoproteasome,
            is the processing of class I MHC peptides. This gene encodes a
            non-ATPase subunit of the 19S regulator. Two transcripts encoding
            different isoforms have been described. [provided by RefSeq, Jul
            2008].
            
            Transcript Variant: This variant (1) encodes the longer isoform
            (1).
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR3476690.293980.1,
                                           SRR5189655.5737.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000532097.6/ ENSP00000436186.1
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-5                 AC136475.7         21520-21524
            6-1586              AB009398.1         1-1581
            1587-1589           AA931044.1         1-3                 c
FEATURES             Location/Qualifiers
     source          1..1589
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="11"
                     /map="11p15.5"
     gene            1..1589
                     /gene="PSMD13"
                     /gene_synonym="HSPC027; p40.5; Rpn9; S11"
                     /note="proteasome 26S subunit, non-ATPase 13"
                     /db_xref="GeneID:5719"
                     /db_xref="HGNC:HGNC:9558"
                     /db_xref="MIM:603481"
     exon            1..169
                     /gene="PSMD13"
                     /gene_synonym="HSPC027; p40.5; Rpn9; S11"
                     /inference="alignment:Splign:2.1.0"
     CDS             75..1205
                     /gene="PSMD13"
                     /gene_synonym="HSPC027; p40.5; Rpn9; S11"
                     /note="isoform 1 is encoded by transcript variant 1; 26S
                     proteasome subunit p40.5; 26S proteasome regulatory
                     subunit S11; 26S proteasome non-ATPase regulatory subunit
                     13; 26S proteasome regulatory subunit p40.5; 26S
                     proteasome regulatory subunit RPN9; proteasome (prosome,
                     macropain) 26S subunit, non-ATPase, 13"
                     /codon_start=1
                     /product="26S proteasome non-ATPase regulatory subunit 13
                     isoform 1"
                     /protein_id="NP_002808.3"
                     /db_xref="CCDS:CCDS7692.1"
                     /db_xref="GeneID:5719"
                     /db_xref="HGNC:HGNC:9558"
                     /db_xref="MIM:603481"
                     /translation="MKDVPGFLQQSQNSGPGQPAVWHRLEELYTKKLWHQLTLQVLDF
                     VQDPCFAQGDGLIKLYENFISEFEHRVNPLSLVEIILHVVRQMTDPNVALTFLEKTRE
                     KVKSSDEAVILCKTAIGALKLNIGDLQVTKETIEDVEEMLNNLPGVTSVHSRFYDLSS
                     KYYQTIGNHASYYKDALRFLGCVDIKDLPVSEQQERAFTLGLAGLLGEGVFNFGELLM
                     HPVLESLRNTDRQWLIDTLYAFNSGNVERFQTLKTAWGQQPDLAANEAQLLRKIQLLC
                     LMEMTFTRPANHRQLTFEEIAKSAKITVNEVELLVMKALSVGLVKGSIDEVDKRVHMT
                     WVQPRVLDLQQIKGMKDRLEFWCTDVKSMEMLVEHQAHDILT"
     exon            170..248
                     /gene="PSMD13"
                     /gene_synonym="HSPC027; p40.5; Rpn9; S11"
                     /inference="alignment:Splign:2.1.0"
     exon            249..283
                     /gene="PSMD13"
                     /gene_synonym="HSPC027; p40.5; Rpn9; S11"
                     /inference="alignment:Splign:2.1.0"
     exon            284..339
                     /gene="PSMD13"
                     /gene_synonym="HSPC027; p40.5; Rpn9; S11"
                     /inference="alignment:Splign:2.1.0"
     exon            340..383
                     /gene="PSMD13"
                     /gene_synonym="HSPC027; p40.5; Rpn9; S11"
                     /inference="alignment:Splign:2.1.0"
     exon            384..470
                     /gene="PSMD13"
                     /gene_synonym="HSPC027; p40.5; Rpn9; S11"
                     /inference="alignment:Splign:2.1.0"
     exon            471..642
                     /gene="PSMD13"
                     /gene_synonym="HSPC027; p40.5; Rpn9; S11"
                     /inference="alignment:Splign:2.1.0"
     exon            643..722
                     /gene="PSMD13"
                     /gene_synonym="HSPC027; p40.5; Rpn9; S11"
                     /inference="alignment:Splign:2.1.0"
     exon            723..848
                     /gene="PSMD13"
                     /gene_synonym="HSPC027; p40.5; Rpn9; S11"
                     /inference="alignment:Splign:2.1.0"
     exon            849..911
                     /gene="PSMD13"
                     /gene_synonym="HSPC027; p40.5; Rpn9; S11"
                     /inference="alignment:Splign:2.1.0"
     exon            912..992
                     /gene="PSMD13"
                     /gene_synonym="HSPC027; p40.5; Rpn9; S11"
                     /inference="alignment:Splign:2.1.0"
     exon            993..1109
                     /gene="PSMD13"
                     /gene_synonym="HSPC027; p40.5; Rpn9; S11"
                     /inference="alignment:Splign:2.1.0"
     exon            1110..1589
                     /gene="PSMD13"
                     /gene_synonym="HSPC027; p40.5; Rpn9; S11"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1566..1571
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PSMD13"
                     /gene_synonym="HSPC027; p40.5; Rpn9; S11"
                     /note="hexamer: AATAAA"
     polyA_site      1589
                     /gene="PSMD13"
                     /gene_synonym="HSPC027; p40.5; Rpn9; S11"
                     /note="major polyA site"
ORIGIN      
        1 gagcatttcc ggcagccatc cccgcggtgc tgacatcccg gttgttcttc tgtgccgggg
       61 gtcttcctgc tgtcatgaag gacgtaccgg gcttcctaca gcagagccag aactccgggc
      121 ccgggcagcc cgctgtgtgg caccgtctgg aggagctcta cacgaagaag ttgtggcatc
      181 agctgacact tcaggtgctt gattttgtgc aggatccgtg ctttgcccaa ggagatggtc
      241 tcattaagct ttatgaaaac tttatcagtg aatttgaaca cagggtgaac cctttgtccc
      301 tcgtggaaat cattcttcat gtagttagac agatgactga tcctaatgtg gctcttactt
      361 ttctggaaaa gactcgtgag aaggtgaaaa gtagtgatga ggcagtgatc ctgtgtaaaa
      421 cagcaattgg agctctaaaa ttaaacatcg gggacctaca ggttacaaag gaaacaattg
      481 aagatgttga agaaatgctc aacaaccttc ctggtgtgac atcggttcac agtcgtttct
      541 atgatctctc cagtaaatac tatcaaacaa tcggaaacca cgcgtcctac tacaaagatg
      601 ctctgcggtt tttgggctgt gttgacatca aggatctacc agtgtctgag cagcaggaga
      661 gagccttcac gctggggcta gcaggacttc tcggcgaggg agtttttaac tttggagaac
      721 tcctcatgca ccctgtgctg gagtccctga ggaatactga ccggcagtgg ctgattgaca
      781 ccctctatgc cttcaacagt ggcaacgtag agcggttcca gactctgaag actgcctggg
      841 gccagcagcc tgatttagca gctaatgaag cccagcttct gaggaaaatt cagttgttgt
      901 gcctcatgga gatgactttc acacgacctg ccaatcacag acaactcact tttgaagaaa
      961 ttgccaaaag tgctaaaatc acagtgaatg aggtggagct tctggtgatg aaggcccttt
     1021 cggtggggct ggtgaaaggc agtatagacg aggtggacaa acgagtccac atgacctggg
     1081 tgcagccccg agtgttggat ttgcaacaga tcaagggaat gaaggaccgc ctggagttct
     1141 ggtgcacgga tgtgaagagc atggagatgc tggtggagca ccaggcccat gacatcctca
     1201 cctagggccc cctggttccc cgtcgtgtct cctttgactc acctgagaga ggcgtttgca
     1261 gccaatgaag ctggctgctc agacggtcga cattgaattt gggtgggggt tgggatcctg
     1321 tctgaagtac agactgttct tgctctaaaa acaggactgt ccctgatggg agccaggcca
     1381 cagggaggag gcttctttgt gggtctctcc tgcagagggt gggggtctca gggtcttagg
     1441 tgatacggga gagaaagaac gtgccaggca ggaggccccc tgaagtctgt gtactccgag
     1501 gtggatctcc atccccatcc acctgtacgg acatcttttc cgttgcggtt tgagaatgtt
     1561 cctataataa acccctctgc tttgttctt
//
