LOCUS       NM_025155               4954 bp    mRNA    linear   PRI 20-SEP-2024
DEFINITION  Homo sapiens proteasomal ATPase associated factor 1 (PAAF1),
            transcript variant 4, mRNA.
ACCESSION   NM_025155
VERSION     NM_025155.3
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 4954)
  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   2  (bases 1 to 4954)
  AUTHORS   Zavodszky,E., Peak-Chew,S.Y., Juszkiewicz,S., Narvaez,A.J. and
            Hegde,R.S.
  TITLE     Identification of a quality-control factor that monitors failures
            during proteasome assembly
  JOURNAL   Science 373 (6558), 998-1004 (2021)
   PUBMED   34446601
  REMARK    GeneRIF: Identification of a quality-control factor that monitors
            failures during proteasome assembly.
REFERENCE   3  (bases 1 to 4954)
  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 4954)
  AUTHORS   Hein,M.Y., Hubner,N.C., Poser,I., Cox,J., Nagaraj,N., Toyoda,Y.,
            Gak,I.A., Weisswange,I., Mansfeld,J., Buchholz,F., Hyman,A.A. and
            Mann,M.
  TITLE     A human interactome in three quantitative dimensions organized by
            stoichiometries and abundances
  JOURNAL   Cell 163 (3), 712-723 (2015)
   PUBMED   26496610
REFERENCE   5  (bases 1 to 4954)
  AUTHORS   Kim,S., Nishide,A., Saeki,Y., Takagi,K., Tanaka,K., Kato,K. and
            Mizushima,T.
  TITLE     New crystal structure of the proteasome-dedicated chaperone Rpn14
            at 1.6 A resolution
  JOURNAL   Acta Crystallogr Sect F Struct Biol Cryst Commun 68 (Pt 5), 517-521
            (2012)
   PUBMED   22691779
REFERENCE   6  (bases 1 to 4954)
  AUTHORS   Nakamura,M., Basavarajaiah,P., Rousset,E., Beraud,C., Latreille,D.,
            Henaoui,I.S., Lassot,I., Mari,B. and Kiernan,R.
  TITLE     Spt6 levels are modulated by PAAF1 and proteasome to regulate the
            HIV-1 LTR
  JOURNAL   Retrovirology 9, 13 (2012)
   PUBMED   22316138
  REMARK    GeneRIF: These results show that intracellular levels of Spt6 are
            fine-tuned by PAAF1 and proteasome, which is required for HIV-1
            transcription and extends to cellular genes implicated in cancer.
            Publication Status: Online-Only
REFERENCE   7  (bases 1 to 4954)
  AUTHORS   Wang,X., Chen,C.F., Baker,P.R., Chen,P.L., Kaiser,P. and Huang,L.
  TITLE     Mass spectrometric characterization of the affinity-purified human
            26S proteasome complex
  JOURNAL   Biochemistry 46 (11), 3553-3565 (2007)
   PUBMED   17323924
REFERENCE   8  (bases 1 to 4954)
  AUTHORS   Lassot,I., Latreille,D., Rousset,E., Sourisseau,M., Linares,L.K.,
            Chable-Bessia,C., Coux,O., Benkirane,M. and Kiernan,R.E.
  TITLE     The proteasome regulates HIV-1 transcription by both proteolytic
            and nonproteolytic mechanisms
  JOURNAL   Mol Cell 25 (3), 369-383 (2007)
   PUBMED   17289585
REFERENCE   9  (bases 1 to 4954)
  AUTHORS   Ponnappan,S., Ovaa,H. and Ponnappan,U.
  TITLE     Lower expression of catalytic and structural subunits of the
            proteasome contributes to decreased proteolysis in peripheral blood
            T lymphocytes during aging
  JOURNAL   Int J Biochem Cell Biol 39 (4), 799-809 (2007)
   PUBMED   17317272
REFERENCE   10 (bases 1 to 4954)
  AUTHORS   Park,Y., Hwang,Y.P., Lee,J.S., Seo,S.H., Yoon,S.K. and Yoon,J.B.
  TITLE     Proteasomal ATPase-associated factor 1 negatively regulates
            proteasome activity by interacting with proteasomal ATPases
  JOURNAL   Mol Cell Biol 25 (9), 3842-3853 (2005)
   PUBMED   15831487
  REMARK    GeneRIF: Proteasomal ATPase-associated factor 1 (PAAF1) functions
            as a negative regulator of the proteasome by controlling the
            assembly/disassembly of the proteasome.
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AK021910.1, AF087895.1 and
            AP002770.3.
            
            On Jun 2, 2019 this sequence version replaced NM_025155.2.
            
            Summary: This gene encodes a WD repeat-containing protein involved
            in regulation of association of proteasome components. During HIV
            infection, the encoded protein is thought to promote provirus
            transcription through recruitment of the 19S regulatory complex.
            Alternatively spliced transcript variants encoding multiple
            isoforms have been observed for this gene. [provided by RefSeq, Jun
            2012].
            
            Transcript Variant: This variant (4) lacks an exon in the 5'
            region, and initiates translation at an alternate upstream start
            codon, compared to variant 1. The encoded isoform (2) has a
            distinct N-terminus and is longer than 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 :: SRR1660805.199595.1, AK021910.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000310571.8/ ENSP00000311665.4
            RefSeq Select criteria :: based on manual assertion, conservation,
                                      expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1574              AK021910.1         12-1585
            1575-1576           AF087895.1         1599-1600
            1577-4954           AP002770.3         179900-183277
FEATURES             Location/Qualifiers
     source          1..4954
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="11"
                     /map="11q13.4"
     gene            1..4954
                     /gene="PAAF1"
                     /gene_synonym="PAAF; Rpn14; WDR71"
                     /note="proteasomal ATPase associated factor 1"
                     /db_xref="GeneID:80227"
                     /db_xref="HGNC:HGNC:25687"
                     /db_xref="MIM:619772"
     exon            1..70
                     /gene="PAAF1"
                     /gene_synonym="PAAF; Rpn14; WDR71"
                     /inference="alignment:Splign:2.1.0"
     CDS             24..1202
                     /gene="PAAF1"
                     /gene_synonym="PAAF; Rpn14; WDR71"
                     /note="isoform 2 is encoded by transcript variant 4; WD
                     repeat domain 71; WD repeat-containing protein 71"
                     /codon_start=1
                     /product="proteasomal ATPase-associated factor 1 isoform
                     2"
                     /protein_id="NP_079431.1"
                     /db_xref="CCDS:CCDS8226.1"
                     /db_xref="GeneID:80227"
                     /db_xref="HGNC:HGNC:25687"
                     /db_xref="MIM:619772"
                     /translation="MAAPLRIQSDWAQALRKDEGEAWLSCHPPGKPSLYGSLTCQGIG
                     LDGIPEVTASEGFTVNEINKKSIHISCPKENASSKFLAPYTTFSRIHTKSITCLDISS
                     RGGLGVSSSTDGTMKIWQASNGELRRVLEGHVFDVNCCRFFPSGLVVLSGGMDAQLKI
                     WSAEDASCVVTFKGHKGGILDTAIVDRGRNVVSASRDGTARLWDCGRSACLGVLADCG
                     SSINGVAVGAADNSINLGSPEQMPSEREVGTEAKMLLLAREDKKLQCLGLQSRQLVFL
                     FIGSDAFNCCTFLSGFLLLAGTQDGNIYQLDVRSPRAPVQVIHRSGAPVLSLLSVRDG
                     FIASQGDGSCFIVQQDLDYVTELTGADCDPVYKVATWEKQIYTCCRDGLVRRYQLSDL
                     "
     exon            71..111
                     /gene="PAAF1"
                     /gene_synonym="PAAF; Rpn14; WDR71"
                     /inference="alignment:Splign:2.1.0"
     exon            112..215
                     /gene="PAAF1"
                     /gene_synonym="PAAF; Rpn14; WDR71"
                     /inference="alignment:Splign:2.1.0"
     exon            216..305
                     /gene="PAAF1"
                     /gene_synonym="PAAF; Rpn14; WDR71"
                     /inference="alignment:Splign:2.1.0"
     exon            306..404
                     /gene="PAAF1"
                     /gene_synonym="PAAF; Rpn14; WDR71"
                     /inference="alignment:Splign:2.1.0"
     exon            405..555
                     /gene="PAAF1"
                     /gene_synonym="PAAF; Rpn14; WDR71"
                     /inference="alignment:Splign:2.1.0"
     exon            556..750
                     /gene="PAAF1"
                     /gene_synonym="PAAF; Rpn14; WDR71"
                     /inference="alignment:Splign:2.1.0"
     exon            751..842
                     /gene="PAAF1"
                     /gene_synonym="PAAF; Rpn14; WDR71"
                     /inference="alignment:Splign:2.1.0"
     exon            843..958
                     /gene="PAAF1"
                     /gene_synonym="PAAF; Rpn14; WDR71"
                     /inference="alignment:Splign:2.1.0"
     exon            959..1041
                     /gene="PAAF1"
                     /gene_synonym="PAAF; Rpn14; WDR71"
                     /inference="alignment:Splign:2.1.0"
     exon            1042..1124
                     /gene="PAAF1"
                     /gene_synonym="PAAF; Rpn14; WDR71"
                     /inference="alignment:Splign:2.1.0"
     exon            1125..4954
                     /gene="PAAF1"
                     /gene_synonym="PAAF; Rpn14; WDR71"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1546..1551
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PAAF1"
                     /gene_synonym="PAAF; Rpn14; WDR71"
                     /note="hexamer: AATAAA"
     regulatory      1550..1555
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PAAF1"
                     /gene_synonym="PAAF; Rpn14; WDR71"
                     /note="hexamer: AAGAAA"
     polyA_site      1566
                     /gene="PAAF1"
                     /gene_synonym="PAAF; Rpn14; WDR71"
                     /note="major polyA site"
     polyA_site      1576
                     /gene="PAAF1"
                     /gene_synonym="PAAF; Rpn14; WDR71"
                     /note="major polyA site"
     regulatory      4932..4937
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PAAF1"
                     /gene_synonym="PAAF; Rpn14; WDR71"
                     /note="hexamer: ATTAAA"
     polyA_site      4954
                     /gene="PAAF1"
                     /gene_synonym="PAAF; Rpn14; WDR71"
ORIGIN      
        1 gggctggtgg aggcggggtc gagatggcgg cgcctttgag gattcagagc gactgggcgc
       61 aagccctcag gaaggatgaa ggggaggcct ggctgagctg tcatccccca gggaaaccat
      121 ctttgtatgg cagcctgact tgtcaaggaa ttggcctaga tggcatccca gaggttacag
      181 cttcagaagg atttactgtg aatgaaataa acaagaaaag cattcatatt tcatgtccaa
      241 aggaaaatgc atcttctaag tttttggcac catatactac tttttccaga attcatacaa
      301 agagtataac atgcctggac atttccagca gaggaggtct tggtgtgtct tctagtactg
      361 acgggaccat gaaaatctgg caggcttcca atggagaact caggagagta ttggaaggac
      421 atgtgtttga tgtgaattgt tgcaggtttt tcccatcagg ccttgtggtc ctgagtgggg
      481 gaatggatgc ccagctgaag atatggtcag ctgaagatgc tagctgcgtg gtgaccttca
      541 aaggtcacaa aggaggtatc ctggatacag ccatcgttga tcgggggagg aatgtggtgt
      601 ctgcttctcg agatgggaca gcacgacttt gggattgtgg gcgctcagcc tgcttgggag
      661 tccttgcaga ttgtggttct tctatcaatg gagtggcggt gggtgctgct gacaactcca
      721 taaaccttgg ctcccctgag cagatgccca gtgaacggga ggttggaaca gaggccaaaa
      781 tgctgctctt ggcccgggaa gataagaaac ttcagtgctt gggactacag agcaggcagc
      841 tggtgttcct ctttattggc tcagacgctt tcaactgctg tacttttctc tctggcttct
      901 tgctattggc tgggactcaa gatggaaaca tttatcagct ggatgtgagg agtccaaggg
      961 ctccggtaca agtcatccac agatcaggag caccagttct atccctgcta agtgtcagag
     1021 atggattcat tgctagccaa ggtgatggaa gctgttttat tgtccagcaa gacttagact
     1081 atgtcactga gctcactggg gctgactgtg accctgtgta caaggtagcc acatgggaga
     1141 agcagatcta cacatgctgt cgagacggtc ttgtacgacg ctaccagctt tctgacctct
     1201 gacttcttgg aaagagcagt cccggttagt gaaaaggttt gaccctgatc aacaatgagc
     1261 agaaacatca tcagtccttc ccaaggacca tggcgtttaa tgtcttgggc accccttgga
     1321 aatcacagaa agtcagctgt actggccgtg tggaactctc atcccaagac ctactttgaa
     1381 ctgagtaaga aggtcattgt gcccactgca tttgttccaa cttctccttg tataaactca
     1441 ccccagcaac acagggcaag gatatagatg cttttagttt gttcttaaac cagttttgtt
     1501 aaatgtttac aaggacctca gtactaaagc ctgttctctg gaggaaataa agaaaatatg
     1561 tttggaggtg cctgaatatg aagaactttg ttaaatactc ttactccagc aaaaagttgg
     1621 tcaggacgat ggaattcctt cctcagcact ccctgttgcc tggccataga gaaggcctgc
     1681 ttggcagtag caataaatgt cctgtaagct gccacctggg agagattctt atgcaggtgg
     1741 taaccaactg tcccagtttg cttggaacta aggggttttc tgtgacttga aactttcaat
     1801 gccaaaactg gggcagtctc aaaccaacat gattggtcag cctatatgta ggtgaggaaa
     1861 ctgaatcata agcattgtaa aggcattggc tgtcaaagtg tggttcttag aacagcagca
     1921 tcagtatcac ctgggaactt gacaggaaat agaaattgtt aggcccaatc ctagacctaa
     1981 atcagaaatt ctacgggtgc agccagcagt ctgtatttta acaagcattc caggtgattc
     2041 tgatgtatgc taaagcttga gagccactga tctagaggaa gagatggtgg agggcacttt
     2101 agtcacagct ggaacccagg gctcaaaatg acaagatcgg tctgtaggag atgaggccac
     2161 agaggttggc agagcccaaa tagtgaagga gcacgaatgt tagctaagga gctcagactt
     2221 tacgtggttg gcagtgggga accactgaag ggttttaagc aagagaatgg catggtcacc
     2281 tccttttttc tctaaacata aaaatggaat cataatgtat gtattccatg gcttattttc
     2341 acttaatgtc tctgagattt tccatctcag tacatgtaga cgttcctcat tcttttttaa
     2401 caatgtccag aatatggata ccatattatt tatatttttg agattattag agaaaagttt
     2461 cttgaaagat gtaacacttg agctgggaca tgcagattaa gatttttatt tatttaacgg
     2521 aggaaggtca tttctggctg gggtaataat gttgttgaca gagttctttt ttttgttttt
     2581 tttgagacgg agtctcgctc tgtcacccag actggtgcga tcttggctca ctgcaacctc
     2641 cacctctcag gttcaaacga ttctcctgcc tcagcctccc tagtagctgg gactgcaggc
     2701 atgcaccacc atgcccggct aatatttttt ttgtattttt attagagatg gggtttcacc
     2761 atgttggcca ggctggtctc gaactcctga ccttgtgatc cacctgcctt ggcctcccaa
     2821 agtgctggga ttacaggtgt gagccaccgt acccggccgg ccaccagagt ttttaaaggc
     2881 gtattctcat gtaaattttt tttttttaaa gacagggtct tgctctgttg cccaggctgg
     2941 aatgcgttgg catgattaca gcttctgcct taacctcctg ggctcaagca atcctcccac
     3001 ttcagcctcc caagtagctg aaaccatggg tgcacaccac cacactcggc taatttttta
     3061 aattttttgt agagacagag tctcaccatg ttgcccaggc tggtctcaaa ctcctgaact
     3121 caagtattcc tcccaccttg gcctctcata gtgctggcat tacaggcatg agccacggca
     3181 ctcaaccagg aactttgtct taactttaaa tcccattttt ttctacaaca ccctgttact
     3241 taaaccaaag tgtaaaaaga aaatactgca attcatttaa tatctactct gttctagata
     3301 ctatatttat atatctaatt cttacaagac tcaaaaagcg aatgttatta tttgttttat
     3361 tccgataagg aaactgagac tcaatacatt aaataccaga ggcttcattt ggaccttgga
     3421 cagcaccttc tgctgcactg tgtaatcaca ggcaggtagc aagagacttt tgtgactaga
     3481 gcaatttcat ttcaaggtgc agtttgtgac agggtcaggt agaccagaat ggacatattc
     3541 cagaacttag aaacattaaa tcctaggagc tccaggtgga acatctaaga agtcagatta
     3601 agaaaacagg atgaggctgg gcatggtggc tcacgcctat aatcccagca ctttgggagg
     3661 ccaagacggg tggatcacct gaggtcagga gttcgagacc agcctgacca acatggagaa
     3721 accccgtctc tactaaaaat acagaattag ccgggcatga tggcgcatgt ctgtaatccc
     3781 agctacttgg gaggctgagg caggagaatc acttgatccc gggaggcaga ggttgtggtg
     3841 ggctgagatt gcgccattgc gctccagcct gggcaacaag agtgaaactc cgtctcaaaa
     3901 aaaaaaaaaa agaaaacagg atgaaatggg ccgggcgcag tggctcacgc ctgtaatccc
     3961 agcactttgg gaggccgagg cgggcggatc acaaggtaag gagattgaga ccatcctggc
     4021 taacacagtg aaaccctgtc tacaaaaaat acaaaaaaat ttagccaggc atggtggcag
     4081 gcacctatag tcccagctac ttgggaggct gaggcaggag aatggtgtga acctggcagg
     4141 cagagcttgc agtaagctga gatcgggcca cagcactcca gcctgggcga cagagcgagg
     4201 ctctatctca agaaaaaaaa aaagaaaaaa agaaaacagg aagaaatgtt gtcatttatt
     4261 tgtagaatct gaaacatttg aactcataga agcagtgagt ggaagaacca gcgtggtggc
     4321 tcacgcctgt aatcccagca ctttgggagg ctggggtggg tggatcgctg gagcccagga
     4381 attggagacc agcctgcaca acatgaggaa actctgtctc tactaaaaat acaaaactta
     4441 gccaggtgtg gtggtgggca cctgtaatac cagctactaa ggagactgag gcaggagaat
     4501 tgcttgaacc caggaggtgg agggtgtagt gagctgagat tgcaccactg cactccagct
     4561 tgggcaacag agcgagactc tctctcaaaa aagaaaaaaa aaatatgtat atatatatgt
     4621 atatatatat atttatatat gtagaagcag tgagtagaat ggtggttaca gagactcggg
     4681 gaggaggaat ggggaaatga tggtcatagg gtgcaaagtc tcaggaggaa tatattgtgt
     4741 tttgagatct attgcatagc atggtagatt gctaagagta aatttcaaat gttctcaacc
     4801 caaaaaatgt taagcatttg aggtgatgga tatgttaact ggcttcattt aattattcca
     4861 tattgtattt ataagtcaca ataggacttt gtggcccata attataaaca agtataaatt
     4921 gtccatttac aattaaaaat caattaaaag aaaa
//
