LOCUS       NP_008938                551 aa            linear   PRI 27-APR-2025
DEFINITION  cleavage and polyadenylation specificity factor subunit 6 isoform 1
            [Homo sapiens].
ACCESSION   NP_008938
VERSION     NP_008938.2
DBSOURCE    REFSEQ: accession NM_007007.3
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  (residues 1 to 551)
  AUTHORS   Khoroshkin,M., Buyan,A., Dodel,M., Navickas,A., Yu,J., Trejo,F.,
            Doty,A., Baratam,R., Zhou,S., Lee,S.B., Joshi,T., Garcia,K.,
            Choi,B., Miglani,S., Subramanyam,V., Modi,H., Carpenter,C.,
            Markett,D., Corces,M.R., Mardakheh,F.K., Kulakovskiy,I.V. and
            Goodarzi,H.
  TITLE     Systematic identification of post-transcriptional regulatory
            modules
  JOURNAL   Nat Commun 15 (1), 7872 (2024)
   PUBMED   39251607
  REMARK    Erratum:[Nat Commun. 2024 Oct 28;15(1):9277. doi:
            10.1038/s41467-024-52903-4. PMID: 39468017]
            Publication Status: Online-Only
REFERENCE   2  (residues 1 to 551)
  AUTHORS   Guedan,A., Burley,M., Caroe,E.R. and Bishop,K.N.
  TITLE     HIV-1 Capsid Rapidly Induces Long-Lived CPSF6 Puncta in
            Non-Dividing Cells, but Similar Puncta Already Exist in Uninfected
            T-Cells
  JOURNAL   Viruses 16 (5), 670 (2024)
   PUBMED   38793552
  REMARK    GeneRIF: HIV-1 Capsid Rapidly Induces Long-Lived CPSF6 Puncta in
            Non-Dividing Cells, but Similar Puncta Already Exist in Uninfected
            T-Cells.
            Publication Status: Online-Only
REFERENCE   3  (residues 1 to 551)
  AUTHORS   Ge,Y., Huang,J., Chen,R., Fu,Y., Ling,T., Ou,X., Rong,X., Cheng,Y.,
            Lin,Y., Zhou,F., Lu,C., Yuan,S. and Xu,A.
  TITLE     Downregulation of CPSF6 leads to global mRNA 3' UTR shortening and
            enhanced antiviral immune responses
  JOURNAL   PLoS Pathog 20 (2), e1012061 (2024)
   PUBMED   38416782
  REMARK    GeneRIF: Downregulation of CPSF6 leads to global mRNA 3' UTR
            shortening and enhanced antiviral immune responses.
            Publication Status: Online-Only
REFERENCE   4  (residues 1 to 551)
  AUTHORS   Liu,S., Wu,R., Chen,L., Deng,K., Ou,X., Lu,X., Li,M., Liu,C.,
            Chen,S., Fu,Y. and Xu,A.
  TITLE     CPSF6 regulates alternative polyadenylation and proliferation of
            cancer cells through phase separation
  JOURNAL   Cell Rep 42 (10), 113197 (2023)
   PUBMED   37777964
  REMARK    GeneRIF: CPSF6 regulates alternative polyadenylation and
            proliferation of cancer cells through phase separation.
REFERENCE   5  (residues 1 to 551)
  AUTHORS   Luchsinger,C., Lee,K., Mardones,G.A., KewalRamani,V.N. and
            Diaz-Griffero,F.
  TITLE     Formation of nuclear CPSF6/CPSF5 biomolecular condensates upon
            HIV-1 entry into the nucleus is important for productive infection
  JOURNAL   Sci Rep 13 (1), 10974 (2023)
   PUBMED   37414787
  REMARK    GeneRIF: Formation of nuclear CPSF6/CPSF5 biomolecular condensates
            upon HIV-1 entry into the nucleus is important for productive
            infection.
            Publication Status: Online-Only
REFERENCE   6  (residues 1 to 551)
  AUTHORS   Dettwiler,S., Aringhieri,C., Cardinale,S., Keller,W. and
            Barabino,S.M.
  TITLE     Distinct sequence motifs within the 68-kDa subunit of cleavage
            factor Im mediate RNA binding, protein-protein interactions, and
            subcellular localization
  JOURNAL   J Biol Chem 279 (34), 35788-35797 (2004)
   PUBMED   15169763
  REMARK    GeneRIF: region in the subunit of CF I(m) involved in RNA binding,
            protein-protein interactions, and subcellular localization
REFERENCE   7  (residues 1 to 551)
  AUTHORS   Brown,K.M. and Gilmartin,G.M.
  TITLE     A mechanism for the regulation of pre-mRNA 3' processing by human
            cleavage factor Im
  JOURNAL   Mol Cell 12 (6), 1467-1476 (2003)
   PUBMED   14690600
  REMARK    GeneRIF: Data show that cleavage factor I(m) can stimulate both
            cleavage and poly(adenine) addition, and can act to suppress
            poly(A) site cleavage in a sequence-dependent manner.
            GeneRIF: Elevated levels of human cleavage factor Im suppressed
            cleavage at the primary poly(A) site of the pre-mRNA encoding the
            68 kDa subunit of CFI(m).
REFERENCE   8  (residues 1 to 551)
  AUTHORS   Awasthi,S. and Alwine,J.C.
  TITLE     Association of polyadenylation cleavage factor I with U1 snRNP
  JOURNAL   RNA 9 (11), 1400-1409 (2003)
   PUBMED   14561889
REFERENCE   9  (residues 1 to 551)
  AUTHORS   Ruegsegger,U., Blank,D. and Keller,W.
  TITLE     Human pre-mRNA cleavage factor Im is related to spliceosomal SR
            proteins and can be reconstituted in vitro from recombinant
            subunits
  JOURNAL   Mol Cell 1 (2), 243-253 (1998)
   PUBMED   9659921
REFERENCE   10 (residues 1 to 551)
  AUTHORS   Ruegsegger,U., Beyer,K. and Keller,W.
  TITLE     Purification and characterization of human cleavage factor Im
            involved in the 3' end processing of messenger RNA precursors
  JOURNAL   J Biol Chem 271 (11), 6107-6113 (1996)
   PUBMED   8626397
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            DA365448.1, AK223568.1, AC020656.33 and AW189370.1.
            
            On Dec 12, 2007 this sequence version replaced NP_008938.1.
            
            Summary: The protein encoded by this gene is one subunit of a
            cleavage factor required for 3' RNA cleavage and polyadenylation
            processing. The interaction of the protein with the RNA is one of
            the earliest steps in the assembly of the 3' end processing complex
            and facilitates the recruitment of other processing factors. The
            cleavage factor complex is composed of four polypeptides. This gene
            encodes the 68kD subunit. It has a domain organization reminiscent
            of spliceosomal proteins. [provided by RefSeq, Jul 2008].
            
            Transcript Variant: This variant (1) lacks an alternate in-frame
            exon in the central coding region, compared to variant 2. The
            encoded isoform (1) is shorter than isoform 2.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            transcript and genomic sequence to make the sequence consistent
            with the reference genome assembly. The genomic coordinates used
            for the transcript record were based on alignments.
            
            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 :: SRR1660803.127421.1,
                                           SRR1660805.242393.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000435070.7/ ENSP00000391774.2
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
FEATURES             Location/Qualifiers
     source          1..551
                     /organism="Homo sapiens"
                     /db_xref="taxon:9606"
                     /chromosome="12"
                     /map="12q15"
     Protein         1..551
                     /product="cleavage and polyadenylation specificity factor
                     subunit 6 isoform 1"
                     /note="pre-mRNA cleavage factor Im (68kD); pre-mRNA
                     cleavage factor I, 68kD subunit; cleavage factor Im
                     complex 68 kDa subunit; cleavage and polyadenylation
                     specificity factor subunit 6; protein HPBRII-4/7; CPSF 68
                     kDa subunit; pre-mRNA cleavage factor Im 68 kDa subunit;
                     cleavage and polyadenylation specificity factor 68 kDa
                     subunit; cleavage and polyadenylation specific factor 6,
                     68kDa"
                     /calculated_mol_wt=59079
     Region          1..213
                     /region_name="Necessary for interaction with NXF1.
                     /evidence=ECO:0000269|PubMed:19864460"
                     /note="propagated from UniProtKB/Swiss-Prot (Q16630.2)"
     Region          81..161
                     /region_name="Necessary for interaction with NUDT21/CPSF5.
                     /evidence=ECO:0000269|PubMed:15169763"
                     /note="propagated from UniProtKB/Swiss-Prot (Q16630.2)"
     Region          81..161
                     /region_name="Necessary for nuclear paraspeckles
                     localization. /evidence=ECO:0000269|PubMed:17267687"
                     /note="propagated from UniProtKB/Swiss-Prot (Q16630.2)"
     Region          82..158
                     /region_name="RRM_CFIm68"
                     /note="RNA recognition motif (RRM) found in pre-mRNA
                     cleavage factor Im 68 kDa subunit (CFIm68 or CPSF6) and
                     similar proteins; cd12643"
                     /db_xref="CDD:410048"
     Site            order(90..95,113,116..123)
                     /site_type="other"
                     /note="polypeptide substrate binding site [polypeptide
                     binding]"
                     /db_xref="CDD:410048"
     Site            157
                     /site_type="phosphorylation"
                     /note="Phosphothreonine.
                     /evidence=ECO:0000269|PubMed:30916345; propagated from
                     UniProtKB/Swiss-Prot (Q16630.2)"
     Region          169..411
                     /region_name="Disordered.
                     /evidence=ECO:0000256|SAM:MobiDB-lite"
                     /note="propagated from UniProtKB/Swiss-Prot (Q16630.2)"
     Region          202..206
                     /region_name="GAR. /evidence=ECO:0000269|PubMed:20562214"
                     /note="propagated from UniProtKB/Swiss-Prot (Q16630.2)"
     Region          358..551
                     /region_name="(Microbial infection) Binds to HIV-1 capsid
                     protein p24 (CA). /evidence=ECO:0000269|PubMed:24130490"
                     /note="propagated from UniProtKB/Swiss-Prot (Q16630.2)"
     Region          404..551
                     /region_name="Sufficient for nuclear speckle localization.
                     /evidence=ECO:0000269|PubMed:17267687"
                     /note="propagated from UniProtKB/Swiss-Prot (Q16630.2)"
     Site            404
                     /site_type="phosphorylation"
                     /note="Phosphothreonine.
                     /evidence=ECO:0000269|PubMed:30916345,
                     ECO:0007744|PubMed:18220336, ECO:0007744|PubMed:23186163;
                     propagated from UniProtKB/Swiss-Prot (Q16630.2)"
     Region          405..551
                     /region_name="Necessary for RNA-binding.
                     /evidence=ECO:0000269|PubMed:15169763"
                     /note="propagated from UniProtKB/Swiss-Prot (Q16630.2)"
     Site            407
                     /site_type="phosphorylation"
                     /note="Phosphothreonine.
                     /evidence=ECO:0000269|PubMed:30916345,
                     ECO:0007744|PubMed:19690332, ECO:0007744|PubMed:23186163;
                     propagated from UniProtKB/Swiss-Prot (Q16630.2)"
     Region          477..551
                     /region_name="Disordered.
                     /evidence=ECO:0000256|SAM:MobiDB-lite"
                     /note="propagated from UniProtKB/Swiss-Prot (Q16630.2)"
     Region          481..551
                     /region_name="Necessary for interaction with SRSF3, SRSF7
                     and TRA2B/SFRS10. /evidence=ECO:0000269|PubMed:15169763"
                     /note="propagated from UniProtKB/Swiss-Prot (Q16630.2)"
     Region          490..551
                     /region_name="Arg/Ser-rich domain.
                     /evidence=ECO:0000269|PubMed:29276085,
                     ECO:0000269|PubMed:30916345"
                     /note="propagated from UniProtKB/Swiss-Prot (Q16630.2)"
     Site            494
                     /site_type="phosphorylation"
                     /note="Phosphoserine.
                     /evidence=ECO:0000269|PubMed:30916345; propagated from
                     UniProtKB/Swiss-Prot (Q16630.2)"
     Site            500
                     /site_type="phosphorylation"
                     /note="Phosphoserine.
                     /evidence=ECO:0000269|PubMed:30916345; propagated from
                     UniProtKB/Swiss-Prot (Q16630.2)"
     Region          510..551
                     /region_name="Sufficient for nuclear targeting.
                     /evidence=ECO:0000269|PubMed:15169763"
                     /note="propagated from UniProtKB/Swiss-Prot (Q16630.2)"
     Site            511
                     /site_type="phosphorylation"
                     /note="Phosphoserine.
                     /evidence=ECO:0000269|PubMed:30916345; propagated from
                     UniProtKB/Swiss-Prot (Q16630.2)"
     Site            513
                     /site_type="phosphorylation"
                     /note="Phosphoserine.
                     /evidence=ECO:0000269|PubMed:30916345; propagated from
                     UniProtKB/Swiss-Prot (Q16630.2)"
     Site            525
                     /site_type="phosphorylation"
                     /note="Phosphoserine.
                     /evidence=ECO:0000305|PubMed:30916345; propagated from
                     UniProtKB/Swiss-Prot (Q16630.2)"
     CDS             1..551
                     /gene="CPSF6"
                     /gene_synonym="CFIM; CFIM68; CFIM72; HPBRII-4; HPBRII-7"
                     /coded_by="NM_007007.3:79..1734"
                     /note="isoform 1 is encoded by transcript variant 1"
                     /db_xref="CCDS:CCDS8988.1"
                     /db_xref="GeneID:11052"
                     /db_xref="HGNC:HGNC:13871"
                     /db_xref="MIM:604979"
ORIGIN      
        1 madgvdhidi yadvgeefnq eaeygghdqi dlyddvisps anngdapedr dymdtlpptv
       61 gddvgkgaap nvvytytgkr ialyignltw wttdedltea vhslgvndil eikffenran
      121 gqskgfalvg vgseasskkl mdllpkrelh gqnpvvtpcn kqflsqfemq srkttqsgqm
      181 sgegkagppg gssraafpqg grgrgrfpga vpggdrfpgp agpggppppf pagqtpprpp
      241 lgppgppgpp gppppgqvlp pplagppnrg drppppvlfp gqpfgqpplg plppgppppv
      301 pgygpppgpp ppqqgppppp gpfpprppgp lgppltlapp phlpgpppga pppaphvnpa
      361 ffppptnsgm ptsdsrgppp tdpygrpppy drgdygppgr emdtartpls eaefeeimnr
      421 nraisssais ravsdasagd ygsaietlvt aislikqskv saddrckvli sslqdclhgi
      481 esksygsgsr rersrerdhs rsreksrrhk srsrdrhddy yrersrerer hrdrdrdrdr
      541 erdrereyrh r
//
