ID   PAF1_CAEEL              Reviewed;         425 AA.
AC   P90783;
DT   18-MAR-2008, integrated into UniProtKB/Swiss-Prot.
DT   01-MAY-1999, sequence version 2.
DT   03-AUG-2022, entry version 129.
DE   RecName: Full=RNA polymerase II-associated factor 1 homolog {ECO:0000250|UniProtKB:Q8K2T8};
GN   Name=pafo-1 {ECO:0000312|WormBase:C55A6.9};
GN   ORFNames=C55A6.9 {ECO:0000312|WormBase:C55A6.9};
OS   Caenorhabditis elegans.
OC   Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida;
OC   Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae;
OC   Caenorhabditis.
OX   NCBI_TaxID=6239;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=Bristol N2;
RX   PubMed=9851916; DOI=10.1126/science.282.5396.2012;
RG   The C. elegans sequencing consortium;
RT   "Genome sequence of the nematode C. elegans: a platform for investigating
RT   biology.";
RL   Science 282:2012-2018(1998).
RN   [2]
RP   SUBCELLULAR LOCATION, DEVELOPMENTAL STAGE, AND DISRUPTION PHENOTYPE.
RX   PubMed=24721716; DOI=10.1016/j.ydbio.2014.04.002;
RA   Kubota Y., Tsuyama K., Takabayashi Y., Haruta N., Maruyama R., Iida N.,
RA   Sugimoto A.;
RT   "The PAF1 complex is involved in embryonic epidermal morphogenesis in
RT   Caenorhabditis elegans.";
RL   Dev. Biol. 391:43-53(2014).
CC   -!- FUNCTION: Component of the PAF1 complex which is a multifunctional
CC       complex involved in transcription initiation via genetic interactions
CC       with TATA-binding proteins, elongation and transcription-coupled
CC       histone modification. {ECO:0000250|UniProtKB:P38351}.
CC   -!- SUBUNIT: Component of the PAF1 complex which consists of at least cdc-
CC       73, ctr-9, leo-1, pafo-1 and rtfo-1. {ECO:0000250|UniProtKB:P38351}.
CC   -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000269|PubMed:24721716,
CC       ECO:0000305}. Note=Nuclear localization depends on PAF1 complex
CC       components ctr-9, leo-1 and cdc-73. {ECO:0000269|PubMed:24721716,
CC       ECO:0000303|PubMed:24721716}.
CC   -!- DEVELOPMENTAL STAGE: Expressed in both somatic cells and germ cells
CC       from the one-cell stage onwards. {ECO:0000269|PubMed:24721716}.
CC   -!- DISRUPTION PHENOTYPE: RNAi-mediated knock-down is mostly embryonic
CC       lethal. Embryogenesis proceeds more slowly, with embryos displaying
CC       defects in the positioning and shape of epidermal cells. Leo-1 partly
CC       mislocalizes to the cytoplasm, but nuclear localization of rtfo-1 is
CC       unaffected. {ECO:0000269|PubMed:24721716}.
CC   -!- SIMILARITY: Belongs to the PAF1 family. {ECO:0000305}.
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DR   EMBL; Z81051; CAB02869.1; -; Genomic_DNA.
DR   PIR; T20261; T20261.
DR   RefSeq; NP_505925.1; NM_073524.3.
DR   AlphaFoldDB; P90783; -.
DR   SMR; P90783; -.
DR   BioGRID; 44609; 6.
DR   ComplexPortal; CPX-966; PAF1 complex.
DR   DIP; DIP-27306N; -.
DR   IntAct; P90783; 1.
DR   STRING; 6239.C55A6.9; -.
DR   EPD; P90783; -.
DR   PaxDb; P90783; -.
DR   PeptideAtlas; P90783; -.
DR   PRIDE; P90783; -.
DR   EnsemblMetazoa; C55A6.9.1; C55A6.9.1; WBGene00008338.
DR   GeneID; 179583; -.
DR   KEGG; cel:CELE_C55A6.9; -.
DR   UCSC; C55A6.9; c. elegans.
DR   CTD; 179583; -.
DR   WormBase; C55A6.9; CE20614; WBGene00008338; pafo-1.
DR   eggNOG; KOG2478; Eukaryota.
DR   GeneTree; ENSGT00390000001474; -.
DR   HOGENOM; CLU_021991_0_1_1; -.
DR   InParanoid; P90783; -.
DR   OMA; VHHRPLE; -.
DR   OrthoDB; 599989at2759; -.
DR   PhylomeDB; P90783; -.
DR   Reactome; R-CEL-112382; Formation of RNA Pol II elongation complex.
DR   Reactome; R-CEL-674695; RNA Polymerase II Pre-transcription Events.
DR   Reactome; R-CEL-75955; RNA Polymerase II Transcription Elongation.
DR   PRO; PR:P90783; -.
DR   Proteomes; UP000001940; Chromosome V.
DR   GO; GO:0016593; C:Cdc73/Paf1 complex; ISS:UniProtKB.
DR   GO; GO:0005634; C:nucleus; IDA:WormBase.
DR   GO; GO:0003682; F:chromatin binding; IBA:GO_Central.
DR   GO; GO:0000993; F:RNA polymerase II complex binding; IBA:GO_Central.
DR   GO; GO:0016571; P:histone methylation; IC:ComplexPortal.
DR   GO; GO:0006368; P:transcription elongation from RNA polymerase II promoter; IC:ComplexPortal.
DR   InterPro; IPR007133; RNA_pol_II-assoc_Paf1.
DR   PANTHER; PTHR23188; PTHR23188; 1.
DR   Pfam; PF03985; Paf1; 1.
PE   2: Evidence at transcript level;
KW   Coiled coil; Nucleus; Reference proteome; Transcription;
KW   Transcription regulation.
FT   CHAIN           1..425
FT                   /note="RNA polymerase II-associated factor 1 homolog"
FT                   /id="PRO_0000326407"
FT   REGION          331..425
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   COILED          152..174
FT                   /evidence="ECO:0000255"
FT   COMPBIAS        346..425
FT                   /note="Basic and acidic residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ   SEQUENCE   425 AA;  49898 MW;  4BA06AF90913DCC5 CRC64;
     MPQESSDAKR IEPPRKVDFM LKPRFTNTVP DVPFDAKFMT CPFVPLGRFV EFQPAAIYRD
     YKHAVICDDD MGLNVDLIDL KKYDEDPIET EIDEKDNILL EDDGAAKLIA KRSQQHSKLV
     PWMRKTEYIS TEFNRFGVTA DRQETKLGYN LKKNQQVEDM YRDKQSQIDA INKTFEDVRK
     PVKEHYSKKG VKAVEESFVF PDFDHWKHLF AHVQFDGDTI TTEFEEEDER QQARESSVIK
     AMEFEDQKFA AVFVPTIGCL TSFMDDLELE RPFDEDMKYE FLLSREYTFK MEHLPPRDRD
     VFIMYHRNNV FQYNEVDCNV KMTRKPKMAL SRKSKLTLTY RNPSELEQKD MNKREAELYE
     QPKTRKQEIL EKIQEKKEEG GDSSDQSSDS DDDKPQKSRS DSSSDVSSDD DSPRKKEPTV
     DSDSD