ID RIF1_YEAST Reviewed; 1916 AA. AC P29539; D6VQS1; P89507; DT 01-APR-1993, integrated into UniProtKB/Swiss-Prot. DT 27-JUL-2011, sequence version 3. DT 02-SEP-2026, entry version 189. DE RecName: Full=Telomere length regulator protein RIF1; DE AltName: Full=RAP1-interacting factor 1; GN Name=RIF1; OrderedLocusNames=YBR275C; ORFNames=YBR1743; OS Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast). OC Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; OC Saccharomycetales; Saccharomycetaceae; Saccharomyces. OX NCBI_TaxID=559292; RN [1] RP NUCLEOTIDE SEQUENCE [GENOMIC DNA], FUNCTION, AND INTERACTION WITH RAP1. RC STRAIN=ATCC 204510 / AB320; RX PubMed=1577274; DOI=10.1101/gad.6.5.801; RA Hardy C.F.J., Sussel L., Shore D.; RT "A RAP1-interacting protein involved in transcriptional silencing and RT telomere length regulation."; RL Genes Dev. 6:801-814(1992). RN [2] RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. RC STRAIN=ATCC 204508 / S288c; RX PubMed=7813418; DOI=10.1002/j.1460-2075.1994.tb06923.x; RA Feldmann H., Aigle M., Aljinovic G., Andre B., Baclet M.C., Barthe C., RA Baur A., Becam A.-M., Biteau N., Boles E., Brandt T., Brendel M., RA Brueckner M., Bussereau F., Christiansen C., Contreras R., Crouzet M., RA Cziepluch C., Demolis N., Delaveau T., Doignon F., Domdey H., RA Duesterhus S., Dubois E., Dujon B., El Bakkoury M., Entian K.-D., RA Feuermann M., Fiers W., Fobo G.M., Fritz C., Gassenhuber J., Glansdorff N., RA Goffeau A., Grivell L.A., de Haan M., Hein C., Herbert C.J., RA Hollenberg C.P., Holmstroem K., Jacq C., Jacquet M., Jauniaux J.-C., RA Jonniaux J.-L., Kallesoee T., Kiesau P., Kirchrath L., Koetter P., RA Korol S., Liebl S., Logghe M., Lohan A.J.E., Louis E.J., Li Z.Y., RA Maat M.J., Mallet L., Mannhaupt G., Messenguy F., Miosga T., Molemans F., RA Mueller S., Nasr F., Obermaier B., Perea J., Pierard A., Piravandi E., RA Pohl F.M., Pohl T.M., Potier S., Proft M., Purnelle B., Ramezani Rad M., RA Rieger M., Rose M., Schaaff-Gerstenschlaeger I., Scherens B., RA Schwarzlose C., Skala J., Slonimski P.P., Smits P.H.M., Souciet J.-L., RA Steensma H.Y., Stucka R., Urrestarazu L.A., van der Aart Q.J.M., RA Van Dyck L., Vassarotti A., Vetter I., Vierendeels F., Vissers S., RA Wagner G., de Wergifosse P., Wolfe K.H., Zagulski M., Zimmermann F.K., RA Mewes H.-W., Kleine K.; RT "Complete DNA sequence of yeast chromosome II."; RL EMBO J. 13:5795-5809(1994). RN [3] RP GENOME REANNOTATION, AND SEQUENCE REVISION TO 732. RC STRAIN=ATCC 204508 / S288c; RX PubMed=24374639; DOI=10.1534/g3.113.008995; RA Engel S.R., Dietrich F.S., Fisk D.G., Binkley G., Balakrishnan R., RA Costanzo M.C., Dwight S.S., Hitz B.C., Karra K., Nash R.S., Weng S., RA Wong E.D., Lloyd P., Skrzypek M.S., Miyasato S.R., Simison M., Cherry J.M.; RT "The reference genome sequence of Saccharomyces cerevisiae: Then and now."; RL G3 (Bethesda) 4:389-398(2014). RN [4] RP NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-1096. RC STRAIN=ATCC 204508 / S288c; RX PubMed=8091861; DOI=10.1002/yea.320100007; RA Holmstroem K., Brandt T., Kallesoe T.; RT "The sequence of a 32,420 bp segment located on the right arm of chromosome RT II from Saccharomyces cerevisiae."; RL Yeast 10:S47-S62(1994). RN [5] RP FUNCTION, AND INTERACTION WITH RAP1. RX PubMed=7867933; DOI=10.1101/gad.9.3.370; RA Buck S.W., Shore D.; RT "Action of a RAP1 carboxy-terminal silencing domain reveals an underlying RT competition between HMR and telomeres in yeast."; RL Genes Dev. 9:370-384(1995). RN [6] RP FUNCTION, AND INTERACTION WITH RAP1 AND RIF2. RX PubMed=9087429; DOI=10.1101/gad.11.6.748; RA Wotton D., Shore D.; RT "A novel Rap1p-interacting factor, Rif2p, cooperates with Rif1p to regulate RT telomere length in Saccharomyces cerevisiae."; RL Genes Dev. 11:748-760(1997). RN [7] RP SUBCELLULAR LOCATION. RX PubMed=9710643; DOI=10.1128/mcb.18.9.5600; RA Bourns B.D., Alexander M.K., Smith A.M., Zakian V.A.; RT "Sir proteins, Rif proteins, and Cdc13p bind Saccharomyces telomeres in RT vivo."; RL Mol. Cell. Biol. 18:5600-5608(1998). RN [8] RP FUNCTION, AND SUBCELLULAR LOCATION. RX PubMed=10531008; DOI=10.1016/s0960-9822(99)80483-7; RA Mishra K., Shore D.; RT "Yeast Ku protein plays a direct role in telomeric silencing and RT counteracts inhibition by rif proteins."; RL Curr. Biol. 9:1123-1126(1999). RN [9] RP SUBCELLULAR LOCATION. RX PubMed=12589054; DOI=10.1091/mbc.e02-08-0457; RA Smith C.D., Smith D.L., DeRisi J.L., Blackburn E.H.; RT "Telomeric protein distributions and remodeling through the cell cycle in RT Saccharomyces cerevisiae."; RL Mol. Biol. Cell 14:556-570(2003). RN [10] RP FUNCTION. RX PubMed=15572688; DOI=10.1128/mcb.24.24.10857-10867.2004; RA Levy D.L., Blackburn E.H.; RT "Counting of Rif1p and Rif2p on Saccharomyces cerevisiae telomeres RT regulates telomere length."; RL Mol. Cell. Biol. 24:10857-10867(2004). RN [11] RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-1637, AND IDENTIFICATION BY RP MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. RC STRAIN=ADR376; RX PubMed=17330950; DOI=10.1021/pr060559j; RA Li X., Gerber S.A., Rudner A.D., Beausoleil S.A., Haas W., Villen J., RA Elias J.E., Gygi S.P.; RT "Large-scale phosphorylation analysis of alpha-factor-arrested RT Saccharomyces cerevisiae."; RL J. Proteome Res. 6:1190-1197(2007). RN [12] RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-1637, AND IDENTIFICATION BY RP MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. RX PubMed=17287358; DOI=10.1073/pnas.0607084104; RA Chi A., Huttenhower C., Geer L.Y., Coon J.J., Syka J.E.P., Bai D.L., RA Shabanowitz J., Burke D.J., Troyanskaya O.G., Hunt D.F.; RT "Analysis of phosphorylation sites on proteins from Saccharomyces RT cerevisiae by electron transfer dissociation (ETD) mass spectrometry."; RL Proc. Natl. Acad. Sci. U.S.A. 104:2193-2198(2007). RN [13] RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-97; SER-1637 AND SER-1795, RP AND IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. RX PubMed=18407956; DOI=10.1074/mcp.m700468-mcp200; RA Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H.; RT "A multidimensional chromatography technology for in-depth phosphoproteome RT analysis."; RL Mol. Cell. Proteomics 7:1389-1396(2008). RN [14] RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-1637 AND SER-1852, AND RP IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. RX PubMed=19779198; DOI=10.1126/science.1172867; RA Holt L.J., Tuch B.B., Villen J., Johnson A.D., Gygi S.P., Morgan D.O.; RT "Global analysis of Cdk1 substrate phosphorylation sites provides insights RT into evolution."; RL Science 325:1682-1686(2009). CC -!- FUNCTION: Negatively regulates telomere length by preventing telomere CC elongation or promoting degradation of the telomere ends. Recruited to CC telomeres by interaction with the C-terminus of RAP1, which binds CC directly to telomeric repeat DNA. This may create a negative feedback CC loop in which the addition of new telomere repeats creates binding CC sites for inhibitors of telomere length extension. May also influence CC the balance of transcriptional silencing at telomeres and the silent CC mating type locus HMR, which is mediated by SIR (Silent Information CC Regulator) proteins including SIR3 and SIR4. RIF1 competes with SIR CC proteins for binding to the C-terminus of RAP1. In the absence of RIF1, CC a limiting cellular pool of SIR proteins may preferentially associate CC with RAP1 at sub-telomeric loci, causing enhanced telomeric silencing CC and attenuated silencing of the HMR locus. CC {ECO:0000269|PubMed:10531008, ECO:0000269|PubMed:15572688, CC ECO:0000269|PubMed:1577274, ECO:0000269|PubMed:7867933, CC ECO:0000269|PubMed:9087429}. CC -!- SUBUNIT: Interacts with RAP1 (via C-terminus) (PubMed:1577274, CC PubMed:7867933, PubMed:9087429). Interacts with RIF2 (PubMed:7867933, CC PubMed:9087429). {ECO:0000269|PubMed:1577274, CC ECO:0000269|PubMed:7867933, ECO:0000269|PubMed:9087429}. CC -!- INTERACTION: CC P29539; P11938: RAP1; NbExp=3; IntAct=EBI-2083307, EBI-14821; CC -!- SUBCELLULAR LOCATION: Nucleus. Chromosome, telomere. Note=Localizes to CC telomeres. Telomere association begins in G1/S, attains a peak during CC late G2/S phase of the cell cycle, and is lost during telophase. CC Localization to telomeres may be increased by telomere uncapping caused CC by expression of a mutant telomerase RNA subunit (TLC1). CC -!- SIMILARITY: Belongs to the RIF1 family. {ECO:0000305}. CC --------------------------------------------------------------------------- CC Copyrighted by the UniProt Consortium, see https://www.uniprot.org/terms CC Distributed under the Creative Commons Attribution (CC BY 4.0) License CC --------------------------------------------------------------------------- DR EMBL; X66501; CAA47121.1; -; Genomic_DNA. DR EMBL; Z36144; CAA85238.1; -; Genomic_DNA. DR EMBL; Z36145; CAA85240.1; -; Genomic_DNA. DR EMBL; X76053; CAA53638.1; -; Genomic_DNA. DR EMBL; BK006936; DAA07391.2; -; Genomic_DNA. DR PIR; S46157; S46157. DR RefSeq; NP_009834.4; NM_001178623.4. DR PDB; 4BJS; X-ray; 1.94 A; A/B/C/D=1857-1916. DR PDB; 4BJT; X-ray; 1.61 A; D/E/F=1752-1771. DR PDB; 5NVR; X-ray; 3.95 A; A=177-1282. DR PDB; 5NW5; X-ray; 6.50 A; A/B=100-1321. DR AlphaFoldDB; P29539; -. DR SMR; P29539; -. DR BioGRID; 32970; 151. DR ComplexPortal; CPX-2112; Telosome complex. DR DIP; DIP-801N; -. DR FunCoup; P29539; 146. DR IntAct; P29539; 16. DR MINT; P29539; -. DR STRING; 4932.YBR275C; -. DR GlyGen; P29539; 1 site. DR iPTMnet; P29539; -. DR SwissPalm; P29539; -. DR PaxDb; 4932-YBR275C; -. DR PeptideAtlas; P29539; -. DR EnsemblFungi; YBR275C_mRNA; YBR275C; YBR275C. DR GeneID; 852578; -. DR KEGG; sce:YBR275C; -. DR AGR; SGD:S000000479; -. DR SGD; S000000479; RIF1. DR VEuPathDB; FungiDB:YBR275C; -. DR eggNOG; ENOG502QPT7; Eukaryota. DR HOGENOM; CLU_002800_0_0_1; -. DR InParanoid; P29539; -. DR OMA; HERIYQC; -. DR OrthoDB; 4070686at2759; -. DR BioCyc; YEAST:G3O-29196-MONOMER; -. DR BioGRID-ORCS; 852578; 0 hits in 10 CRISPR screens. DR EvolutionaryTrace; P29539; -. DR PRO; PR:P29539; -. DR Proteomes; UP000002311; Chromosome II. DR RNAct; P29539; protein. DR GO; GO:0000781; C:chromosome, telomeric region; IDA:SGD. DR GO; GO:0140445; C:chromosome, telomeric repeat region; IBA:GO_Central. DR GO; GO:0005634; C:nucleus; IBA:GO_Central. DR GO; GO:0070187; C:shelterin complex; IPI:ComplexPortal. DR GO; GO:0019237; F:centromeric DNA binding; IDA:SGD. DR GO; GO:0003688; F:DNA replication origin binding; IDA:SGD. DR GO; GO:0000979; F:RNA polymerase II core promoter sequence-specific DNA binding; IDA:SGD. DR GO; GO:0042162; F:telomeric repeat DNA binding; IDA:SGD. DR GO; GO:0000729; P:DNA double-strand break processing; IMP:SGD. DR GO; GO:0006270; P:DNA replication initiation; IGI:SGD. DR GO; GO:0032297; P:negative regulation of DNA-templated DNA replication initiation; IMP:SGD. DR GO; GO:0101018; P:negative regulation of mitotic DNA replication initiation from late origin; IMP:SGD. DR GO; GO:0070198; P:protein localization to chromosome, telomeric region; IMP:SGD. DR GO; GO:0097752; P:regulation of DNA stability; IMP:SGD. DR GO; GO:0030466; P:silent mating-type cassette heterochromatin formation; IMP:SGD. DR GO; GO:0016233; P:telomere capping; IMP:SGD. DR GO; GO:0000723; P:telomere maintenance; IMP:SGD. DR CDD; cd14267; Rif1_CTD_C-II_like; 1. DR DisProt; DP01607; -. DR Gene3D; 6.10.140.1760; -; 1. DR IDEAL; IID50206; -. DR InterPro; IPR022031; Rif1_N. DR PANTHER; PTHR22928; TELOMERE-ASSOCIATED PROTEIN RIF1; 1. DR PANTHER; PTHR22928:SF3; TELOMERE-ASSOCIATED PROTEIN RIF1; 1. DR Pfam; PF12231; Rif1_N; 1. DR PDBsum; 4BJS; -. DR PDBsum; 4BJT; -. DR PDBsum; 5NVR; -. DR PDBsum; 5NW5; -. PE 1: Evidence at protein level; KW 3D-structure; Cell cycle; Chromosome; Nucleus; Phosphoprotein; KW Reference proteome; Telomere. FT CHAIN 1..1916 FT /note="Telomere length regulator protein RIF1" FT /id="PRO_0000097336" FT REGION 1..71 FT /note="Disordered" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT REGION 126..149 FT /note="Disordered" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT REGION 1314..1372 FT /note="Disordered" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT REGION 1441..1476 FT /note="Disordered" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT REGION 1606..1678 FT /note="Disordered" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT REGION 1789..1811 FT /note="Disordered" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT REGION 1829..1854 FT /note="Disordered" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT COMPBIAS 1..26 FT /note="Basic and acidic residues" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT COMPBIAS 27..37 FT /note="Polar residues" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT COMPBIAS 1324..1334 FT /note="Low complexity" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT COMPBIAS 1342..1355 FT /note="Polar residues" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT COMPBIAS 1615..1625 FT /note="Polar residues" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT COMPBIAS 1626..1635 FT /note="Basic and acidic residues" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT COMPBIAS 1800..1811 FT /note="Polar residues" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT MOD_RES 97 FT /note="Phosphoserine" FT /evidence="ECO:0007744|PubMed:18407956" FT MOD_RES 1637 FT /note="Phosphoserine" FT /evidence="ECO:0007744|PubMed:17287358, FT ECO:0007744|PubMed:17330950, ECO:0007744|PubMed:18407956, FT ECO:0007744|PubMed:19779198" FT MOD_RES 1795 FT /note="Phosphoserine" FT /evidence="ECO:0007744|PubMed:18407956" FT MOD_RES 1852 FT /note="Phosphoserine" FT /evidence="ECO:0007744|PubMed:19779198" FT CONFLICT 580 FT /note="C -> S (in Ref. 1; CAA47121)" FT /evidence="ECO:0000305" FT CONFLICT 732 FT /note="A -> T (in Ref. 2; CAA85238 and 4; CAA53638)" FT /evidence="ECO:0000305" FT HELIX 1859..1861 FT /evidence="ECO:0007829|PDB:4BJS" FT HELIX 1866..1876 FT /evidence="ECO:0007829|PDB:4BJS" FT HELIX 1880..1885 FT /evidence="ECO:0007829|PDB:4BJS" FT HELIX 1888..1907 FT /evidence="ECO:0007829|PDB:4BJS" SQ SEQUENCE 1916 AA; 217931 MW; 07070AF02361D96F CRC64; MSKDFSDKKK HTIDRIDQHI LRRSQHDNYS NGSSPWMKTN LPPPSPQAHM HIQSDLSPTP KRRKLASSSD CENKQFDLSA INKNLYPEDT GSRLMQSLPE LSASNSDNVS PVTKSVAFSD RIESSPIYRI PGSSPKPSPS SKPGKSILRN RLPSVRTVSD LSYNKLQYTQ HKLHNGNIFT SPYKETRVNP RALEYWVSGE IHGLVDNESV SEFKEIIEGG LGILRQESED YVARRFEVYA TFNNIIPILT TKNVNEVDQK FNILIVNIES IIEICIPHLQ IAQDTLLSSS EKKNPFVIRL YVQIVRFFSA IMSNFKIVKW LTKRPDLVNK LKVIYRWTTG ALRNENSNKI IITAQVSFLR DEKFGTFFLS NEEIKPIIST FTEIMEINSH NLIYEKLLLI RGFLSKYPKL MIETVTSWLP GEVLPRIIIG DEIYSMKILI TSIVVLLELL KKCLDFVDEH ERIYQCIMLS PVCETIPEKF LSKLPLNSYD SANLDKVTIG HLLTQQIKNY IVVKNDNKIA MDLWLSMTGL LYDSGKRVYD LTSESNKVWF DLNNLCFINN HPKTRLMSIK VWRIITYCIC TKISQKNQEG NKSLLSLLRT PFQMTLPYVN DPSAREGIIY HLLGVVYTAF TSNKNLSTDM FELFWDHLIT PIYEDYVFKY DSIHLQNVLF TVLHLLIGGK NADVALERKY KKHIHPMSVI ASEGVKLKDI SSLPPQIIKR EYDKIMKVVF QAVEVAISNV NLAHDLILTS LKHLPEDRKD QTHLESFSSL ILKVTQNNKD TPIFRDFFGA VTSSFVYTFL DLFLRKNDSS LVNFNIQISK VGISQGNMTL DLLKDVIRKA RNETSEFLII EKFLELDDKK TEVYAQNWVG STLLPPNISF REFQSLANIV NKVPNENSIE NFLDLCLKLS FPVNLFTLLH VSMWSNNNFI YFIQSYVSKN ENKLNVDLIT LLKTSLPGNP ELFSGLLPFL RRNKFMDILE YCIHSNPNLL NSIPDLNSDL LLKLLPRSRA SYFAANIKLF KCSEQLTLVR WLLKGQQLEQ LNQNFSEIEN VLQNASDSEL EKSEIIRELL HLAMANPIEP LFSGLLNFCI KNNMADHLDE FCGNMTSEVL FKISPELLLK LLTYKEKPNG KLLAAVIEKI ENGDDDYILE LLEKIIIQKE IQILEKLKEP LLVFFLNPVS SNMQKHKKST NMLRELVLLY LTKPLSRSAA KKFFSMLISI LPPNPNYQTI DMVNLLIDLI KSHNRKFKDK RTYNATLKTI GKWIQESGVV HQGDSSKEIE AIPDTKSMYI PCEGSENKLS NLQRKVDSQD IQVPATQGMK EPPSSIQISS QISAKDSDSI SLKNTAIMNS SQQESHANRS RSIDDETLEE VDNESIREID QQMKSTQLDK NVANHSNICS TKSDEVDVTE LHESIDTQSS EVNAYQPIEV LTSELKAVTN RSIKTNPDHN VVNSDNPLKR PSKETPTSEN KRSKGHETMV DVLVSEEQAV SPSSDVICTN IKSIANEESS LALRNSIKVE TNCNENSLNV TLDLDQQTIT KEDGKGQVEH VQRQENQESM NKINSKSFTQ DNIAQYKSVK KARPNNEGEN NDYACNVEQA SPVRNEVPGD GIQIPSGTIL LNSSKQTEKS KVDDLRSDED EHGTVAQEKH QVGAINSRNK NNDRMDSTPI QGTEEESREV VMTEEGINVR LEDSGTCELN KNLKGPLKGD KDANINDDFV PVEENVRDEG FLKSMEHAVS KETGLEEQPE VADISVLPEI RIPIFNSLKM QGSKSQIKEK LKKRLQRNEL MPPDSPPRMT ENTNINAQNG LDTVPKTIGG KEKHHEIQLG QAHTEADGEP LLGGDGNEDA TSREATPSLK VHFFSKKSRR LVARLRGFTP GDLNGISVEE RRNLRIELLD FMMRLEYYSN RDNDMN //