LRIF1_MOUSE
ID LRIF1_MOUSE Reviewed; 755 AA.
AC Q8CDD9; Q149J0; Q8C893;
DT 03-OCT-2006, integrated into UniProtKB/Swiss-Prot.
DT 03-OCT-2006, sequence version 2.
DT 03-AUG-2022, entry version 118.
DE RecName: Full=Ligand-dependent nuclear receptor-interacting factor 1;
GN Name=Lrif1;
OS Mus musculus (Mouse).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia;
OC Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae;
OC Murinae; Mus; Mus.
OX NCBI_TaxID=10090;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2), AND NUCLEOTIDE SEQUENCE
RP [LARGE SCALE MRNA] OF 1-523 (ISOFORM 1).
RC STRAIN=C57BL/6J; TISSUE=Testis;
RX PubMed=16141072; DOI=10.1126/science.1112014;
RA Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N.,
RA Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K.,
RA Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.,
RA Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R.,
RA Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T.,
RA Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A.,
RA Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B.,
RA Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M.,
RA Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S.,
RA Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E.,
RA Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D.,
RA Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M.,
RA Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H.,
RA Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V.,
RA Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S.,
RA Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H.,
RA Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N.,
RA Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F.,
RA Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G.,
RA Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z.,
RA Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C.,
RA Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y.,
RA Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S.,
RA Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K.,
RA Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R.,
RA van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H.,
RA Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M.,
RA Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C.,
RA Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S.,
RA Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K.,
RA Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M.,
RA Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C.,
RA Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A.,
RA Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.;
RT "The transcriptional landscape of the mammalian genome.";
RL Science 309:1559-1563(2005).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=C57BL/6J;
RX PubMed=19468303; DOI=10.1371/journal.pbio.1000112;
RA Church D.M., Goodstadt L., Hillier L.W., Zody M.C., Goldstein S., She X.,
RA Bult C.J., Agarwala R., Cherry J.L., DiCuccio M., Hlavina W., Kapustin Y.,
RA Meric P., Maglott D., Birtle Z., Marques A.C., Graves T., Zhou S.,
RA Teague B., Potamousis K., Churas C., Place M., Herschleb J., Runnheim R.,
RA Forrest D., Amos-Landgraf J., Schwartz D.C., Cheng Z., Lindblad-Toh K.,
RA Eichler E.E., Ponting C.P.;
RT "Lineage-specific biology revealed by a finished genome assembly of the
RT mouse.";
RL PLoS Biol. 7:E1000112-E1000112(2009).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
RX PubMed=15489334; DOI=10.1101/gr.2596504;
RG The MGC Project Team;
RT "The status, quality, and expansion of the NIH full-length cDNA project:
RT the Mammalian Gene Collection (MGC).";
RL Genome Res. 14:2121-2127(2004).
RN [4]
RP SUBCELLULAR LOCATION, AND INTERACTION WITH SMCHD1.
RX PubMed=26391951; DOI=10.1128/mcb.00432-15;
RA Brideau N.J., Coker H., Gendrel A.V., Siebert C.A., Bezstarosti K.,
RA Demmers J., Poot R.A., Nesterova T.B., Brockdorff N.;
RT "Independent Mechanisms Target SMCHD1 to Trimethylated Histone H3 Lysine 9-
RT Modified Chromatin and the Inactive X Chromosome.";
RL Mol. Cell. Biol. 35:4053-4068(2015).
CC -!- FUNCTION: Together with SMCHD1, involved in chromosome X inactivation
CC in females by promoting the compaction of heterochromatin. Also able to
CC repress the ligand-induced transcriptional activity of retinoic acid
CC receptor alpha (RARA), possibly through direct recruitment of histone
CC deacetylases. {ECO:0000250|UniProtKB:Q5T3J3}.
CC -!- SUBUNIT: Interacts with RARA (By similarity). Interacts with SMCHD1;
CC leading to recruitment to inactivated chromosome X in females
CC (PubMed:26391951). Interacts (via PxVxL motif) with HP1 (CBX1/HP1-beta,
CC CBX3/HP1-gamma and CBX5/HP1-alpha) (By similarity).
CC {ECO:0000250|UniProtKB:Q5T3J3, ECO:0000269|PubMed:26391951}.
CC -!- SUBCELLULAR LOCATION: Chromosome {ECO:0000269|PubMed:26391951}. Nucleus
CC matrix {ECO:0000250|UniProtKB:Q5T3J3}. Note=Localizes to Barr body;
CC recruited by SMCHD1. {ECO:0000250|UniProtKB:Q5T3J3}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q8CDD9-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q8CDD9-2; Sequence=VSP_020722, VSP_020723;
CC -!- DOMAIN: The Pro-Xaa-Val-Xaa-Leu (PxVxL) motif mediates interaction with
CC HP1 (CBX1/HP1-beta, CBX3/HP1-gamma and CBX5/HP1-alpha).
CC {ECO:0000250|UniProtKB:Q5T3J3}.
CC -!- SIMILARITY: Belongs to the LRIF1 family. {ECO:0000305}.
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DR EMBL; AK030201; BAC26838.1; -; mRNA.
DR EMBL; AK048030; BAC33218.2; -; mRNA.
DR EMBL; AC117255; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR EMBL; BC117764; AAI17765.1; -; mRNA.
DR CCDS; CCDS17726.1; -. [Q8CDD9-1]
DR RefSeq; NP_001034577.1; NM_001039488.1. [Q8CDD9-1]
DR RefSeq; NP_001273614.1; NM_001286685.1.
DR RefSeq; NP_082357.2; NM_028081.2.
DR RefSeq; XP_006501646.1; XM_006501583.3.
DR AlphaFoldDB; Q8CDD9; -.
DR SMR; Q8CDD9; -.
DR BioGRID; 236453; 7.
DR STRING; 10090.ENSMUSP00000096347; -.
DR iPTMnet; Q8CDD9; -.
DR PhosphoSitePlus; Q8CDD9; -.
DR EPD; Q8CDD9; -.
DR MaxQB; Q8CDD9; -.
DR PaxDb; Q8CDD9; -.
DR PRIDE; Q8CDD9; -.
DR ProteomicsDB; 292032; -. [Q8CDD9-1]
DR ProteomicsDB; 292033; -. [Q8CDD9-2]
DR Antibodypedia; 33789; 98 antibodies from 18 providers.
DR DNASU; 321000; -.
DR Ensembl; ENSMUST00000098750; ENSMUSP00000096346; ENSMUSG00000056260. [Q8CDD9-1]
DR Ensembl; ENSMUST00000127003; ENSMUSP00000114163; ENSMUSG00000056260. [Q8CDD9-2]
DR GeneID; 321000; -.
DR KEGG; mmu:321000; -.
DR UCSC; uc008qwi.1; mouse. [Q8CDD9-1]
DR CTD; 55791; -.
DR MGI; MGI:2445214; Lrif1.
DR VEuPathDB; HostDB:ENSMUSG00000056260; -.
DR eggNOG; ENOG502QU1A; Eukaryota.
DR GeneTree; ENSGT00390000017353; -.
DR HOGENOM; CLU_020634_0_0_1; -.
DR InParanoid; Q8CDD9; -.
DR OMA; AVTSQQC; -.
DR OrthoDB; 277572at2759; -.
DR PhylomeDB; Q8CDD9; -.
DR BioGRID-ORCS; 321000; 5 hits in 70 CRISPR screens.
DR ChiTaRS; Lrif1; mouse.
DR PRO; PR:Q8CDD9; -.
DR Proteomes; UP000000589; Chromosome 3.
DR RNAct; Q8CDD9; protein.
DR Bgee; ENSMUSG00000056260; Expressed in spermatid and 226 other tissues.
DR ExpressionAtlas; Q8CDD9; baseline and differential.
DR Genevisible; Q8CDD9; MM.
DR GO; GO:0001740; C:Barr body; IDA:UniProtKB.
DR GO; GO:0034451; C:centriolar satellite; ISO:MGI.
DR GO; GO:0000781; C:chromosome, telomeric region; ISO:MGI.
DR GO; GO:0016363; C:nuclear matrix; IEA:UniProtKB-SubCell.
DR GO; GO:0005654; C:nucleoplasm; ISO:MGI.
DR GO; GO:0042974; F:nuclear retinoic acid receptor binding; IEA:InterPro.
DR GO; GO:0009048; P:dosage compensation by inactivation of X chromosome; ISS:UniProtKB.
DR GO; GO:0006355; P:regulation of transcription, DNA-templated; IEA:InterPro.
DR InterPro; IPR026191; LRIF1.
DR PANTHER; PTHR16131; PTHR16131; 1.
DR Pfam; PF15741; LRIF1; 1.
PE 1: Evidence at protein level;
KW Alternative splicing; Chromosome; Coiled coil; Isopeptide bond; Nucleus;
KW Phosphoprotein; Reference proteome; Transcription;
KW Transcription regulation; Ubl conjugation.
FT CHAIN 1..755
FT /note="Ligand-dependent nuclear receptor-interacting factor
FT 1"
FT /id="PRO_0000250687"
FT REGION 665..698
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COILED 678..711
FT /evidence="ECO:0000255"
FT MOTIF 565..569
FT /note="PxVxL motif"
FT /evidence="ECO:0000250|UniProtKB:Q5T3J3"
FT MOTIF 612..615
FT /note="Nuclear localization signal"
FT /evidence="ECO:0000250|UniProtKB:Q5T3J3"
FT MOTIF 625..628
FT /note="Nuclear localization signal"
FT /evidence="ECO:0000250|UniProtKB:Q5T3J3"
FT COMPBIAS 669..689
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOD_RES 391
FT /note="Phosphoserine"
FT /evidence="ECO:0000250|UniProtKB:Q5T3J3"
FT MOD_RES 419
FT /note="Phosphoserine"
FT /evidence="ECO:0000250|UniProtKB:Q5T3J3"
FT MOD_RES 425
FT /note="Phosphoserine"
FT /evidence="ECO:0000250|UniProtKB:Q5T3J3"
FT MOD_RES 584
FT /note="Phosphoserine"
FT /evidence="ECO:0000250|UniProtKB:Q5T3J3"
FT MOD_RES 717
FT /note="Phosphothreonine"
FT /evidence="ECO:0000250|UniProtKB:Q5T3J3"
FT CROSSLNK 270
FT /note="Glycyl lysine isopeptide (Lys-Gly) (interchain with
FT G-Cter in SUMO2)"
FT /evidence="ECO:0000250|UniProtKB:Q5T3J3"
FT CROSSLNK 436
FT /note="Glycyl lysine isopeptide (Lys-Gly) (interchain with
FT G-Cter in SUMO2)"
FT /evidence="ECO:0000250|UniProtKB:Q5T3J3"
FT CROSSLNK 590
FT /note="Glycyl lysine isopeptide (Lys-Gly) (interchain with
FT G-Cter in SUMO2)"
FT /evidence="ECO:0000250|UniProtKB:Q5T3J3"
FT CROSSLNK 687
FT /note="Glycyl lysine isopeptide (Lys-Gly) (interchain with
FT G-Cter in SUMO2)"
FT /evidence="ECO:0000250|UniProtKB:Q5T3J3"
FT VAR_SEQ 515..540
FT /note="TQYEMASIVKKEIQEKGNNKKYSQGS -> LAKSIRQSQSQNKVQKIWTVIG
FT LQR (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:15489334,
FT ECO:0000303|PubMed:16141072"
FT /id="VSP_020722"
FT VAR_SEQ 541..755
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:15489334,
FT ECO:0000303|PubMed:16141072"
FT /id="VSP_020723"
FT CONFLICT 236
FT /note="V -> M (in Ref. 1; BAC26838)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 755 AA; 82998 MW; 3D8D0BDD976BD974 CRC64;
MSNSLQSVIL KTAEEKSGSR CISGCMYQVV PTIGSDGKKL LQLLPISKSS GNLIPVVQSP
VMSHGLKANT EKPVQVTFQT QISSSSTSAS VQLPVFQPAN TTKCFFTGAI DTTGKDRVTS
VRTGNFTPPV SNIQNHGVKI HKLTRQTFTI PPSTQNDSSH FIFNTPSLLP NVNSSILPSG
NHLKIPAHAE VKSVLASSLP PLVQQKILGT ATTSTSGTVE ASQIPTVVYV HPVNSVKFVV
TKKTQTIYPK PVTFNTLQIP PNVATETQLK GGQHPQAAPV NSIFQEYLQP GIPCIIPVKS
SNNVATKVLN TFVGRKNLGD NTIDTPLLNT NSSGRTHSVS EPIKDNALIM FNGKVWLNEK
GTCGLPSKID QQNSVSSDIP LKDSSQLVSS SIVTEISREI LNSVLVKSKS FQLKTKSLSN
SQLASMANLR AEKNEKVERP SFSVTNPHTM NQSTHCLKQS KTVFINPVFP DGFRTGQNAP
RKGNLVQNIE KICSSVDAAT VTSQQCVFRD QESQTQYEMA SIVKKEIQEK GNNKKYSQGS
HTNIKASCLK NDAEFKKLFG LTKDLRVCLT RIPDHLSSGK SFNSFNSLMK SSSYKDANIV
VKKEEKKQSF SKKRKAETMK MGNTKKIKIE NADDTVMSIM NGTDVASSQP LSSILPTSDI
SQHNIVTSHS TTREDKRTEA EHCSHEKQEK GTLSSSTSFE QSTFLNKNFM EDIFPVTPPE
LEETIRDEKI RRLKQILREK EAALEELRKK MYQKQ
