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Protein

Ligand-dependent nuclear receptor-interacting factor 1

Gene

Lrif1

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

Represses the ligand-induced transcriptional activity of retinoic acid receptor alpha (RARA). This repression may occur through direct recruitment of histone deacetylases (By similarity).By similarity

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Transcription, Transcription regulation

Names & Taxonomyi

Protein namesi
Recommended name:
Ligand-dependent nuclear receptor-interacting factor 1
Gene namesi
Name:Lrif1
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 3

Organism-specific databases

MGIiMGI:2445214. Lrif1.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 755755Ligand-dependent nuclear receptor-interacting factor 1PRO_0000250687Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei391 – 3911PhosphoserineBy similarity
Modified residuei584 – 5841PhosphoserineBy similarity
Cross-linki687 – 687Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Modified residuei717 – 7171PhosphothreonineBy similarity

Keywords - PTMi

Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ8CDD9.
MaxQBiQ8CDD9.
PaxDbiQ8CDD9.
PRIDEiQ8CDD9.

PTM databases

iPTMnetiQ8CDD9.
PhosphoSiteiQ8CDD9.

Expressioni

Gene expression databases

BgeeiQ8CDD9.
CleanExiMM_4933421E11RIK.
ExpressionAtlasiQ8CDD9. baseline and differential.
GenevisibleiQ8CDD9. MM.

Interactioni

Subunit structurei

Interacts with RARA.By similarity

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000096346.

Structurei

3D structure databases

ProteinModelPortaliQ8CDD9.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili678 – 71134Sequence analysisAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi612 – 6154Nuclear localization signalBy similarity

Sequence similaritiesi

Belongs to the LRIF1 family.Curated

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiENOG410IE1C. Eukaryota.
ENOG41129E9. LUCA.
GeneTreeiENSGT00390000017353.
HOVERGENiHBG080960.
InParanoidiQ8CDD9.
OMAiMPIKDNA.
PhylomeDBiQ8CDD9.

Family and domain databases

InterProiIPR026191. LRIF1.
[Graphical view]
PANTHERiPTHR16131. PTHR16131. 1 hit.
PfamiPF15741. LRIF1. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q8CDD9-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MSNSLQSVIL KTAEEKSGSR CISGCMYQVV PTIGSDGKKL LQLLPISKSS
60 70 80 90 100
GNLIPVVQSP VMSHGLKANT EKPVQVTFQT QISSSSTSAS VQLPVFQPAN
110 120 130 140 150
TTKCFFTGAI DTTGKDRVTS VRTGNFTPPV SNIQNHGVKI HKLTRQTFTI
160 170 180 190 200
PPSTQNDSSH FIFNTPSLLP NVNSSILPSG NHLKIPAHAE VKSVLASSLP
210 220 230 240 250
PLVQQKILGT ATTSTSGTVE ASQIPTVVYV HPVNSVKFVV TKKTQTIYPK
260 270 280 290 300
PVTFNTLQIP PNVATETQLK GGQHPQAAPV NSIFQEYLQP GIPCIIPVKS
310 320 330 340 350
SNNVATKVLN TFVGRKNLGD NTIDTPLLNT NSSGRTHSVS EPIKDNALIM
360 370 380 390 400
FNGKVWLNEK GTCGLPSKID QQNSVSSDIP LKDSSQLVSS SIVTEISREI
410 420 430 440 450
LNSVLVKSKS FQLKTKSLSN SQLASMANLR AEKNEKVERP SFSVTNPHTM
460 470 480 490 500
NQSTHCLKQS KTVFINPVFP DGFRTGQNAP RKGNLVQNIE KICSSVDAAT
510 520 530 540 550
VTSQQCVFRD QESQTQYEMA SIVKKEIQEK GNNKKYSQGS HTNIKASCLK
560 570 580 590 600
NDAEFKKLFG LTKDLRVCLT RIPDHLSSGK SFNSFNSLMK SSSYKDANIV
610 620 630 640 650
VKKEEKKQSF SKKRKAETMK MGNTKKIKIE NADDTVMSIM NGTDVASSQP
660 670 680 690 700
LSSILPTSDI SQHNIVTSHS TTREDKRTEA EHCSHEKQEK GTLSSSTSFE
710 720 730 740 750
QSTFLNKNFM EDIFPVTPPE LEETIRDEKI RRLKQILREK EAALEELRKK

MYQKQ
Note: No experimental confirmation available.
Length:755
Mass (Da):82,998
Last modified:October 3, 2006 - v2
Checksum:i3D8D0BDD976BD974
GO
Isoform 2 (identifier: Q8CDD9-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     515-540: TQYEMASIVKKEIQEKGNNKKYSQGS → LAKSIRQSQSQNKVQKIWTVIGLQR
     541-755: Missing.

Show »
Length:539
Mass (Da):58,344
Checksum:i56B2AB5856ACB2D4
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti236 – 2361V → M in BAC26838 (PubMed:16141072).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei515 – 54026TQYEM…YSQGS → LAKSIRQSQSQNKVQKIWTV IGLQR in isoform 2. 2 PublicationsVSP_020722Add
BLAST
Alternative sequencei541 – 755215Missing in isoform 2. 2 PublicationsVSP_020723Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK030201 mRNA. Translation: BAC26838.1.
AK048030 mRNA. Translation: BAC33218.2.
AC117255 Genomic DNA. No translation available.
BC117764 mRNA. Translation: AAI17765.1.
CCDSiCCDS17726.1. [Q8CDD9-1]
RefSeqiNP_001034577.1. NM_001039488.1. [Q8CDD9-1]
NP_001273614.1. NM_001286685.1.
NP_082357.2. NM_028081.2.
XP_006501646.1. XM_006501583.2. [Q8CDD9-2]
UniGeneiMm.259638.

Genome annotation databases

EnsembliENSMUST00000098750; ENSMUSP00000096346; ENSMUSG00000056260. [Q8CDD9-1]
ENSMUST00000127003; ENSMUSP00000114163; ENSMUSG00000056260. [Q8CDD9-2]
GeneIDi321000.
KEGGimmu:321000.
UCSCiuc008qwi.1. mouse. [Q8CDD9-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK030201 mRNA. Translation: BAC26838.1.
AK048030 mRNA. Translation: BAC33218.2.
AC117255 Genomic DNA. No translation available.
BC117764 mRNA. Translation: AAI17765.1.
CCDSiCCDS17726.1. [Q8CDD9-1]
RefSeqiNP_001034577.1. NM_001039488.1. [Q8CDD9-1]
NP_001273614.1. NM_001286685.1.
NP_082357.2. NM_028081.2.
XP_006501646.1. XM_006501583.2. [Q8CDD9-2]
UniGeneiMm.259638.

3D structure databases

ProteinModelPortaliQ8CDD9.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000096346.

PTM databases

iPTMnetiQ8CDD9.
PhosphoSiteiQ8CDD9.

Proteomic databases

EPDiQ8CDD9.
MaxQBiQ8CDD9.
PaxDbiQ8CDD9.
PRIDEiQ8CDD9.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000098750; ENSMUSP00000096346; ENSMUSG00000056260. [Q8CDD9-1]
ENSMUST00000127003; ENSMUSP00000114163; ENSMUSG00000056260. [Q8CDD9-2]
GeneIDi321000.
KEGGimmu:321000.
UCSCiuc008qwi.1. mouse. [Q8CDD9-1]

Organism-specific databases

CTDi55791.
MGIiMGI:2445214. Lrif1.

Phylogenomic databases

eggNOGiENOG410IE1C. Eukaryota.
ENOG41129E9. LUCA.
GeneTreeiENSGT00390000017353.
HOVERGENiHBG080960.
InParanoidiQ8CDD9.
OMAiMPIKDNA.
PhylomeDBiQ8CDD9.

Miscellaneous databases

PROiQ8CDD9.
SOURCEiSearch...

Gene expression databases

BgeeiQ8CDD9.
CleanExiMM_4933421E11RIK.
ExpressionAtlasiQ8CDD9. baseline and differential.
GenevisibleiQ8CDD9. MM.

Family and domain databases

InterProiIPR026191. LRIF1.
[Graphical view]
PANTHERiPTHR16131. PTHR16131. 1 hit.
PfamiPF15741. LRIF1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2), NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-523 (ISOFORM 1).
    Strain: C57BL/6J.
    Tissue: Testis.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: C57BL/6J.
  3. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).

Entry informationi

Entry nameiLRIF1_MOUSE
AccessioniPrimary (citable) accession number: Q8CDD9
Secondary accession number(s): Q149J0, Q8C893
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 3, 2006
Last sequence update: October 3, 2006
Last modified: June 8, 2016
This is version 87 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.