UniProtKB - Q5T3J3 (LRIF1_HUMAN)
Protein
Ligand-dependent nuclear receptor-interacting factor 1
Gene
LRIF1
Organism
Homo sapiens (Human)
Status
Functioni
Together with SMCHD1, involved in chromosome X inactivation in females by promoting the compaction of heterochromatin (PubMed:23542155). Also able to repress the ligand-induced transcriptional activity of retinoic acid receptor alpha (RARA), possibly through direct recruitment of histone deacetylases (PubMed:17455211).2 Publications
GO - Molecular functioni
- retinoic acid receptor binding Source: InterPro
GO - Biological processi
- dosage compensation by inactivation of X chromosome Source: UniProtKB
- regulation of transcription, DNA-templated Source: InterPro
Keywordsi
Molecular function | Repressor |
Biological process | Transcription, Transcription regulation |
Enzyme and pathway databases
PathwayCommonsi | Q5T3J3 |
Names & Taxonomyi
Protein namesi | Recommended name: Ligand-dependent nuclear receptor-interacting factor 1CuratedAlternative name(s): HP1-binding protein enriched in inactive X chromosome protein 11 Publication Short name: HBiX11 Publication Receptor-interacting factor 11 Publication |
Gene namesi | |
Organismi | Homo sapiens (Human) |
Taxonomic identifieri | 9606 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo |
Proteomesi |
|
Organism-specific databases
HGNCi | HGNC:30299, LRIF1 |
MIMi | 615354, gene |
neXtProti | NX_Q5T3J3 |
VEuPathDBi | HostDB:ENSG00000121931.15 |
Subcellular locationi
Nucleus
- Nucleus matrix 1 Publication
Other locations
- Chromosome 1 Publication
Note: Localizes to Barr body; recruited by SMCHD1.1 Publication
Cytoskeleton
- centriolar satellite Source: HPA
Nucleus
- Barr body Source: UniProtKB
- nuclear matrix Source: UniProtKB-SubCell
- nucleoplasm Source: HPA
Keywords - Cellular componenti
Chromosome, NucleusPathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 582 – 584 | VCL → DCE: Abolishes interaction with HP1 (CBX1/HP1-beta, CBX3/HP1-gamma and CBX5/HP1-alpha). 1 Publication | 3 | |
Mutagenesisi | 628 – 630 | KKR → AAA: Slightly reduces nuclear localization. 1 Publication | 3 | |
Mutagenesisi | 642 – 644 | KKR → AAA: Abolishes nuclear localization. 1 Publication | 3 |
Organism-specific databases
DisGeNETi | 55791 |
OpenTargetsi | ENSG00000121931 |
PharmGKBi | PA142672487 |
Miscellaneous databases
Pharosi | Q5T3J3, Tdark |
Genetic variation databases
BioMutai | LRIF1 |
DMDMi | 74744778 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000250686 | 1 – 769 | Ligand-dependent nuclear receptor-interacting factor 1Add BLAST | 769 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Cross-linki | 259 | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources | ||
Cross-linki | 279 | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources | ||
Modified residuei | 402 | PhosphoserineCombined sources | 1 | |
Modified residuei | 430 | PhosphoserineCombined sources | 1 | |
Modified residuei | 436 | PhosphoserineCombined sources | 1 | |
Cross-linki | 446 | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources | ||
Modified residuei | 502 | PhosphoserineCombined sources | 1 | |
Modified residuei | 599 | PhosphoserineCombined sources | 1 | |
Cross-linki | 605 | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources | ||
Cross-linki | 702 | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources | ||
Modified residuei | 732 | PhosphothreonineCombined sources | 1 |
Keywords - PTMi
Isopeptide bond, Phosphoprotein, Ubl conjugationProteomic databases
EPDi | Q5T3J3 |
jPOSTi | Q5T3J3 |
MassIVEi | Q5T3J3 |
MaxQBi | Q5T3J3 |
PaxDbi | Q5T3J3 |
PeptideAtlasi | Q5T3J3 |
PRIDEi | Q5T3J3 |
ProteomicsDBi | 64403 [Q5T3J3-1] 64404 [Q5T3J3-2] |
PTM databases
GlyGeni | Q5T3J3, 1 site, 1 O-linked glycan (1 site) |
iPTMneti | Q5T3J3 |
PhosphoSitePlusi | Q5T3J3 |
Expressioni
Tissue specificityi
Widely expressed, with the highest expression levels in heart, liver and placenta.1 Publication
Gene expression databases
Bgeei | ENSG00000121931, Expressed in calcaneal tendon and 225 other tissues |
Genevisiblei | Q5T3J3, HS |
Organism-specific databases
HPAi | ENSG00000121931, Low tissue specificity |
Interactioni
Subunit structurei
Binary interactionsi
Hide detailsQ5T3J3
GO - Molecular functioni
- retinoic acid receptor binding Source: InterPro
Protein-protein interaction databases
BioGRIDi | 120905, 197 interactors |
IntActi | Q5T3J3, 90 interactors |
MINTi | Q5T3J3 |
STRINGi | 9606.ENSP00000358778 |
Miscellaneous databases
RNActi | Q5T3J3, protein |
Family & Domainsi
Coiled coil
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Coiled coili | 740 – 769 | Sequence analysisAdd BLAST | 30 |
Motif
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Motifi | 580 – 584 | PxVxL motif1 Publication | 5 | |
Motifi | 628 – 631 | Nuclear localization signal1 Publication | 4 | |
Motifi | 642 – 645 | Nuclear localization signal1 Publication | 4 |
Domaini
The Pro-Xaa-Val-Xaa-Leu (PxVxL) motif mediates interaction with HP1 (CBX1/HP1-beta, CBX3/HP1-gamma and CBX5/HP1-alpha).1 Publication
Sequence similaritiesi
Belongs to the LRIF1 family.Curated
Keywords - Domaini
Coiled coilPhylogenomic databases
eggNOGi | ENOG502QU1A, Eukaryota |
GeneTreei | ENSGT00390000017353 |
HOGENOMi | CLU_020634_0_0_1 |
InParanoidi | Q5T3J3 |
OMAi | HCVSGCM |
OrthoDBi | 277572at2759 |
PhylomeDBi | Q5T3J3 |
TreeFami | TF336147 |
Family and domain databases
InterProi | View protein in InterPro IPR026191, LRIF1 |
PANTHERi | PTHR16131, PTHR16131, 1 hit |
Pfami | View protein in Pfam PF15741, LRIF1, 1 hit |
s (2)i Sequence
Sequence statusi: Complete.
This entry describes 2 produced by isoformsialternative splicing. AlignAdd to basketIsoform 1 (identifier: Q5T3J3-1) [UniParc]FASTAAdd to basket
This isoform has been chosen as the sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. canonicali
10 20 30 40 50
MSNNLRRVFL KPAEENSGNA SRCVSGCMYQ VVQTIGSDGK NLLQLLPIPK
60 70 80 90 100
SSGNLIPLVQ SSVMSDALKG NTGKPVQVTF QTQISSSSTS ASVQLPIFQP
110 120 130 140 150
ASSSNYFLTR TVDTSEKGRV TSVGTGNFSS SVSKVQSHGV KIDGLTMQTF
160 170 180 190 200
AVPPSTQKDS SFIVVNTQSL PVTVKSPVLP SGHHLQIPAH AEVKSVPASS
210 220 230 240 250
LPPSVQQKIL ATATTSTSGM VEASQMPTVI YVSPVNTVKN VVTKNFQNIY
260 270 280 290 300
PKPVTEIAKP VILNTTQIPK NVATETQLKG GQHSQAAPVK WIFQDNLQPF
310 320 330 340 350
TPSLVPVKSS NNVASKILKT FVDRKNLGDN TINMPPLSTI DPSGTRSKNM
360 370 380 390 400
PIKDNALVMF NGKVYLLAKK GTDVLPSQID QQNSVSPDTP VRKDTLQTVS
410 420 430 440 450
SSPVTEISRE VVNIVLAKSK SSQMETKSLS NTQLASMANL RAEKNKVEKP
460 470 480 490 500
SPSTTNPHMN QSSNYLKQSK TLFTNPIFPV GFSTGHNAPR KVTAVIYARK
510 520 530 540 550
GSVLQSIEKI SSSVDATTVT SQQCVFRDQE PKIHNEMAST SDKGAQGRND
560 570 580 590 600
KKDSQGRSNK ALHLKSDAEF KKIFGLTKDL RVCLTRIPDH LTSGEGFDSF
610 620 630 640 650
SSLVKSGTYK ETEFMVKEGE RKQQNFDKKR KAKTNKKMDH IKKRKTENAY
660 670 680 690 700
NAIINGEANV TGSQLLSSIL PTSDVSQHNI LTSHSKTRQE KRTEMEYYTH
710 720 730 740 750
EKQEKGTLNS NAAYEQSHFF NKNYTEDIFP VTPPELEETI RDEKIRRLKQ
760
VLREKEAALE EMRKKMHQK
Sequence cautioni
The sequence AAH08115 differs from that shown. Reason: Erroneous initiation. Truncated N-terminus.Curated
The sequence AAO43631 differs from that shown. Reason: Frameshift.Curated
The sequence BAA92097 differs from that shown. Reason: Frameshift.Curated
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 66 – 68 | DAL → NA in AAO43631 (Ref. 1) Curated | 3 | |
Sequence conflicti | 72 – 80 | TGKPVQVTF → PGNQFSY in AAO43631 (Ref. 1) Curated | 9 | |
Sequence conflicti | 108 – 111 | LTRT → PSRP in AAO43631 (Ref. 1) Curated | 4 | |
Sequence conflicti | 666 | Missing in BAA92097 (PubMed:14702039).Curated | 1 |
Natural variant
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Natural variantiVAR_050703 | 438 | A → T. Corresponds to variant dbSNP:rs2232041Ensembl. | 1 | |
Natural variantiVAR_027599 | 599 | S → P. Corresponds to variant dbSNP:rs2232045Ensembl. | 1 | |
Natural variantiVAR_027600 | 641 | I → M. Corresponds to variant dbSNP:rs2232047Ensembl. | 1 |
Alternative sequence
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Alternative sequenceiVSP_020721 | 1 – 536 | Missing in isoform 2. 1 PublicationAdd BLAST | 536 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AY190122 mRNA Translation: AAO43631.1 Frameshift. AK001826 mRNA Translation: BAA91928.1 AK002131 mRNA Translation: BAA92097.1 Frameshift. AL360270 Genomic DNA No translation available. BC008115 mRNA Translation: AAH08115.1 Different initiation. AL834466 mRNA Translation: CAD39125.1 |
CCDSi | CCDS30800.1 [Q5T3J3-1] CCDS41366.1 [Q5T3J3-2] |
RefSeqi | NP_001006946.1, NM_001006945.1 [Q5T3J3-2] NP_060842.3, NM_018372.3 [Q5T3J3-1] |
Genome annotation databases
Ensembli | ENST00000369763; ENSP00000358778; ENSG00000121931 [Q5T3J3-1] ENST00000485275; ENSP00000432290; ENSG00000121931 [Q5T3J3-2] ENST00000494675; ENSP00000435259; ENSG00000121931 [Q5T3J3-2] |
GeneIDi | 55791 |
KEGGi | hsa:55791 |
UCSCi | uc001dzz.4, human [Q5T3J3-1] |
Keywords - Coding sequence diversityi
Alternative splicingSimilar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AY190122 mRNA Translation: AAO43631.1 Frameshift. AK001826 mRNA Translation: BAA91928.1 AK002131 mRNA Translation: BAA92097.1 Frameshift. AL360270 Genomic DNA No translation available. BC008115 mRNA Translation: AAH08115.1 Different initiation. AL834466 mRNA Translation: CAD39125.1 |
CCDSi | CCDS30800.1 [Q5T3J3-1] CCDS41366.1 [Q5T3J3-2] |
RefSeqi | NP_001006946.1, NM_001006945.1 [Q5T3J3-2] NP_060842.3, NM_018372.3 [Q5T3J3-1] |
3D structure databases
SMRi | Q5T3J3 |
ModBasei | Search... |
Protein-protein interaction databases
BioGRIDi | 120905, 197 interactors |
IntActi | Q5T3J3, 90 interactors |
MINTi | Q5T3J3 |
STRINGi | 9606.ENSP00000358778 |
PTM databases
GlyGeni | Q5T3J3, 1 site, 1 O-linked glycan (1 site) |
iPTMneti | Q5T3J3 |
PhosphoSitePlusi | Q5T3J3 |
Genetic variation databases
BioMutai | LRIF1 |
DMDMi | 74744778 |
Proteomic databases
EPDi | Q5T3J3 |
jPOSTi | Q5T3J3 |
MassIVEi | Q5T3J3 |
MaxQBi | Q5T3J3 |
PaxDbi | Q5T3J3 |
PeptideAtlasi | Q5T3J3 |
PRIDEi | Q5T3J3 |
ProteomicsDBi | 64403 [Q5T3J3-1] 64404 [Q5T3J3-2] |
Protocols and materials databases
Antibodypediai | 33789, 95 antibodies |
DNASUi | 55791 |
Genome annotation databases
Ensembli | ENST00000369763; ENSP00000358778; ENSG00000121931 [Q5T3J3-1] ENST00000485275; ENSP00000432290; ENSG00000121931 [Q5T3J3-2] ENST00000494675; ENSP00000435259; ENSG00000121931 [Q5T3J3-2] |
GeneIDi | 55791 |
KEGGi | hsa:55791 |
UCSCi | uc001dzz.4, human [Q5T3J3-1] |
Organism-specific databases
CTDi | 55791 |
DisGeNETi | 55791 |
GeneCardsi | LRIF1 |
HGNCi | HGNC:30299, LRIF1 |
HPAi | ENSG00000121931, Low tissue specificity |
MIMi | 615354, gene |
neXtProti | NX_Q5T3J3 |
OpenTargetsi | ENSG00000121931 |
PharmGKBi | PA142672487 |
VEuPathDBi | HostDB:ENSG00000121931.15 |
GenAtlasi | Search... |
Phylogenomic databases
eggNOGi | ENOG502QU1A, Eukaryota |
GeneTreei | ENSGT00390000017353 |
HOGENOMi | CLU_020634_0_0_1 |
InParanoidi | Q5T3J3 |
OMAi | HCVSGCM |
OrthoDBi | 277572at2759 |
PhylomeDBi | Q5T3J3 |
TreeFami | TF336147 |
Enzyme and pathway databases
PathwayCommonsi | Q5T3J3 |
Miscellaneous databases
BioGRID-ORCSi | 55791, 14 hits in 998 CRISPR screens |
ChiTaRSi | LRIF1, human |
GeneWikii | C1orf103 |
GenomeRNAii | 55791 |
Pharosi | Q5T3J3, Tdark |
PROi | PR:Q5T3J3 |
RNActi | Q5T3J3, protein |
SOURCEi | Search... |
Gene expression databases
Bgeei | ENSG00000121931, Expressed in calcaneal tendon and 225 other tissues |
Genevisiblei | Q5T3J3, HS |
Family and domain databases
InterProi | View protein in InterPro IPR026191, LRIF1 |
PANTHERi | PTHR16131, PTHR16131, 1 hit |
Pfami | View protein in Pfam PF15741, LRIF1, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | LRIF1_HUMAN | |
Accessioni | Q5T3J3Primary (citable) accession number: Q5T3J3 Secondary accession number(s): Q86XS4 Q9NV32 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | October 3, 2006 |
Last sequence update: | December 21, 2004 | |
Last modified: | April 7, 2021 | |
This is version 136 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Chordata Protein Annotation Program | |
Disclaimer | Any medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care. |
Miscellaneousi
Keywords - Technical termi
Reference proteomeDocuments
- Human chromosome 1
Human chromosome 1: entries, gene names and cross-references to MIM - Human entries with genetic variants
List of human entries with genetic variants - Human variants curated from literature reports
Index of human variants curated from literature reports - MIM cross-references
Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot - SIMILARITY comments
Index of protein domains and families