UniProtKB - Q9H400 (LIME1_HUMAN)
Lck-interacting transmembrane adapter 1
LIME1
Functioni
GO - Molecular functioni
- protein kinase binding Source: GO_Central
GO - Biological processi
- adaptive immune response Source: UniProtKB-KW
- B cell receptor signaling pathway Source: GO_Central
- regulation of I-kappaB kinase/NF-kappaB signaling Source: GO_Central
- regulation of MAP kinase activity Source: GO_Central
- regulation of NIK/NF-kappaB signaling Source: GO_Central
- regulation of phosphatidylinositol 3-kinase signaling Source: GO_Central
- regulation of release of sequestered calcium ion into cytosol Source: GO_Central
- regulation of transcription by RNA polymerase II Source: GO_Central
- T cell receptor signaling pathway Source: InterPro
Keywordsi
Biological process | Adaptive immunity, Immunity |
Enzyme and pathway databases
PathwayCommonsi | Q9H400 |
Names & Taxonomyi
Protein namesi | Recommended name: Lck-interacting transmembrane adapter 1Short name: Lck-interacting membrane protein Alternative name(s): Lck-interacting molecule |
Gene namesi | Name:LIME1 Synonyms:LIME ORF Names:LP8067 |
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:26016, LIME1 |
MIMi | 609809, gene |
neXtProti | NX_Q9H400 |
VEuPathDBi | HostDB:ENSG00000203896.9 |
Subcellular locationi
Plasma membrane
- Cell membrane 2 Publications; Single-pass type III membrane protein 2 Publications
Note: Present in lipid rafts. Recruited to the immunological synapse upon conjugation of T-cell with antigen-presenting cell.
Extracellular region or secreted
- extracellular space Source: UniProtKB
Plasma Membrane
- B cell receptor complex Source: GO_Central
Other locations
- integral component of membrane Source: UniProtKB-KW
Topology
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Topological domaini | 1 – 6 | ExtracellularSequence analysis | 6 | |
Transmembranei | 7 – 27 | Helical; Signal-anchor for type III membrane proteinSequence analysisAdd BLAST | 21 | |
Topological domaini | 28 – 295 | CytoplasmicSequence analysisAdd BLAST | 268 |
Keywords - Cellular componenti
Cell membrane, MembranePathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 145 | Y → F: No change in binding to LCK, CSK or FYN. 1 Publication | 1 | |
Mutagenesisi | 167 | Y → F: Abolishes binding to CSK. 1 Publication | 1 | |
Mutagenesisi | 200 | Y → F: Reduces binding to CSK. 1 Publication | 1 | |
Mutagenesisi | 235 | Y → F: No change in binding to LCK, CSK or FYN. 1 Publication | 1 | |
Mutagenesisi | 254 | Y → F: Abolishes binding to LCK and reduces binding to FYN. 1 Publication | 1 |
Organism-specific databases
DisGeNETi | 54923 |
OpenTargetsi | ENSG00000203896 |
PharmGKBi | PA142671551 |
Miscellaneous databases
Pharosi | Q9H400, Tdark |
Genetic variation databases
BioMutai | LIME1 |
DMDMi | 74752630 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000083332 | 1 – 295 | Lck-interacting transmembrane adapter 1Add BLAST | 295 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Lipidationi | 28 | S-palmitoyl cysteine1 Publication | 1 | |
Lipidationi | 31 | S-palmitoyl cysteine1 Publication | 1 | |
Modified residuei | 145 | PhosphotyrosineBy similarity | 1 | |
Modified residuei | 167 | Phosphotyrosine1 Publication | 1 | |
Modified residuei | 200 | Phosphotyrosine1 Publication | 1 | |
Modified residuei | 235 | PhosphotyrosineBy similarity | 1 | |
Modified residuei | 254 | Phosphotyrosine; by LCK1 Publication | 1 | |
Modified residuei | 256 | PhosphoserineCombined sources | 1 |
Post-translational modificationi
Keywords - PTMi
Lipoprotein, Palmitate, PhosphoproteinProteomic databases
EPDi | Q9H400 |
jPOSTi | Q9H400 |
MassIVEi | Q9H400 |
MaxQBi | Q9H400 |
PaxDbi | Q9H400 |
PeptideAtlasi | Q9H400 |
PRIDEi | Q9H400 |
ProteomicsDBi | 80775 [Q9H400-1] 80776 [Q9H400-2] |
PTM databases
iPTMneti | Q9H400 |
PhosphoSitePlusi | Q9H400 |
SwissPalmi | Q9H400 |
Expressioni
Tissue specificityi
Gene expression databases
Bgeei | ENSG00000203896, Expressed in right lobe of liver and 112 other tissues |
ExpressionAtlasi | Q9H400, baseline and differential |
Genevisiblei | Q9H400, HS |
Organism-specific databases
HPAi | ENSG00000203896, Group enriched (blood, liver, lymphoid tissue) |
Interactioni
Subunit structurei
When phosphorylated in response to BCR activation, interacts with LYN, PIK3R1, PLCG2, and GRB2 (By similarity). When phosphorylated in response to TCR stimulation and/or CD4 co-stimulation, interacts with LCK, CSK, FYN, PTPN11/SHP2, GRB2, PIK3R1 and GRAP2.
By similarity2 PublicationsBinary interactionsi
Hide detailsQ9H400
GO - Molecular functioni
- protein kinase binding Source: GO_Central
Protein-protein interaction databases
BioGRIDi | 120264, 46 interactors |
IntActi | Q9H400, 46 interactors |
STRINGi | 9606.ENSP00000309521 |
Miscellaneous databases
RNActi | Q9H400, protein |
Family & Domainsi
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 145 – 148 | Interaction with GRB2By similarity | 4 | |
Regioni | 167 – 170 | Interaction with CSK1 Publication | 4 | |
Regioni | 200 – 203 | Interaction with CSK1 Publication | 4 | |
Regioni | 235 – 238 | Interaction with LCK and PIK3R1By similarity | 4 | |
Regioni | 254 – 257 | Interaction with LCK, PLCG2 and PIK3R1By similarity | 4 |
Keywords - Domaini
Signal-anchor, Transmembrane, Transmembrane helixPhylogenomic databases
eggNOGi | ENOG502RGRF, Eukaryota |
GeneTreei | ENSGT00510000050080 |
InParanoidi | Q9H400 |
OMAi | HQELPWA |
OrthoDBi | 931070at2759 |
PhylomeDBi | Q9H400 |
TreeFami | TF337416 |
Family and domain databases
InterProi | View protein in InterPro IPR026072, Lime1 |
PANTHERi | PTHR47740, PTHR47740, 1 hit |
Pfami | View protein in Pfam PF15332, LIME1, 1 hit |
s (2+)i Sequence
Sequence statusi: Complete.
This entry describes 2 produced by isoformsialternative splicing. AlignAdd to basketThis entry has 2 described isoforms and 5 potential isoforms that are computationally mapped.Show allAlign All
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
MGLPVSWAPP ALWVLGCCAL LLSLWALCTA CRRPEDAVAP RKRARRQRAR
60 70 80 90 100
LQGSATAAEA SLLRRTHLCS LSKSDTRLHE LHRGPRSSRA LRPASMDLLR
110 120 130 140 150
PHWLEVSRDI TGPQAAPSAF PHQELPRALP AAAATAGCAG LEATYSNVGL
160 170 180 190 200
AALPGVSLAA SPVVAEYARV QKRKGTHRSP QEPQQGKTEV TPAAQVDVLY
210 220 230 240 250
SRVCKPKRRD PGPTTDPLDP KGQGAILALA GDLAYQTLPL RALDVDSGPL
260 270 280 290
ENVYESIREL GDPAGRSSTC GAGTPPASSC PSLGRGWRPL PASLP
Computationally mapped potential isoform sequencesi
There are 5 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basketA0A087WZP9 | A0A087WZP9_HUMAN | Lck-interacting transmembrane adapt... | LIME1 | 211 | Annotation score: | ||
A0A087WUJ1 | A0A087WUJ1_HUMAN | Lck-interacting transmembrane adapt... | LIME1 | 252 | Annotation score: | ||
A0A087WT39 | A0A087WT39_HUMAN | Lck-interacting transmembrane adapt... | LIME1 | 176 | Annotation score: | ||
V9GYI1 | V9GYI1_HUMAN | Lck-interacting transmembrane adapt... | LIME1 | 131 | Annotation score: | ||
X6RKG5 | X6RKG5_HUMAN | Lck-interacting transmembrane adapt... | LIME1 | 106 | Annotation score: |
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 246 | D → G in BAA91148 (PubMed:14702039).Curated | 1 |
Natural variant
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Natural variantiVAR_053918 | 211 | P → L. Corresponds to variant dbSNP:rs1151625Ensembl. | 1 |
Alternative sequence
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Alternative sequenceiVSP_016642 | 1 – 95 | Missing in isoform 2. 1 PublicationAdd BLAST | 95 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AY203957 mRNA Translation: AAP34480.1 AK000413 mRNA Translation: BAA91148.1 AL121845 Genomic DNA No translation available. CH471077 Genomic DNA Translation: EAW75213.1 CH471077 Genomic DNA Translation: EAW75214.1 CH471077 Genomic DNA Translation: EAW75215.1 CH471077 Genomic DNA Translation: EAW75216.1 CH471077 Genomic DNA Translation: EAW75217.1 CH471077 Genomic DNA Translation: EAW75218.1 BC017016 mRNA Translation: AAH17016.1 |
CCDSi | CCDS13536.1 [Q9H400-1] |
RefSeqi | NP_001292583.1, NM_001305654.1 NP_001292584.1, NM_001305655.1 NP_060276.2, NM_017806.3 [Q9H400-1] |
Genome annotation databases
Ensembli | ENST00000309546; ENSP00000309521; ENSG00000203896 [Q9H400-1] |
GeneIDi | 54923 |
KEGGi | hsa:54923 |
UCSCi | uc002ygp.5, human [Q9H400-1] |
Keywords - Coding sequence diversityi
Alternative splicingSimilar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AY203957 mRNA Translation: AAP34480.1 AK000413 mRNA Translation: BAA91148.1 AL121845 Genomic DNA No translation available. CH471077 Genomic DNA Translation: EAW75213.1 CH471077 Genomic DNA Translation: EAW75214.1 CH471077 Genomic DNA Translation: EAW75215.1 CH471077 Genomic DNA Translation: EAW75216.1 CH471077 Genomic DNA Translation: EAW75217.1 CH471077 Genomic DNA Translation: EAW75218.1 BC017016 mRNA Translation: AAH17016.1 |
CCDSi | CCDS13536.1 [Q9H400-1] |
RefSeqi | NP_001292583.1, NM_001305654.1 NP_001292584.1, NM_001305655.1 NP_060276.2, NM_017806.3 [Q9H400-1] |
3D structure databases
ModBasei | Search... |
SWISS-MODEL-Workspacei | Submit a new modelling project... |
Protein-protein interaction databases
BioGRIDi | 120264, 46 interactors |
IntActi | Q9H400, 46 interactors |
STRINGi | 9606.ENSP00000309521 |
PTM databases
iPTMneti | Q9H400 |
PhosphoSitePlusi | Q9H400 |
SwissPalmi | Q9H400 |
Genetic variation databases
BioMutai | LIME1 |
DMDMi | 74752630 |
Proteomic databases
EPDi | Q9H400 |
jPOSTi | Q9H400 |
MassIVEi | Q9H400 |
MaxQBi | Q9H400 |
PaxDbi | Q9H400 |
PeptideAtlasi | Q9H400 |
PRIDEi | Q9H400 |
ProteomicsDBi | 80775 [Q9H400-1] 80776 [Q9H400-2] |
Protocols and materials databases
Antibodypediai | 4202, 344 antibodies |
CPTCi | Q9H400, 1 antibody |
Genome annotation databases
Ensembli | ENST00000309546; ENSP00000309521; ENSG00000203896 [Q9H400-1] |
GeneIDi | 54923 |
KEGGi | hsa:54923 |
UCSCi | uc002ygp.5, human [Q9H400-1] |
Organism-specific databases
CTDi | 54923 |
DisGeNETi | 54923 |
GeneCardsi | LIME1 |
HGNCi | HGNC:26016, LIME1 |
HPAi | ENSG00000203896, Group enriched (blood, liver, lymphoid tissue) |
MIMi | 609809, gene |
neXtProti | NX_Q9H400 |
OpenTargetsi | ENSG00000203896 |
PharmGKBi | PA142671551 |
VEuPathDBi | HostDB:ENSG00000203896.9 |
GenAtlasi | Search... |
Phylogenomic databases
eggNOGi | ENOG502RGRF, Eukaryota |
GeneTreei | ENSGT00510000050080 |
InParanoidi | Q9H400 |
OMAi | HQELPWA |
OrthoDBi | 931070at2759 |
PhylomeDBi | Q9H400 |
TreeFami | TF337416 |
Enzyme and pathway databases
PathwayCommonsi | Q9H400 |
Miscellaneous databases
BioGRID-ORCSi | 54923, 3 hits in 854 CRISPR screens |
GeneWikii | LIME1 |
GenomeRNAii | 54923 |
Pharosi | Q9H400, Tdark |
PROi | PR:Q9H400 |
RNActi | Q9H400, protein |
SOURCEi | Search... |
Gene expression databases
Bgeei | ENSG00000203896, Expressed in right lobe of liver and 112 other tissues |
ExpressionAtlasi | Q9H400, baseline and differential |
Genevisiblei | Q9H400, HS |
Family and domain databases
InterProi | View protein in InterPro IPR026072, Lime1 |
PANTHERi | PTHR47740, PTHR47740, 1 hit |
Pfami | View protein in Pfam PF15332, LIME1, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | LIME1_HUMAN | |
Accessioni | Q9H400Primary (citable) accession number: Q9H400 Secondary accession number(s): E1P5K5 Q9NX69 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | December 20, 2005 |
Last sequence update: | March 1, 2001 | |
Last modified: | February 10, 2021 | |
This is version 148 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 20
Human chromosome 20: 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