LIME1

Functionⁱ

Involved in BCR (B-cell antigen receptor)-mediated signaling in B-cells and TCR (T-cell antigen receptor)-mediated T-cell signaling in T-cells. In absence of TCR signaling, may be involved in CD4-mediated inhibition of T-cell activation. Couples activation of these receptors and their associated kinases with distal intracellular events such as calcium mobilization or MAPK activation through the recruitment of PLCG2, GRB2, GRAP2, and other signaling molecules.1 Publication

GO - Molecular functionⁱ

protein kinase binding
Source: GO_Central
Inferred from biological aspect of ancestorⁱ
- 21873635

View the complete GO annotation on QuickGO ...

GO - Biological processⁱ

adaptive immune response Source: UniProtKB-KW
B cell receptor signaling pathway
Source: GO_Central
Inferred from biological aspect of ancestorⁱ
- 21873635
regulation of I-kappaB kinase/NF-kappaB signaling
Source: GO_Central
Inferred from biological aspect of ancestorⁱ
- 21873635
regulation of MAP kinase activity
Source: GO_Central
Inferred from biological aspect of ancestorⁱ
- 21873635
regulation of NIK/NF-kappaB signaling
Source: GO_Central
Inferred from biological aspect of ancestorⁱ
- 21873635
regulation of phosphatidylinositol 3-kinase signaling
Source: GO_Central
Inferred from biological aspect of ancestorⁱ
- 21873635
regulation of release of sequestered calcium ion into cytosol
Source: GO_Central
Inferred from biological aspect of ancestorⁱ
- 21873635
regulation of transcription by RNA polymerase II
Source: GO_Central
Inferred from biological aspect of ancestorⁱ
- 21873635
T cell receptor signaling pathway Source: InterPro

View the complete GO annotation on QuickGO ...

Keywordsⁱ

Biological process	Adaptive immunity, Immunity

Biological process

Adaptive immunity, Immunity

Names & Taxonomyⁱ

Protein namesⁱ	Recommended name: Lck-interacting transmembrane adapter 1 Short 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	cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Dipnotetrapodomorpha › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Boreoeutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo
Proteomesⁱ	UP000005640 Componentⁱ: Chromosome 20

Organism-specific databases

EuPathDBⁱ	HostDB:ENSG00000203896.9
Human Gene Nomenclature Database More...HGNCⁱ	HGNC:26016 LIME1
MIMⁱ	609809 gene
neXtProtⁱ	NX_Q9H400

Topology

Feature key	Position(s)	DescriptionActions	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, Membrane

Pathology & Biotechⁱ

Mutagenesis

Feature key	Position(s)	DescriptionActions	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

Open Targets More...OpenTargetsⁱ	ENSG00000203896
PharmGKBⁱ	PA142671551

Polymorphism and mutation 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	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

Palmitoylation of Cys-28 and Cys-31 is required for raft targeting.1 Publication

Phosphorylated on tyrosines upon TCR activation and/or CD4 coreceptor stimulation, or upon BCR stimulation; which leads to the recruitment of SH2-containing proteins.2 Publications

Keywords - PTMⁱ

Lipoprotein, Palmitate, Phosphoprotein

Proteomic databases

EPDⁱ	Q9H400
MaxQB - The MaxQuant DataBase More...MaxQBⁱ	Q9H400
PaxDbⁱ	Q9H400
PeptideAtlas More...PeptideAtlasⁱ	Q9H400
PRIDEⁱ	Q9H400
ProteomicsDBⁱ	80775 80776 [Q9H400-2]

PTM databases

iPTMnetⁱ	Q9H400
PhosphoSitePlusⁱ	Q9H400
SwissPalmⁱ	Q9H400

Expressionⁱ

Tissue specificityⁱ

Expressed in peripheral blood lymphocytes, lymphoid tissues, and liver. Present in T-cells and plasma cells, and in various hematopoietic cell lines (at protein level).3 Publications

Gene expression databases

Bgeeⁱ	ENSG00000203896 Expressed in 87 organ(s), highest expression level in liver
CleanExⁱ	HS_LIME1
ExpressionAtlasⁱ	Q9H400 baseline and differential
Genevisibleⁱ	Q9H400 HS

Organism-specific databases

Human Protein Atlas More...HPAⁱ	CAB015363

HPAⁱ

CAB015363

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 Publications

GO - Molecular functionⁱ

protein kinase binding
Source: GO_Central
Inferred from biological aspect of ancestorⁱ
- 21873635

View the complete GO annotation on QuickGO ...

Protein-protein interaction databases

BioGridⁱ	120264, 4 interactors
IntActⁱ	Q9H400, 39 interactors
STRINGⁱ	9606.ENSP00000309521

Structureⁱ

3D structure databases

ProteinModelPortalⁱ	Q9H400
ModBaseⁱ	Search...
MobiDBⁱ	Search...

Family & Domainsⁱ

Region

Feature key	Position(s)	DescriptionActions	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 helix

Phylogenomic databases

eggNOGⁱ	ENOG410J9JT Eukaryota ENOG41114H9 LUCA
Ensembl GeneTree More...GeneTreeⁱ	ENSGT00510000050080
HOGENOMⁱ	HOG000231956
HOVERGENⁱ	HBG080499
InParanoidⁱ	Q9H400
OMAⁱ	VAEYACI
Database of Orthologous Groups More...OrthoDBⁱ	EOG091G0IKW
PhylomeDBⁱ	Q9H400
TreeFamⁱ	TF337416

Family and domain databases

InterProⁱ	View protein in InterPro IPR026072 Lime1
Pfam protein domain database More...Pfamⁱ	View protein in Pfam PF15332 LIME1, 1 hit

Sequences (2+)ⁱ

Sequence statusⁱ: Complete.

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

This entry has 2 described isoforms and 5 potential isoforms that are computationally mapped.Show all Align All

Isoform 1 (identifier: Q9H400-1) [UniParc]FASTA Add 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
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

Length:295

Mass (Da):31,288

Last modified:March 1, 2001 - v1

Checksum:ⁱD85ACE978F2DC99E

GO

Isoform 2 (identifier: Q9H400-2) [UniParc]FASTA Add to basket

The sequence of this isoform differs from the canonical sequence as follows:
1-95: Missing.

« Hide

        10         20         30         40         50
MDLLRPHWLE VSRDITGPQA APSAFPHQEL PRALPAAAAT AGCAGLEATY 
        60         70         80         90        100
SNVGLAALPG VSLAASPVVA EYARVQKRKG THRSPQEPQQ GKTEVTPAAQ 
       110        120        130        140        150
VDVLYSRVCK PKRRDPGPTT DPLDPKGQGA ILALAGDLAY QTLPLRALDV 
       160        170        180        190        200
DSGPLENVYE SIRELGDPAG RSSTCGAGTP PASSCPSLGR GWRPLPASLP

Show »

Length:200

Mass (Da):20,841

Checksum:ⁱ44A69D6E2379BCB3

GO

Computationally mapped potential isoform sequencesⁱ

There are 5 potential isoforms mapped to this entry.BLAST Align Show all Add to basket

Entry	Entry name	Protein names	Gene names	Length	Annotation

A0A087WT39	A0A087WT39_HUMAN	Lck-interacting transmembrane adapt... Lck-interacting transmembrane adapter 1	LIME1	176	Annotation score:
V9GYI1	V9GYI1_HUMAN	Lck-interacting transmembrane adapt... Lck-interacting transmembrane adapter 1	LIME1	131	Annotation score:
A0A087WUJ1	A0A087WUJ1_HUMAN	Lck-interacting transmembrane adapt... Lck-interacting transmembrane adapter 1	LIME1	252	Annotation score:
X6RKG5	X6RKG5_HUMAN	Lck-interacting transmembrane adapt... Lck-interacting transmembrane adapter 1	LIME1	106	Annotation score:
A0A087WZP9	A0A087WZP9_HUMAN	Lck-interacting transmembrane adapt... Lck-interacting transmembrane adapter 1	LIME1	211	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
The Consensus CDS (CCDS) project More...CCDSⁱ	CCDS13536.1 [Q9H400-1]
NCBI Reference Sequences More...RefSeqⁱ	NP_001292583.1, NM_001305654.1 NP_001292584.1, NM_001305655.1 NP_060276.2, NM_017806.3 [Q9H400-1]
UniGeneⁱ	Hs.233220

Genome annotation databases

Ensemblⁱ	ENST00000309546; ENSP00000309521; ENSG00000203896 [Q9H400-1]
GeneIDⁱ	54923
KEGGⁱ	hsa:54923
UCSC genome browser More...UCSCⁱ	uc002ygp.5 human [Q9H400-1]

Keywords - Coding sequence diversityⁱ

Alternative splicing, Polymorphism

Similar proteinsⁱ

100% Identity
90% Identity
50% Identity

Protein	Similar proteins		Species	Score	Length	Source
Q9H400	Isoform 2 of Lck-interacting transmembrane adapter 1		HUMAN		200	UniRef90_Q9H400
Uncharacterized protein		MACNE		315
Uncharacterized protein		CHLSB		315
Uncharacterized protein		RHIBE		304
Uncharacterized protein		COLAP		293
+12

Protein	Similar proteins		Species	Score	Length	Source
Q9H400	Isoform 2 of Lck-interacting transmembrane adapter 1		HUMAN		200	UniRef50_Q9H400
Uncharacterized protein		CHLSB		315
Uncharacterized protein		MACNE		315
Uncharacterized protein		RHIBE		304
Uncharacterized protein		COLAP		293
+16

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]
UniGeneⁱ	Hs.233220

3D structure databases

ProteinModelPortalⁱ	Q9H400
ModBaseⁱ	Search...
MobiDBⁱ	Search...

Protein-protein interaction databases

BioGridⁱ	120264, 4 interactors
IntActⁱ	Q9H400, 39 interactors
STRINGⁱ	9606.ENSP00000309521

PTM databases

iPTMnetⁱ	Q9H400
PhosphoSitePlusⁱ	Q9H400
SwissPalmⁱ	Q9H400

Polymorphism and mutation databases

BioMutaⁱ	LIME1
DMDMⁱ	74752630

Proteomic databases

EPDⁱ	Q9H400
MaxQBⁱ	Q9H400
PaxDbⁱ	Q9H400
PeptideAtlasⁱ	Q9H400
PRIDEⁱ	Q9H400
ProteomicsDBⁱ	80775 80776 [Q9H400-2]

Protocols and materials databases

Structural Biology Knowledgebase	Search...

Structural Biology Knowledgebase

Search...

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
EuPathDBⁱ	HostDB:ENSG00000203896.9
GeneCardsⁱ	LIME1
HGNCⁱ	HGNC:26016 LIME1
HPAⁱ	CAB015363
MIMⁱ	609809 gene
neXtProtⁱ	NX_Q9H400
OpenTargetsⁱ	ENSG00000203896
PharmGKBⁱ	PA142671551
GenAtlas: human gene database More...GenAtlasⁱ	Search...

Phylogenomic databases

eggNOGⁱ	ENOG410J9JT Eukaryota ENOG41114H9 LUCA
GeneTreeⁱ	ENSGT00510000050080
HOGENOMⁱ	HOG000231956
HOVERGENⁱ	HBG080499
InParanoidⁱ	Q9H400
OMAⁱ	VAEYACI
OrthoDBⁱ	EOG091G0IKW
PhylomeDBⁱ	Q9H400
TreeFamⁱ	TF337416

Miscellaneous databases

GeneWikiⁱ	LIME1
GenomeRNAiⁱ	54923
Protein Ontology More...PROⁱ	PR:Q9H400
SOURCEⁱ	Search...

Gene expression databases

Bgeeⁱ	ENSG00000203896 Expressed in 87 organ(s), highest expression level in liver
CleanExⁱ	HS_LIME1
ExpressionAtlasⁱ	Q9H400 baseline and differential
Genevisibleⁱ	Q9H400 HS

Family and domain databases

InterProⁱ	View protein in InterPro IPR026072 Lime1
Pfamⁱ	View protein in Pfam PF15332 LIME1, 1 hit
ProtoNetⁱ	Search...

Entry informationⁱ

Entry nameⁱ	LIME1_HUMAN
Accessionⁱ	Q9H400Primary (citable) accession number: Q9H400 Secondary accession number(s): E1P5K5 , E1P5K6, Q5JWJ2, Q6XYB3, Q9NX69
Entry historyⁱ	Integrated into UniProtKB/Swiss-Prot:	December 20, 2005
	Last sequence update:	March 1, 2001
	Last modified:	November 7, 2018
	This is version 133 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

Complete proteome, Reference proteome

Documents

Human entries with polymorphisms or disease mutations
List of human entries with polymorphisms or disease mutations
Human polymorphisms and disease mutations
Index of human polymorphisms and disease mutations
MIM cross-references
Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
Human chromosome 20
Human chromosome 20: entries, gene names and cross-references to MIM

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UniProtKB - Q9H400 (LIME1_HUMAN)

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Lck-interacting transmembrane adapter 1

Select a section on the left to see content.

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

Organism-specific databases

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Plasma membrane

Extracellular region or secreted

Plasma Membrane

Other locations

Topology

Keywords - Cellular componenti

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

Mutagenesis

Organism-specific databases

Polymorphism and mutation databases

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Amino acid modifications

Keywords - PTMi

Proteomic databases

PTM databases

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

Gene expression databases

Organism-specific databases

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

GO - Molecular functioni

Protein-protein interaction databases

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Region

Keywords - Domaini

Phylogenomic databases

Family and domain databases

Experimental Info

Natural variant

Alternative sequence

Sequence databases

Genome annotation databases

Keywords - Coding sequence diversityi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

3D structure databases

Protein-protein interaction databases

PTM databases

Polymorphism and mutation databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Miscellaneous databases

Gene expression databases

Family and domain databases

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Documents

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Functionⁱ

GO - Molecular functionⁱ

GO - Biological processⁱ

Names & Taxonomyⁱ

Subcellular locationⁱ

Keywords - Cellular componentⁱ

Pathology & Biotechⁱ

PTM / Processingⁱ

Keywords - PTMⁱ

Expressionⁱ

Interactionⁱ

GO - Molecular functionⁱ

Structureⁱ

Family & Domainsⁱ

Keywords - Domainⁱ

Keywords - Coding sequence diversityⁱ

Cross-referencesⁱ

Entry informationⁱ

Miscellaneousⁱ

Keywords - Technical termⁱ