Q9HBG7 (LY9_HUMAN) Reviewed, UniProtKB/Swiss-Prot
Last modified
May 1, 2013.
Version 103.
History...
Names·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order
Names·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize orderNames and origin
| Protein names | Recommended name: T-lymphocyte surface antigen Ly-9 Alternative name(s): Cell surface molecule Ly-9 Lymphocyte antigen 9 SLAM family member 3 Short name=SLAMF3 Signaling lymphocytic activation molecule 3 CD_antigen=CD229 | ||||
| Gene names |
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| Organism | Homo sapiens (Human) [Reference proteome] | ||||
| Taxonomic identifier | 9606 [NCBI] | ||||
| Taxonomic lineage | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo![]() |
Protein attributes
| Sequence length | 655 AA. |
| Sequence status | Complete. |
| Sequence processing | The displayed sequence is further processed into a mature form. |
| Protein existence | Evidence at protein level |
General annotation (Comments)
| Function | May participate in adhesion reactions between T lymphocytes and accessory cells by homophilic interaction. |
| Subcellular location | |
| Sequence similarities | Contains 2 Ig-like C2-type (immunoglobulin-like) domains. Contains 2 Ig-like V-type (immunoglobulin-like) domains. |
| Sequence caution | The sequence CAH72360.1 differs from that shown. Reason: Erroneous gene model prediction. The sequence CAH73509.1 differs from that shown. Reason: Erroneous gene model prediction. |
Ontologies
| Keywords | |
|---|---|
| Biological process | Cell adhesion |
| Cellular component | Membrane |
| Coding sequence diversity | Alternative splicing Polymorphism |
| Domain | Immunoglobulin domain Repeat Signal Transmembrane Transmembrane helix |
| PTM | Disulfide bond Glycoprotein |
| Technical term | Complete proteome Reference proteome |
| Gene Ontology (GO) | |
| Biological_process | cell adhesion Inferred from electronic annotation. Source: UniProtKB-KW immunoglobulin mediated immune responseNon-traceable author statement. Source: UniProtKB |
| Cellular_component | integral to membrane Inferred from electronic annotation. Source: UniProtKB-KW |
| Molecular_function | receptor activity Inferred from electronic annotation. Source: InterPro |
| Complete GO annotation... | |
Alternative products
| This entry describes 4 isoforms produced by alternative splicing. [Align] [Select] Note: Experimental confirmation may be lacking for some isoforms. | ||||||
| Isoform 1 (identifier: Q9HBG7-1) 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. | ||||||
| Isoform 2 (identifier: Q9HBG7-2) The sequence of this isoform differs from the canonical sequence as follows: 500-513: Missing. | ||||||
| Isoform 3 (identifier: Q9HBG7-3) The sequence of this isoform differs from the canonical sequence as follows: 359-448: Missing. 500-513: Missing. 524-554: PARQQPTPTSDSSSDSNLTTEEDEDRPEVHK → Q | ||||||
| Isoform 4 (identifier: Q9HBG7-4) The sequence of this isoform differs from the canonical sequence as follows: 152-193: EQLQEPQVTM...EKSVLYSWTP → APFIEKLSVH...AEPRVSVREG | ||||||
| Note: No experimental confirmation available. |
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | ||||||
Molecule processing | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Signal peptide | 1 – 47 | 47 | Potential | ||||||||
| Chain | 48 – 655 | 608 | T-lymphocyte surface antigen Ly-9 | PRO_0000014851 | |||||||
Regions | |||||||||||
| Topological domain | 48 – 454 | 407 | Extracellular Potential | ||||||||
| Transmembrane | 455 – 476 | 22 | Helical; Potential | ||||||||
| Topological domain | 477 – 655 | 179 | Cytoplasmic Potential | ||||||||
| Domain | 48 – 158 | 111 | Ig-like V-type 1 | ||||||||
| Domain | 159 – 235 | 77 | Ig-like C2-type 1 | ||||||||
| Domain | 251 – 363 | 113 | Ig-like V-type 2 | ||||||||
| Domain | 364 – 452 | 89 | Ig-like C2-type 2 | ||||||||
Amino acid modifications | |||||||||||
| Glycosylation | 68 | 1 | N-linked (GlcNAc...) Potential | ||||||||
| Glycosylation | 95 | 1 | N-linked (GlcNAc...) Potential | ||||||||
| Glycosylation | 120 | 1 | N-linked (GlcNAc...) Potential | ||||||||
| Glycosylation | 169 | 1 | N-linked (GlcNAc...) Potential | ||||||||
| Glycosylation | 173 | 1 | N-linked (GlcNAc...) Potential | ||||||||
| Glycosylation | 285 | 1 | N-linked (GlcNAc...) Ref.8 | ||||||||
| Glycosylation | 413 | 1 | N-linked (GlcNAc...) Potential | ||||||||
| Glycosylation | 424 | 1 | N-linked (GlcNAc...) Potential | ||||||||
| Disulfide bond | 172 ↔ 242 | Potential | |||||||||
| Disulfide bond | 178 ↔ 222 | Potential | |||||||||
| Disulfide bond | 377 ↔ 446 | Potential | |||||||||
| Disulfide bond | 383 ↔ 427 | Potential | |||||||||
Natural variations | |||||||||||
| Alternative sequence | 152 – 193 | 42 | EQLQE…YSWTP → APFIEKLSVHVIEGDHRTLL EGSGLESIISTLAEPRVSVR EG in isoform 4. | VSP_043328 | |||||||
| Alternative sequence | 359 – 448 | 90 | Missing in isoform 3. | VSP_002524 | |||||||
| Alternative sequence | 500 – 513 | 14 | Missing in isoform 2 and isoform 3. | VSP_002525 | |||||||
| Alternative sequence | 524 – 554 | 31 | PARQQ…PEVHK → Q in isoform 3. | VSP_002526 | |||||||
| Natural variant | 602 | 1 | M → V. Ref.1 Ref.6 Corresponds to variant rs509749 [ dbSNP | Ensembl ]. | VAR_033612 | |||||||
Experimental info | |||||||||||
| Sequence conflict | 171 | 1 | Missing in AAG14995. Ref.1 | ||||||||
Sequences
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References
| « Hide 'large scale' references | |
| [1] | "Gene structure of the mouse leukocyte cell surface molecule Ly9." Tovar V., de la Fuente M.A., Pizcueta P., Bosch J., Engel P. Immunogenetics 51:788-793(2000) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), VARIANT VAL-602. |
| [2] | "Complete sequencing and characterization of 21,243 full-length human cDNAs." Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S. Sugano S.Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1). Tissue: Spleen. |
| [3] | "The DNA sequence and biological annotation of human chromosome 1." Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A., Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C., Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K. Bentley D.R.Nature 441:315-321(2006) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. |
| [4] | Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. Venter J.C.Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. |
| [5] | "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 4). Tissue: Blood. |
| [6] | "Isolation and characterization of cDNA clones for Humly9: the human homologue of mouse Ly9." Sandrin M.S., Henning M.M., Lo M.F., Baker E., Sutherland G.R., McKenzie I.F. Immunogenetics 43:13-19(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 32-654 (ISOFORM 2), VARIANT VAL-602. |
| [7] | "Pediatric leukemia cDNA sequencing project." Zhou J., Yu W., Tang H., Mei G., Tsang Y.T.M., Bouck J., Gibbs R.A., Margolin J.F. Submitted (JUL-2000) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 99-655 (ISOFORM 3). Tissue: Leukemia. |
| [8] | "Mass-spectrometric identification and relative quantification of N-linked cell surface glycoproteins." Wollscheid B., Bausch-Fluck D., Henderson C., O'Brien R., Bibel M., Schiess R., Aebersold R., Watts J.D. Nat. Biotechnol. 27:378-386(2009) [PubMed] [Europe PMC] [Abstract] Cited for: GLYCOSYLATION [LARGE SCALE ANALYSIS] AT ASN-285, MASS SPECTROMETRY. Tissue: Leukemic T-cell. |
| + | Additional computationally mapped references. |
Cross-references
Sequence databases | |
|---|---|
| EMBL GenBank DDBJ | AF244129 mRNA. Translation: AAG14995.1. AK292048 mRNA. Translation: BAF84737.1. AL354714, AL121985 Genomic DNA. Translation: CAH72360.1. Sequence problems. AL121985, AL354714 Genomic DNA. Translation: CAH73509.1. Sequence problems. AL121985 Genomic DNA. Translation: CAH73510.1. CH471121 Genomic DNA. Translation: EAW52699.1. BC064485 mRNA. Translation: AAH64485.1. L42621 mRNA. Translation: AAA92623.1. AY007142 mRNA. Translation: AAG02002.1. |
| IPI | IPI00183782. IPI00215875. IPI00440193. IPI00795912. |
| RefSeq | NP_001028839.1. NM_001033667.2. NP_001248385.1. NM_001261456.1. NP_002339.2. NM_002348.3. |
| UniGene | Hs.403857. |
3D structure databases | |
| ProteinModelPortal | Q9HBG7. |
| ModBase | Search... |
Protein-protein interaction databases | |
| IntAct | Q9HBG7. 1 interaction. |
| STRING | 9606.ENSP00000357020. |
PTM databases | |
| PhosphoSite | Q9HBG7. |
Polymorphism databases | |
| DMDM | 71152965. |
Proteomic databases | |
| PaxDb | Q9HBG7. |
| PRIDE | Q9HBG7. |
Protocols and materials databases | |
| DNASU | 4063. |
| StructuralBiologyKnowledgebase | Search... |
Genome annotation databases | |
| Ensembl | ENST00000263285; ENSP00000263285; ENSG00000122224. ENST00000368039; ENSP00000357018; ENSG00000122224. ENST00000368041; ENSP00000357020; ENSG00000122224. |
| GeneID | 4063. |
| KEGG | hsa:4063. |
| UCSC | uc001fwu.3. human. uc001fwv.3. human. |
Organism-specific databases | |
| CTD | 4063. |
| GeneCards | GC01P160765. |
| HGNC | HGNC:6730. LY9. |
| HPA | HPA050917. |
| MIM | 600684. gene. |
| neXtProt | NX_Q9HBG7. |
| PharmGKB | PA30494. |
| GenAtlas | Search... |
Phylogenomic databases | |
| eggNOG | NOG150167. |
| HOGENOM | HOG000013143. |
| HOVERGEN | HBG030765. |
| KO | K06570. |
| PhylomeDB | Q9HBG7. |
Gene expression databases | |
| ArrayExpress | Q9HBG7. |
| Bgee | Q9HBG7. |
| CleanEx | HS_LY9. |
| Genevestigator | Q9HBG7. |
| GermOnline | ENSG00000122224. Homo sapiens. |
Family and domain databases | |
| Gene3D | 2.60.40.10. 4 hits. |
| InterPro | IPR007110. Ig-like_dom. IPR013783. Ig-like_fold. IPR003599. Ig_sub. IPR015631. SLAM_fam_rcpts. [Graphical view] |
| PANTHER | PTHR12080. PTHR12080. 1 hit. |
| SMART | SM00409. IG. 2 hits. [Graphical view] |
| PROSITE | PS50835. IG_LIKE. 2 hits. [Graphical view] |
| ProtoNet | Search... |
Other | |
| GenomeRNAi | 4063. |
| NextBio | 15926. |
| SOURCE | Search... |
Entry information
| Entry name | LY9_HUMAN | ||||||||
| Accession | Primary (citable) accession number: Q9HBG7 Secondary accession number(s): A8K7N3 Q9NQ24 | ||||||||
| Entry history |
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| Entry status | 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. | ||||||||
Relevant documents
| Human cell differentiation molecules CD nomenclature of surface proteins of human leucocytes and list of entries |
| Human chromosome 1 Human chromosome 1: entries, gene names and cross-references to MIM |
| 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 |
| SIMILARITY comments Index of protein domains and families |

Clusters with
