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Protein

Lymphocyte antigen 6D

Gene

LY6D

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

May act as a specification marker at earliest stage specification of lymphocytes between B- and T-cell development. Marks the earliest stage of B-cell specification.

GO - Biological processi

  • cell adhesion Source: ProtInc
  • lymphocyte differentiation Source: Ensembl
  • response to stilbenoid Source: Ensembl
Complete GO annotation...

Keywords - Biological processi

Cell adhesion

Names & Taxonomyi

Protein namesi
Recommended name:
Lymphocyte antigen 6D
Short name:
Ly-6D
Alternative name(s):
E48 antigen
Gene namesi
Name:LY6D
Synonyms:E48
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 8

Organism-specific databases

HGNCiHGNC:13348. LY6D.

Subcellular locationi

GO - Cellular componenti

  • anchored component of membrane Source: UniProtKB-KW
  • cell surface Source: Ensembl
  • membrane Source: ProtInc
  • plasma membrane Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA134928593.

Polymorphism and mutation databases

BioMutaiLY6D.
DMDMi2501524.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 20202 PublicationsAdd
BLAST
Chaini21 – 9878Lymphocyte antigen 6DPRO_0000036134Add
BLAST
Propeptidei99 – 12830Removed in mature formSequence analysisPRO_0000036135Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi23 ↔ 45By similarity
Disulfide bondi26 ↔ 32By similarity
Disulfide bondi38 ↔ 63By similarity
Disulfide bondi67 ↔ 86By similarity
Disulfide bondi87 ↔ 92By similarity
Lipidationi98 – 981GPI-anchor amidated asparagineSequence analysis

Keywords - PTMi

Disulfide bond, Glycoprotein, GPI-anchor, Lipoprotein

Proteomic databases

MaxQBiQ14210.
PaxDbiQ14210.
PeptideAtlasiQ14210.
PRIDEiQ14210.

PTM databases

PhosphoSiteiQ14210.

Expressioni

Tissue specificityi

Expressed exclusively at the outer cell surface of transitional epithelia and the keratinocyte of stratified squamous epithelia.

Gene expression databases

BgeeiQ14210.
CleanExiHS_LY6D.
GenevisibleiQ14210. HS.

Organism-specific databases

HPAiHPA024755.

Interactioni

Protein-protein interaction databases

BioGridi114148. 3 interactions.
IntActiQ14210. 5 interactions.
STRINGi9606.ENSP00000301263.

Structurei

3D structure databases

ProteinModelPortaliQ14210.
SMRiQ14210. Positions 21-94.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini21 – 10888UPAR/Ly6Add
BLAST

Sequence similaritiesi

Contains 1 UPAR/Ly6 domain.Curated

Keywords - Domaini

Signal

Phylogenomic databases

eggNOGiENOG410J2E2. Eukaryota.
ENOG4111DU7. LUCA.
GeneTreeiENSGT00730000111514.
HOVERGENiHBG096383.
InParanoidiQ14210.
KOiK06846.
OMAiLRCHVCT.
OrthoDBiEOG7D59R4.
PhylomeDBiQ14210.
TreeFamiTF336080.

Family and domain databases

InterProiIPR018363. CD59_antigen_CS.
IPR016054. LY6_UPA_recep-like.
[Graphical view]
PfamiPF00021. UPAR_LY6. 1 hit.
[Graphical view]
SMARTiSM00134. LU. 1 hit.
[Graphical view]
PROSITEiPS00983. LY6_UPAR. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q14210-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRTALLLLAA LAVATGPALT LRCHVCTSSS NCKHSVVCPA SSRFCKTTNT
60 70 80 90 100
VEPLRGNLVK KDCAESCTPS YTLQGQVSSG TSSTQCCQED LCNEKLHNAA
110 120
PTRTALAHSA LSLGLALSLL AVILAPSL
Length:128
Mass (Da):13,286
Last modified:November 1, 1997 - v1
Checksum:i39618DF6AB5B0EBD
GO

Sequence cautioni

The sequence AAH22806.1 differs from that shown. Reason: Erroneous initiation. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti60 – 601K → E in AAB07524 (PubMed:9551972).Curated
Sequence conflicti76 – 761Q → L in AAB07524 (PubMed:9551972).Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti10 – 101A → T.2 Publications
Corresponds to variant rs2572925 [ dbSNP | Ensembl ].
VAR_038712

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X82693 mRNA. Translation: CAA58014.1.
Y12642 Genomic DNA. Translation: CAA73189.1.
AK312164 mRNA. Translation: BAG35098.1.
CH471162 Genomic DNA. Translation: EAW82297.1.
CH471162 Genomic DNA. Translation: EAW82298.1.
BC022806 mRNA. Translation: AAH22806.1. Different initiation.
BC031330 mRNA. Translation: AAH31330.1.
U66837 Genomic DNA. Translation: AAB07524.1.
CCDSiCCDS6390.1.
PIRiA57321.
RefSeqiNP_003686.1. NM_003695.2.
UniGeneiHs.415762.

Genome annotation databases

EnsembliENST00000301263; ENSP00000301263; ENSG00000167656.
GeneIDi8581.
KEGGihsa:8581.
UCSCiuc003yxf.2. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X82693 mRNA. Translation: CAA58014.1.
Y12642 Genomic DNA. Translation: CAA73189.1.
AK312164 mRNA. Translation: BAG35098.1.
CH471162 Genomic DNA. Translation: EAW82297.1.
CH471162 Genomic DNA. Translation: EAW82298.1.
BC022806 mRNA. Translation: AAH22806.1. Different initiation.
BC031330 mRNA. Translation: AAH31330.1.
U66837 Genomic DNA. Translation: AAB07524.1.
CCDSiCCDS6390.1.
PIRiA57321.
RefSeqiNP_003686.1. NM_003695.2.
UniGeneiHs.415762.

3D structure databases

ProteinModelPortaliQ14210.
SMRiQ14210. Positions 21-94.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi114148. 3 interactions.
IntActiQ14210. 5 interactions.
STRINGi9606.ENSP00000301263.

PTM databases

PhosphoSiteiQ14210.

Polymorphism and mutation databases

BioMutaiLY6D.
DMDMi2501524.

Proteomic databases

MaxQBiQ14210.
PaxDbiQ14210.
PeptideAtlasiQ14210.
PRIDEiQ14210.

Protocols and materials databases

DNASUi8581.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000301263; ENSP00000301263; ENSG00000167656.
GeneIDi8581.
KEGGihsa:8581.
UCSCiuc003yxf.2. human.

Organism-specific databases

CTDi8581.
GeneCardsiLY6D.
HGNCiHGNC:13348. LY6D.
HPAiHPA024755.
MIMi606204. gene.
neXtProtiNX_Q14210.
PharmGKBiPA134928593.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410J2E2. Eukaryota.
ENOG4111DU7. LUCA.
GeneTreeiENSGT00730000111514.
HOVERGENiHBG096383.
InParanoidiQ14210.
KOiK06846.
OMAiLRCHVCT.
OrthoDBiEOG7D59R4.
PhylomeDBiQ14210.
TreeFamiTF336080.

Miscellaneous databases

ChiTaRSiLY6D. human.
GenomeRNAii8581.
NextBioi32193.
PROiQ14210.
SOURCEiSearch...

Gene expression databases

BgeeiQ14210.
CleanExiHS_LY6D.
GenevisibleiQ14210. HS.

Family and domain databases

InterProiIPR018363. CD59_antigen_CS.
IPR016054. LY6_UPA_recep-like.
[Graphical view]
PfamiPF00021. UPAR_LY6. 1 hit.
[Graphical view]
SMARTiSM00134. LU. 1 hit.
[Graphical view]
PROSITEiPS00983. LY6_UPAR. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The human E48 antigen, highly homologous to the murine Ly-6 antigen ThB, is a GPI-anchored molecule apparently involved in keratinocyte cell-cell adhesion."
    Brakenhoff R.H., Gerretsen M., Knippels E.M.C., van Dijk M., van Essen H., Weghuis D.O., Sinke R.J., Snow G.B., van Dongen G.A.M.S.
    J. Cell Biol. 129:1677-1689(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], PROTEIN SEQUENCE OF 21-33, GPI-ANCHOR.
  2. "A gain of novel tissue specificity in the human Ly-6 gene E48."
    Brakenhoff R.H., van Dijk M., Rood-Knippels E.M.C., Snow G.B.
    J. Immunol. 159:4879-4886(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], VARIANT THR-10.
  3. "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.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Tongue.
  4. 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], VARIANT THR-10.
    Tissue: Brain.
  6. "Characterization and mapping to human chromosome 8q24.3 of Ly-6-related gene 9804 encoding an apparent homologue of mouse TSA-1."
    Shan X., Bourdeau A., Rhoton A., Wells D.E., Cohen E.H., Landgraf B.E., Palfree R.G.E.
    J. Immunol. 160:197-208(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 18-96.
  7. "Signal peptide prediction based on analysis of experimentally verified cleavage sites."
    Zhang Z., Henzel W.J.
    Protein Sci. 13:2819-2824(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 21-35.

Entry informationi

Entry nameiLY6D_HUMAN
AccessioniPrimary (citable) accession number: Q14210
Secondary accession number(s): B2R5F1
, D3DWJ0, O43783, Q6GTV9, Q8TBD4, Q92933
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1997
Last modified: May 11, 2016
This is version 133 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny 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, Direct protein sequencing, Reference proteome

Documents

  1. Human chromosome 8
    Human chromosome 8: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. 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.