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Protein

Ly6/PLAUR domain-containing protein 3

Gene

LYPD3

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

Functioni

Supports cell migration. May be involved in urothelial cell-matrix interactions. May be involved in tumor progression.4 Publications

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Names & Taxonomyi

Protein namesi
Recommended name:
Ly6/PLAUR domain-containing protein 3
Alternative name(s):
GPI-anchored metastasis-associated protein C4.4A homolog
Matrigel-induced gene C4 protein
Short name:
MIG-C4
Gene namesi
Name:LYPD3
Synonyms:C4.4A
ORF Names:UNQ491/PRO1007
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 19

Organism-specific databases

HGNCiHGNC:24880. LYPD3.

Subcellular locationi

GO - Cellular componenti

  • anchored component of plasma membrane Source: HGNC
  • extracellular space Source: UniProtKB
  • integral component of membrane Source: Ensembl
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA142671490.

Polymorphism and mutation databases

BioMutaiLYPD3.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 3030Sequence analysisAdd
BLAST
Chaini31 – 326296Ly6/PLAUR domain-containing protein 3PRO_0000226751Add
BLAST
Propeptidei327 – 34620Removed in mature formSequence analysisPRO_0000226752Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi118 – 1181N-linked (GlcNAc...)Sequence analysis
Glycosylationi163 – 1631N-linked (GlcNAc...)Sequence analysis
Glycosylationi176 – 1761N-linked (GlcNAc...)Sequence analysis
Glycosylationi183 – 1831N-linked (GlcNAc...)Sequence analysis
Lipidationi326 – 3261GPI-anchor amidated cysteineSequence analysis

Post-translational modificationi

N-glycosylated and O-glycosylated.1 Publication

Keywords - PTMi

Glycoprotein, GPI-anchor, Lipoprotein

Proteomic databases

MaxQBiO95274.
PaxDbiO95274.
PeptideAtlasiO95274.
PRIDEiO95274.

PTM databases

iPTMnetiO95274.
PhosphoSiteiO95274.

Expressioni

Tissue specificityi

Expressed in placenta, skin and urothelium. Found in suprabasal keratinocytes of chronic wounds. Weak expression is found in esophagus and peripheral blood mononuclear cells. Found in the majority of primary and metastatic transitional cell carcinomas (TCCs) and as well in breast cancer tissues, but not in adjacent normal tissues. High expression is found in the tumor component of some noninvasive superficial lesions and in invasive and metastatic urothelial cancers.3 Publications

Inductioni

Up-regulated in migrating keratinocytes during epithelisation of incisional skin wounds.

Gene expression databases

BgeeiO95274.
CleanExiHS_LYPD3.
ExpressionAtlasiO95274. baseline and differential.
GenevisibleiO95274. HS.

Organism-specific databases

HPAiHPA041529.
HPA041797.

Interactioni

Subunit structurei

Binds laminin-1 and laminin-5. Interacts with LGALS3 (By similarity). Interacts with AGR2 and AGR3.By similarity1 Publication

GO - Molecular functioni

Protein-protein interaction databases

BioGridi117985. 117 interactions.
IntActiO95274. 15 interactions.
STRINGi9606.ENSP00000244333.

Structurei

3D structure databases

ProteinModelPortaliO95274.
SMRiO95274. Positions 31-223.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini33 – 12694UPAR/Ly6 1Add
BLAST
Domaini140 – 22283UPAR/Ly6 2Add
BLAST

Sequence similaritiesi

Contains 2 UPAR/Ly6 domains.Curated

Keywords - Domaini

Repeat, Signal

Phylogenomic databases

eggNOGiENOG410IIUT. Eukaryota.
ENOG41116C6. LUCA.
GeneTreeiENSGT00840000129923.
HOGENOMiHOG000059631.
HOVERGENiHBG053008.
InParanoidiO95274.
OMAiCYNASDR.
OrthoDBiEOG7VQJDD.
PhylomeDBiO95274.
TreeFamiTF337983.

Family and domain databases

InterProiIPR016054. LY6_UPA_recep-like.
[Graphical view]
PfamiPF00021. UPAR_LY6. 2 hits.
[Graphical view]
SMARTiSM00134. LU. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

O95274-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDPARKAGAQ AMIWTAGWLL LLLLRGGAQA LECYSCVQKA DDGCSPNKMK
60 70 80 90 100
TVKCAPGVDV CTEAVGAVET IHGQFSLAVR GCGSGLPGKN DRGLDLHGLL
110 120 130 140 150
AFIQLQQCAQ DRCNAKLNLT SRALDPAGNE SAYPPNGVEC YSCVGLSREA
160 170 180 190 200
CQGTSPPVVS CYNASDHVYK GCFDGNVTLT AANVTVSLPV RGCVQDEFCT
210 220 230 240 250
RDGVTGPGFT LSGSCCQGSR CNSDLRNKTY FSPRIPPLVR LPPPEPTTVA
260 270 280 290 300
STTSVTTSTS APVRPTSTTK PMPAPTSQTP RQGVEHEASR DEEPRLTGGA
310 320 330 340
AGHQDRSNSG QYPAKGGPQQ PHNKGCVAPT AGLAALLLAV AAGVLL
Length:346
Mass (Da):35,971
Last modified:March 7, 2006 - v2
Checksum:i97FF9B4A554934FF
GO

Mass spectrometryi

Molecular mass is 21442.9 Da from positions 1 - 204. Determined by MALDI. 1 Publication

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF082889 mRNA. Translation: AAD13751.1.
AJ223603 mRNA. Translation: CAA11469.2.
AY359006 mRNA. Translation: AAQ89365.1.
AC018758 Genomic DNA. Translation: AAG09062.1.
BC039167 mRNA. Translation: AAH39167.1.
CCDSiCCDS12620.1.
RefSeqiNP_055215.2. NM_014400.2.
UniGeneiHs.631594.

Genome annotation databases

EnsembliENST00000244333; ENSP00000244333; ENSG00000124466.
GeneIDi27076.
KEGGihsa:27076.
UCSCiuc002owl.2. human.

Cross-referencesi

Web resourcesi

Atlas of Genetics and Cytogenetics in Oncology and Haematology

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF082889 mRNA. Translation: AAD13751.1.
AJ223603 mRNA. Translation: CAA11469.2.
AY359006 mRNA. Translation: AAQ89365.1.
AC018758 Genomic DNA. Translation: AAG09062.1.
BC039167 mRNA. Translation: AAH39167.1.
CCDSiCCDS12620.1.
RefSeqiNP_055215.2. NM_014400.2.
UniGeneiHs.631594.

3D structure databases

ProteinModelPortaliO95274.
SMRiO95274. Positions 31-223.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi117985. 117 interactions.
IntActiO95274. 15 interactions.
STRINGi9606.ENSP00000244333.

PTM databases

iPTMnetiO95274.
PhosphoSiteiO95274.

Polymorphism and mutation databases

BioMutaiLYPD3.

Proteomic databases

MaxQBiO95274.
PaxDbiO95274.
PeptideAtlasiO95274.
PRIDEiO95274.

Protocols and materials databases

DNASUi27076.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000244333; ENSP00000244333; ENSG00000124466.
GeneIDi27076.
KEGGihsa:27076.
UCSCiuc002owl.2. human.

Organism-specific databases

CTDi27076.
GeneCardsiLYPD3.
HGNCiHGNC:24880. LYPD3.
HPAiHPA041529.
HPA041797.
MIMi609484. gene.
neXtProtiNX_O95274.
PharmGKBiPA142671490.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410IIUT. Eukaryota.
ENOG41116C6. LUCA.
GeneTreeiENSGT00840000129923.
HOGENOMiHOG000059631.
HOVERGENiHBG053008.
InParanoidiO95274.
OMAiCYNASDR.
OrthoDBiEOG7VQJDD.
PhylomeDBiO95274.
TreeFamiTF337983.

Miscellaneous databases

ChiTaRSiLYPD3. human.
GeneWikiiLYPD3.
GenomeRNAii27076.
PROiO95274.
SOURCEiSearch...

Gene expression databases

BgeeiO95274.
CleanExiHS_LYPD3.
ExpressionAtlasiO95274. baseline and differential.
GenevisibleiO95274. HS.

Family and domain databases

InterProiIPR016054. LY6_UPA_recep-like.
[Graphical view]
PfamiPF00021. UPAR_LY6. 2 hits.
[Graphical view]
SMARTiSM00134. LU. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Identification of genes involved in human urothelial cell-matrix interactions: implications for the progression pathways of malignant urothelium."
    Smith B.A., Kennedy W.J., Harnden P., Selby P.J., Trejdosiewicz L.K., Southgate J.
    Cancer Res. 61:1678-1685(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION.
    Tissue: Urothelium.
  2. "Cloning of the human homologue of the metastasis-associated rat C4.4A."
    Wuerfel J., Seiter S., Stassar M., Claas A., Klaes R., Roesel M., Marhaba R., Savelyeva L., Schwab M., Matzku S., Zoeller M.
    Gene 262:35-41(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, TISSUE SPECIFICITY.
    Tissue: Placenta.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
  4. "The DNA sequence and biology of human chromosome 19."
    Grimwood J., Gordon L.A., Olsen A.S., Terry A., Schmutz J., Lamerdin J.E., Hellsten U., Goodstein D., Couronne O., Tran-Gyamfi M., Aerts A., Altherr M., Ashworth L., Bajorek E., Black S., Branscomb E., Caenepeel S., Carrano A.V.
    , Caoile C., Chan Y.M., Christensen M., Cleland C.A., Copeland A., Dalin E., Dehal P., Denys M., Detter J.C., Escobar J., Flowers D., Fotopulos D., Garcia C., Georgescu A.M., Glavina T., Gomez M., Gonzales E., Groza M., Hammon N., Hawkins T., Haydu L., Ho I., Huang W., Israni S., Jett J., Kadner K., Kimball H., Kobayashi A., Larionov V., Leem S.-H., Lopez F., Lou Y., Lowry S., Malfatti S., Martinez D., McCready P.M., Medina C., Morgan J., Nelson K., Nolan M., Ovcharenko I., Pitluck S., Pollard M., Popkie A.P., Predki P., Quan G., Ramirez L., Rash S., Retterer J., Rodriguez A., Rogers S., Salamov A., Salazar A., She X., Smith D., Slezak T., Solovyev V., Thayer N., Tice H., Tsai M., Ustaszewska A., Vo N., Wagner M., Wheeler J., Wu K., Xie G., Yang J., Dubchak I., Furey T.S., DeJong P., Dickson M., Gordon D., Eichler E.E., Pennacchio L.A., Richardson P., Stubbs L., Rokhsar D.S., Myers R.M., Rubin E.M., Lucas S.M.
    Nature 428:529-535(2004) [PubMed] [Europe PMC] [Abstract]
    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].
    Tissue: Skin.
  6. "Structural analysis and tissue localization of human C4.4A: a protein homologue of the urokinase receptor."
    Hansen L.V., Gaardsvoll H., Nielsen B.S., Lund L.R., Danoe K., Jensen O.N., Ploug M.
    Biochem. Eng. J. 380:845-857(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 196-216, FUNCTION, TISSUE SPECIFICITY, MASS SPECTROMETRY, GLYCOSYLATION, GPI-ANCHOR.
  7. "hAG-2 and hAG-3, human homologues of genes involved in differentiation, are associated with oestrogen receptor-positive breast tumours and interact with metastasis gene C4.4a and dystroglycan."
    Fletcher G.C., Patel S., Tyson K., Adam P.J., Schenker M., Loader J.A., Daviet L., Legrain P., Parekh R., Harris A.L., Terrett J.A.
    Br. J. Cancer 88:579-585(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, TISSUE SPECIFICITY, INTERACTION WITH AGR2 AND AGR3.

Entry informationi

Entry nameiLYPD3_HUMAN
AccessioniPrimary (citable) accession number: O95274
Secondary accession number(s): Q9UJ74
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 7, 2006
Last sequence update: March 7, 2006
Last modified: July 6, 2016
This is version 97 of the entry and version 2 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 19
    Human chromosome 19: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. 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.