Human Gene CD84 (ENST00000368054.7) Description and Page Index
  Description: Homo sapiens CD84 molecule (CD84), transcript variant 2, mRNA. (from RefSeq NM_003874)
RefSeq Summary (NM_003874): This gene encodes a membrane glycoprotein that is a member of the signaling lymphocyte activation molecule (SLAM) family. This family forms a subset of the larger CD2 cell-surface receptor Ig superfamily. The encoded protein is a homophilic adhesion molecule that is expressed in numerous immune cells types and is involved in regulating receptor-mediated signaling in those cells. Alternate splicing results in multiple transcript variants. [provided by RefSeq, Oct 2011].
Gencode Transcript: ENST00000368054.7
Gencode Gene: ENSG00000066294.14
Transcript (Including UTRs)
   Position: hg38 chr1:160,541,098-160,579,473 Size: 38,376 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg38 chr1:160,548,256-160,579,437 Size: 31,182 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsCTDRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathways
Other NamesMethods
Data last updated: 2019-09-04

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:160,541,098-160,579,473)mRNA (may differ from genome)Protein (328 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsHGNC
HPRDLynxMGImyGene2neXtProtOMIM
PubMedReactomeStanford SOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: SLAF5_HUMAN
DESCRIPTION: RecName: Full=SLAM family member 5; AltName: Full=Cell surface antigen MAX.3; AltName: Full=Hly9-beta; AltName: Full=Leukocyte differentiation antigen CD84; AltName: Full=Signaling lymphocytic activation molecule 5; AltName: CD_antigen=CD84; Flags: Precursor;
FUNCTION: Plays a role as adhesion receptor functioning by homophilic interactions and by clustering. Recruits SH2 domain- containing proteins SH2D1A/SAP. Increases proliferative responses of activated T-cells and SH2D1A/SAP does not seen be required for this process. Homophilic interactions enhance interferon gamma/IFNG secretion in lymphocytes and induce platelet stimulation via a SH2D1A/SAP-dependent pathway. May serve as a marker for hematopoietic progenitor cells.
SUBUNIT: Homodimer; via its extracellular domain. Forms a head to tail dimer with a CD48 molecule from another cell. Interacts with SH2 domain-containing proteins SH2D1A/SAP and SH2D1B/hEAT-2. Interacts with tyrosine-protein phosphatases PTPN6 and PTPN11 via its phosphorylated cytoplasmic domain, and this interaction is blocked by SH2D1A.
SUBCELLULAR LOCATION: Cell membrane; Single-pass type I membrane protein.
TISSUE SPECIFICITY: Predominantly expressed in hematopoietic tissues, such as lymph node, spleen and peripheral leukocytes. Expressed in macrophages, B-cells, monocytes, platelets, thymocytes, T-cells and dendritic cells. Highly expressed in memory T-cells.
DEVELOPMENTAL STAGE: Expression is slightly increased in naive B- cells after the first dividion. By contrast, expression on memory B-cells decreased with each successive division.
DOMAIN: ITSM (immunoreceptor tyrosine-based switch motif) motif is a cytoplasmic motif which may bind SH2D1A.
PTM: Phosphorylated by tyrosine-protein kinase LCK on tyrosine residues following ligation induced by agonist monoclonal antibody. The association with SH2D1A/SAP is dependent of tyrosines phosphorylation of its cytoplasmic domain Phosphorylated on Tyr-296 and Tyr-316 following platelet aggregation.
PTM: N-glycosylated.
SIMILARITY: Contains 1 Ig-like C2-type (immunoglobulin-like) domain.

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 9.14 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 53.14 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -3.1036-0.086 Picture PostScript Text
3' UTR -2060.907158-0.288 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR007110 - Ig-like
IPR013783 - Ig-like_fold
IPR003599 - Ig_sub
IPR015631 - SLAM_fam_rcpts

Protein Data Bank (PDB) 3-D Structure
MuPIT help

2PKD
- X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q9UIB8
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0042802 identical protein binding

Biological Process:
GO:0002250 adaptive immune response
GO:0002376 immune system process
GO:0006952 defense response
GO:0007155 cell adhesion
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules
GO:0032685 negative regulation of granulocyte macrophage colony-stimulating factor production
GO:0032701 negative regulation of interleukin-18 production
GO:0033004 negative regulation of mast cell activation
GO:0043305 negative regulation of mast cell degranulation
GO:0045087 innate immune response
GO:0050900 leukocyte migration
GO:2001256 regulation of store-operated calcium entry

Cellular Component:
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  BC020063 - Homo sapiens CD84 molecule, mRNA (cDNA clone MGC:21324 IMAGE:4385965), complete cds.
AJ223324 - Homo sapiens mRNA for MAX.3 cell surface antigen.
CR933666 - Homo sapiens mRNA; cDNA DKFZp781E2378 (from clone DKFZp781E2378).
AK296290 - Homo sapiens cDNA FLJ50781 complete cds, highly similar to Homo sapiens CD84 antigen (leukocyte antigen) (CD84), mRNA.
U82988 - Human leukocyte antigen CD84 mRNA, complete cds.
AF054815 - Homo sapiens leukocyte differentiation antigen CD84 isoform CD84c (CD84) mRNA, complete cds.
AF054816 - Homo sapiens leukocyte differentiation antigen CD84 isoform CD84a (CD84) mRNA, complete cds.
Y12632 - H.sapiens mRNA for leukocyte differentiation antigen CD84.
AF054817 - Homo sapiens leukocyte differentiation antigen CD84 isoform CD84d (CD84) mRNA, complete cds.
DQ891708 - Synthetic construct clone IMAGE:100004338; FLH179300.01X; RZPDo839E12130D CD84 molecule (CD84) gene, encodes complete protein.
AK313496 - Homo sapiens cDNA, FLJ94050, Homo sapiens CD84 antigen (leukocyte antigen) (CD84), mRNA.
CU676492 - Synthetic construct Homo sapiens gateway clone IMAGE:100018111 5' read CD84 mRNA.
DQ894872 - Synthetic construct Homo sapiens clone IMAGE:100009332; FLH179296.01L; RZPDo839E12129D CD84 molecule (CD84) gene, encodes complete protein.
AB590277 - Synthetic construct DNA, clone: pFN21AE2292, Homo sapiens CD84 gene for CD84 molecule, without stop codon, in Flexi system.
CR541847 - Homo sapiens full open reading frame cDNA clone RZPDo834H0132D for gene CD84, CD84 antigen (leukocyte antigen); complete cds, without stopcodon.
U96627 - Homo sapiens CD84 mRNA, alternatively spliced, complete cds.
AF054818 - Homo sapiens leukocyte differentiation antigen CD84 isoform CD84s (CD84) mRNA, complete cds.
JD387961 - Sequence 368985 from Patent EP1572962.
JD320969 - Sequence 301993 from Patent EP1572962.
JD387962 - Sequence 368986 from Patent EP1572962.
JD320970 - Sequence 301994 from Patent EP1572962.
JD041221 - Sequence 22245 from Patent EP1572962.
JD169186 - Sequence 150210 from Patent EP1572962.
JD529111 - Sequence 510135 from Patent EP1572962.
JD041220 - Sequence 22244 from Patent EP1572962.
JD169185 - Sequence 150209 from Patent EP1572962.
JD529110 - Sequence 510134 from Patent EP1572962.
JD557300 - Sequence 538324 from Patent EP1572962.
JD169184 - Sequence 150208 from Patent EP1572962.
JD529109 - Sequence 510133 from Patent EP1572962.
JD557299 - Sequence 538323 from Patent EP1572962.
JD430129 - Sequence 411153 from Patent EP1572962.
JD118046 - Sequence 99070 from Patent EP1572962.
JD335284 - Sequence 316308 from Patent EP1572962.
JD387957 - Sequence 368981 from Patent EP1572962.
JD320966 - Sequence 301990 from Patent EP1572962.
JD247769 - Sequence 228793 from Patent EP1572962.
JD523739 - Sequence 504763 from Patent EP1572962.
JD335283 - Sequence 316307 from Patent EP1572962.
JD387956 - Sequence 368980 from Patent EP1572962.
JD351812 - Sequence 332836 from Patent EP1572962.
JD169183 - Sequence 150207 from Patent EP1572962.
JD258476 - Sequence 239500 from Patent EP1572962.
JD376796 - Sequence 357820 from Patent EP1572962.
JD522525 - Sequence 503549 from Patent EP1572962.
JD289047 - Sequence 270071 from Patent EP1572962.
JD498132 - Sequence 479156 from Patent EP1572962.
JD300062 - Sequence 281086 from Patent EP1572962.
JD112713 - Sequence 93737 from Patent EP1572962.
JD498855 - Sequence 479879 from Patent EP1572962.
JD063280 - Sequence 44304 from Patent EP1572962.
JD508645 - Sequence 489669 from Patent EP1572962.
JD083035 - Sequence 64059 from Patent EP1572962.
JD079827 - Sequence 60851 from Patent EP1572962.
JD046691 - Sequence 27715 from Patent EP1572962.
JD530742 - Sequence 511766 from Patent EP1572962.
JD379423 - Sequence 360447 from Patent EP1572962.
JD186585 - Sequence 167609 from Patent EP1572962.
JD167136 - Sequence 148160 from Patent EP1572962.
JD449016 - Sequence 430040 from Patent EP1572962.
JD050889 - Sequence 31913 from Patent EP1572962.
JD450804 - Sequence 431828 from Patent EP1572962.
JD355400 - Sequence 336424 from Patent EP1572962.
JD296458 - Sequence 277482 from Patent EP1572962.
JD309701 - Sequence 290725 from Patent EP1572962.
JD376596 - Sequence 357620 from Patent EP1572962.
JD414402 - Sequence 395426 from Patent EP1572962.
JD333725 - Sequence 314749 from Patent EP1572962.
JD496320 - Sequence 477344 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9UIB8 (Reactome details) participates in the following event(s):

R-HSA-202713 CD84 homodimerises
R-HSA-202733 Cell surface interactions at the vascular wall
R-HSA-109582 Hemostasis

-  Other Names for This Gene
  Alternate Gene Symbols: B2R8T1, B7Z3R8, NM_003874, O15430, O95266, O95660, Q5H9R1, Q6FHA8, Q8WLP1, Q8WWI8, Q9UF04, Q9UIB6, Q9UIB7, Q9UIB8, Q9UIT7, SLAF5_HUMAN, SLAMF5, uc001fwf.1, uc001fwf.2, uc001fwf.3, uc001fwf.4, uc001fwf.5
UCSC ID: uc001fwf.5
RefSeq Accession: NM_003874
Protein: Q9UIB8 (aka SLAF5_HUMAN)
CCDS: CCDS1206.1, CCDS53396.1, CCDS81388.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.