Reviewed, UniProtKB/Swiss-Prot Q9BYE9 (PCD24_HUMAN)

Names and origin

Protein names

Recommended name:
    Protocadherin-24
Alternative name(s):
    Protocadherin LKC
      Short name=PC-LKC

Gene names

Name:	PCDH24
Synonyms:	PCLKC

Organism

Homo sapiens (Human)

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo

Protein attributes

Sequence length	1310 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	Role in contact inhibition at the lateral surface of epithelial cells.
Subunit structure	Interacts with MAST2.
Subcellular location	Apical cell membrane; Single-pass type I membrane protein. Cell junction. Note= Present at the cell junctions and the apical surface of cells. Colocalizes with actin at the microvilli-like structures which protrude from the apical surface.
Tissue specificity	Highly expressed in liver, kidney and colon. Moderately expressed in small intestine. Down-regulated in a number of liver and colon cancers.
Sequence similarities	Contains 9 cadherin domains.

Ontologies

Keywords
Biological process	Cell adhesion
Cellular component	Cell junction Cell membrane Membrane
Coding sequence diversity	Polymorphism
Domain	Repeat Signal Transmembrane
Ligand	Calcium
PTM	Glycoprotein
Gene Ontology (GO)
Biological process	homophilic cell adhesion Inferred from electronic annotation. Source: InterPro negative regulation of cell growth Ref.1 Inferred from direct assay. Source: UniProtKB
Cellular component	apical plasma membrane Inferred from electronic annotation. Source: UniProtKB-SubCell cell junction Inferred from electronic annotation. Source: UniProtKB-KW integral to membrane Ref.1 Inferred from direct assay. Source: UniProtKB
Molecular function	calcium ion binding Inferred from electronic annotation. Source: InterPro protein binding Ref.1 Inferred from physical interaction. Source: UniProtKB
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
MAST2	Q6P0Q8	3	EBI-493793,EBI-493777

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Signal peptide	1 – 20	20	Potential
	Chain	21 – 1310	1290	Protocadherin-24		PRO_0000004011
Regions
	Topological domain	21 – 1154	1134	Extracellular Potential
	Transmembrane	1155 – 1175	21	Potential
	Topological domain	1176 – 1310	135	Cytoplasmic Potential
	Domain	27 – 124	98	Cadherin 1
	Domain	125 – 241	117	Cadherin 2
	Domain	242 – 353	112	Cadherin 3
	Domain	368 – 480	113	Cadherin 4
	Domain	481 – 586	106	Cadherin 5
	Domain	586 – 695	110	Cadherin 6
	Domain	696 – 808	113	Cadherin 7
	Domain	810 – 928	119	Cadherin 8
	Domain	930 – 1058	129	Cadherin 9
Amino acid modifications
	Glycosylation	29	1	N-linked (GlcNAc...) Potential
	Glycosylation	134	1	N-linked (GlcNAc...) Potential
	Glycosylation	182	1	N-linked (GlcNAc...) Potential
	Glycosylation	188	1	N-linked (GlcNAc...) Potential
	Glycosylation	195	1	N-linked (GlcNAc...) Potential
	Glycosylation	300	1	N-linked (GlcNAc...) Potential
	Glycosylation	355	1	N-linked (GlcNAc...) Potential
	Glycosylation	371	1	N-linked (GlcNAc...) Potential
	Glycosylation	401	1	N-linked (GlcNAc...) Potential
	Glycosylation	460	1	N-linked (GlcNAc...) Potential
	Glycosylation	565	1	N-linked (GlcNAc...) Potential
	Glycosylation	600	1	N-linked (GlcNAc...) Potential
	Glycosylation	616	1	N-linked (GlcNAc...) Potential
	Glycosylation	632	1	N-linked (GlcNAc...) Potential
	Glycosylation	680	1	N-linked (GlcNAc...) Potential
	Glycosylation	696	1	N-linked (GlcNAc...) Potential
	Glycosylation	701	1	N-linked (GlcNAc...) Potential
	Glycosylation	775	1	N-linked (GlcNAc...) Potential
	Glycosylation	821	1	N-linked (GlcNAc...) Potential
	Glycosylation	871	1	N-linked (GlcNAc...) Potential
	Glycosylation	877	1	N-linked (GlcNAc...) Potential
	Glycosylation	911	1	N-linked (GlcNAc...) Potential
	Glycosylation	932	1	N-linked (GlcNAc...) Potential
	Glycosylation	1107	1	N-linked (GlcNAc...) Potential
Natural variations
	Natural variant	107	1	Q → H: dbSNP rs6886860.		VAR_046695
	Natural variant	415	1	A → G: dbSNP rs3762960.		VAR_046696
	Natural variant	424	1	V → A: dbSNP rs11134982.		VAR_046697
	Natural variant	766	1	L → P: dbSNP rs752138.		VAR_046698
	Natural variant	901	1	T → M: dbSNP rs35018750.		VAR_046699
	Natural variant	948	1	V → M: dbSNP rs3749625.		VAR_046700
	Natural variant	1128	1	T → M: dbSNP rs2291442.		VAR_046701
	Natural variant	1164	1	L → M: dbSNP rs17078347.		VAR_021548
Experimental info
	Sequence conflict	64	1	G → S in BAB40777. Ref.1
	Sequence conflict	1229	1	D → G in BAA90962. Ref.2

Sequences

	Sequence		Length	Mass (Da)
	Q9BYE9-1 [UniParc]. Last modified October 14, 2008. Version 2. Checksum: E0BC8AEEF8D9E1F2	FASTA	1,310	141,543
	10 20 30 40 50 60 MAQLWLSCFL LPALVVSVAA NVAPKFLANM TSVILPEDLP VGAQAFWLVA EDQDNDPLTY 70 80 90 100 110 120 GMSGPNAYFF AVTPKTGEVK LASALDYETL YTFKVTISVS DPYIQVQREM LVIVEDRNDN 130 140 150 160 170 180 APVFQNTAFS TSINETLPVG SVVFSVLAVD KDMGSAGMVV YSIEKVIPST GDSEHLFRIL 190 200 210 220 230 240 ANGSIVLNGS LSYNNKSAFY QLELKACDLG GMYHNTFTIQ CSLPVFLSIS VVDQPDLDPQ 250 260 270 280 290 300 FVREFYSASV AEDAAKGTSV LTVEAVDGDK GINDPVIYSI SYSTRPGWFD IGADGVIRVN 310 320 330 340 350 360 GSLDREQLLE ADEEVQLQVT ATETHLNIYG QEAKVSIWVT VRVMDVNDHK PEFYNCSLPA 370 380 390 400 410 420 CTFTPEEAQV NFTGYVDEHA SPRIPIDDLT MVVYDPDKGS NGTFLLSLGG PDAEAFSVSP 430 440 450 460 470 480 ERAVGSASVQ VLVRVSALVD YERQTAMAVQ VVATDSVSQN FSVAMVTIHL RDINDHRPTF 490 500 510 520 530 540 PQSLYVLTVP EHSATGSVVT DSIHATDPDT GAWGQITYSL LPGNGADLFQ VDPVSGTVTV 550 560 570 580 590 600 RNGELLDRES QAVYYLTLQA TDGGNLSSST TLQIHLLDIN DNAPVVSGSY NIFVQEEEGN 610 620 630 640 650 660 VSVTIQAHDN DEPGTNNSRL LFNLLPGPYS HNFSLDPDTG LLRNLGPLDR EAIDPALEGR 670 680 690 700 710 720 IVLTVLVSDC GEPVLGTKVN VTITVEDIND NLPIFNQSSY NFTVKEEDPG VLVGVVKAWD 730 740 750 760 770 780 ADQTEANNRI SFSLSGSGAN YFMIRGLVLG AGWAEGYLRL PPDVSLDYET QPVFNLTVSA 790 800 810 820 830 840 ENPDPQGGET IVDVCVNVKD VNDNPPTLDV ASLRGIRVAE NGSQHGQVAV VVASDVDTSA 850 860 870 880 890 900 QLEIQLVNIL CTKAGVDVGS LCWGWFSVAA NGSVYINQSK AIDYEACDLV TLVVRACDLA 910 920 930 940 950 960 TDPGFQAYSN NGSLLITIED VNDNAPYFLP ENKTFVIIPE LVLPNREVAS VRARDDDSGN 970 980 990 1000 1010 1020 NGVILFSILR VDFISKDGAT IPFQGVFSIF TSSEADVFAG SIQPVTSLDS TLQGTYQVTV 1030 1040 1050 1060 1070 1080 QARDRPSLGP FLEATTTLNL FTVDQSYRSR LQFSTPKEEV GANRQAINAA LTQATRTTVY 1090 1100 1110 1120 1130 1140 IVDIQDIDSA ARARPHSYLD AYFVFPNGSA LTLDELSVMI RNDQDSLTQL LQLGLVVLGS 1150 1160 1170 1180 1190 1200 QESQESDLSK QLISVIIGLG VALLLVLVIM TMAFVCVRKS YNRKLQAMKA AKEARKTAAG 1210 1220 1230 1240 1250 1260 VMPSAPAIPG TNMYNTERAN PMLNLPNKDL GLEYLSPSND LDSVSVNSLD DNSVDVDKNS 1270 1280 1290 1300 1310 QEIKEHRPPH TPPEPDPEPL SVVLLGRQAG ASGQLEGPSY TNAGLDTTDL

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Protocadherin LKC, a new candidate for a tumor suppressor of colon and liver cancers, its association with contact inhibition of cell proliferation." Okazaki N., Takahashi N., Kojima S., Masuho Y., Koga H. Carcinogenesis 23:1139-1148(2002) [PubMed: 12117771] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, TISSUE SPECIFICITY, SUBCELLULAR LOCATION, INTERACTION WITH MAST2, VARIANTS ALA-424 AND MET-1128. Tissue: Kidney.
[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. , 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: 14702039] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 592-1310, VARIANT MET-1164. Tissue: Colon.
[3]	"The DNA sequence and comparative analysis of human chromosome 5." Schmutz J., Martin J., Terry A., Couronne O., Grimwood J., Lowry S., Gordon L.A., Scott D., Xie G., Huang W., Hellsten U., Tran-Gyamfi M., She X., Prabhakar S., Aerts A., Altherr M., Bajorek E., Black S. , Branscomb E., Caoile C., Challacombe J.F., Chan Y.M., Denys M., Detter J.C., Escobar J., Flowers D., Fotopulos D., Glavina T., Gomez M., Gonzales E., Goodstein D., Grigoriev I., Groza M., Hammon N., Hawkins T., Haydu L., Israni S., Jett J., Kadner K., Kimball H., Kobayashi A., Lopez F., Lou Y., Martinez D., Medina C., Morgan J., Nandkeshwar R., Noonan J.P., Pitluck S., Pollard M., Predki P., Priest J., Ramirez L., Retterer J., Rodriguez A., Rogers S., Salamov A., Salazar A., Thayer N., Tice H., Tsai M., Ustaszewska A., Vo N., Wheeler J., Wu K., Yang J., Dickson M., Cheng J.-F., Eichler E.E., Olsen A., Pennacchio L.A., Rokhsar D.S., Richardson P., Lucas S.M., Myers R.M., Rubin E.M. Nature 431:268-274(2004) [PubMed: 15372022] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[4]	"Differentially expressed genes between solitary large hepatocellular carcinoma and nodular hepatocellular carcinoma." Yang L.Y., Wang W., Peng J.X., Yang J.Q., Huang G.W. World J. Gastroenterol. 10:3569-3573(2004) [PubMed: 15534908] [Abstract] Cited for: TISSUE SPECIFICITY.

Cross-references

Sequence databases
EMBLGenBankDDBJ	AB047004 mRNA. Translation: BAB40777.1. AK000131 mRNA. Translation: BAA90962.1. Different initiation. AC091934 Genomic DNA. No translation available.
RefSeq	NP_060145.2.
UniGene	Hs.4205
3D structure databases
HSSP	HSSP built from PDB template 1SUH based on UniProtKB P09803.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q9BYE9.
PTM databases
PhosphoSite	Q9BYE9.
Genome annotation databases
Ensembl	ENSG00000074276. Homo sapiens. [Contig view]
GeneID	54825.
KEGG	hsa:54825.
Organism-specific databases
H-InvDB	HIX0005443.
HGNC	HGNC:18231. PCDH24.
HPA	HPA012569. HPA017053.
GenAtlas	Search...
GeneCards	Search...
Phylogenomic databases
HOVERGEN	Q9BYE9.
Gene expression databases
ArrayExpress	Q9BYE9.
CleanEx	HS_PCDH24.
GermOnline	ENSG00000074276. Homo sapiens.
Family and domain databases
InterPro	IPR002126. Cadherin. [Graphical view]
Gene3D	G3DSA:2.60.40.60. Cadherin. 8 hits.
Pfam	PF00028. Cadherin. 8 hits. [Graphical view]
PRINTS	PR00205. CADHERIN.
SMART	SM00112. CA. 9 hits. [Graphical view]
PROSITE	PS00232. CADHERIN_1. 7 hits. PS50268. CADHERIN_2. 9 hits. [Graphical view]
ProtoNet	Search...