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Protein

Protocadherin alpha-9

Gene

PCDHA9

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

Functioni

Potential calcium-dependent cell-adhesion protein. May be involved in the establishment and maintenance of specific neuronal connections in the brain.

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Cell adhesion

Keywords - Ligandi

Calcium

Names & Taxonomyi

Protein namesi
Recommended name:
Protocadherin alpha-9
Short name:
PCDH-alpha-9
Gene namesi
Name:PCDHA9
Synonyms:KIAA0345
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 5

Organism-specific databases

HGNCiHGNC:8675. PCDHA9.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini30 – 697ExtracellularSequence analysisAdd BLAST668
Transmembranei698 – 718HelicalSequence analysisAdd BLAST21
Topological domaini719 – 950CytoplasmicSequence analysisAdd BLAST232

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000204961.
PharmGKBiPA33021.

Polymorphism and mutation databases

BioMutaiPCDHA9.
DMDMi13878426.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 29Sequence analysisAdd BLAST29
ChainiPRO_000000390030 – 950Protocadherin alpha-9Add BLAST921

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi254N-linked (GlcNAc...)Sequence analysis1
Glycosylationi265N-linked (GlcNAc...)Sequence analysis1
Glycosylationi548N-linked (GlcNAc...)Sequence analysis1

Keywords - PTMi

Glycoprotein

Proteomic databases

EPDiQ9Y5H5.
PaxDbiQ9Y5H5.
PeptideAtlasiQ9Y5H5.
PRIDEiQ9Y5H5.

PTM databases

iPTMnetiQ9Y5H5.
PhosphoSitePlusiQ9Y5H5.

Expressioni

Gene expression databases

BgeeiENSG00000204961.
GenevisibleiQ9Y5H5. HS.

Interactioni

Protein-protein interaction databases

BioGridi115100. 6 interactors.
IntActiQ9Y5H5. 1 interactor.
STRINGi9606.ENSP00000436042.

Structurei

3D structure databases

ProteinModelPortaliQ9Y5H5.
SMRiQ9Y5H5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini30 – 133Cadherin 1PROSITE-ProRule annotationAdd BLAST104
Domaini134 – 242Cadherin 2PROSITE-ProRule annotationAdd BLAST109
Domaini243 – 350Cadherin 3PROSITE-ProRule annotationAdd BLAST108
Domaini351 – 455Cadherin 4PROSITE-ProRule annotationAdd BLAST105
Domaini456 – 565Cadherin 5PROSITE-ProRule annotationAdd BLAST110
Domaini588 – 678Cadherin 6PROSITE-ProRule annotationAdd BLAST91
Repeati734 – 737PXXP 14
Repeati799 – 802PXXP 24
Repeati832 – 835PXXP 34
Repeati873 – 876PXXP 44
Repeati891 – 894PXXP 54

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni734 – 8945 X 4 AA repeats of P-X-X-PAdd BLAST161

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi923 – 930Poly-Lys8

Sequence similaritiesi

Contains 6 cadherin domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG3594. Eukaryota.
ENOG410XQHI. LUCA.
GeneTreeiENSGT00850000132246.
HOGENOMiHOG000220892.
HOVERGENiHBG054878.
InParanoidiQ9Y5H5.
KOiK16493.
OMAiSARDAXL.
OrthoDBiEOG091G00KR.
PhylomeDBiQ9Y5H5.
TreeFamiTF332299.

Family and domain databases

Gene3Di2.60.40.60. 6 hits.
InterProiIPR002126. Cadherin.
IPR015919. Cadherin-like.
IPR032455. Cadherin_C.
IPR031904. Cadherin_CBD.
IPR020894. Cadherin_CS.
IPR013164. Cadherin_N.
[Graphical view]
PfamiPF00028. Cadherin. 5 hits.
PF08266. Cadherin_2. 1 hit.
PF16492. Cadherin_C_2. 1 hit.
PF15974. Cadherin_tail. 1 hit.
[Graphical view]
PRINTSiPR00205. CADHERIN.
SMARTiSM00112. CA. 6 hits.
[Graphical view]
SUPFAMiSSF49313. SSF49313. 6 hits.
PROSITEiPS00232. CADHERIN_1. 5 hits.
PS50268. CADHERIN_2. 6 hits.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

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

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9Y5H5-1) [UniParc]FASTAAdd to basket

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.

« Hide

        10         20         30         40         50
MLYSSRGDPE GQPLLLSLLI LAMWVVGSGQ LHYSVPEEAE HGTFVGRIAQ
60 70 80 90 100
DLGLELAELV PRLFQLDSKG RGDLLEVNLQ NGILFVNSRI DREELCGRSA
110 120 130 140 150
ECSIHLEVIV DRPLQVFHVD VEVKDINDNP PVFPATQKNL FIAESRPLDS
160 170 180 190 200
RFPLEGASDA DIGENALLTY RLSPNEYFFL DVPTSNQQVK PLGLVLRKLL
210 220 230 240 250
DREETPELHL LLTATDGGKP ELTGTVQLLI TVLDNNDNAP VFDRTLYTVK
260 270 280 290 300
LPENVSIGTL VIHPNASDLD EGLNGDIIYS FSSDVSPDIK SKFHMDPLSG
310 320 330 340 350
AITVIGHMDF EESRAHKIPV EAVDKGFPPL AGHCTLLVEV VDVNDNAPQL
360 370 380 390 400
TIKTLSVPVK EDAQLGTVIA LISVIDLDAD ANGQVTCSLT PHVPFKLVST
410 420 430 440 450
YKNYYSLVLD RALDRESVSA YELVVTARDG GSPSLWATAR VSVEVADVND
460 470 480 490 500
NAPAFAQSEY TVFVKENNPP GCHIFTVSAR DADAQENALV SYSLVERRLG
510 520 530 540 550
ERSLSSYVSV HAESGKVYAL QPLDHEELEL LQFQVSARDA GVPPLGSNVT
560 570 580 590 600
LQVFVLDEND NAPALLTPRM RGTDGAVSEM VLRSVGAGVV VGKVRAVDAD
610 620 630 640 650
SGYNAWLSYE LQPETASASI PFRVGLYTGE ISTTRALDET DAPRQRLLVL
660 670 680 690 700
VKDHGEPALT ATATVLVSLV ESGQAPKSSS RASVGATGPE VTLVDVNVYL
710 720 730 740 750
IIAICAVSSL LVLTLLLYTV LRCSAMPTEG ECAPGKPTLV CSSAVGSWSY
760 770 780 790 800
SQQRRQRVCS GEGKQKTDLM AFSPGLSPCA GSTERTGEPS ASSDSTGKPR
810 820 830 840 850
QPNPDWRYSA SLRAGMHSSV HLEEAGILRA GPGGPDQQWP TVSSATPEPE
860 870 880 890 900
AGEVSPPVGA GVNSNSWTFK YGPGNPKQSG PGELPDKFII PGSPAIISIR
910 920 930 940 950
QEPTNSQIDK SDFITFGKKE ETKKKKKKKK GNKTQEKKEK GNSTTDNSDQ
Length:950
Mass (Da):102,402
Last modified:November 1, 1999 - v1
Checksum:iAA1783B20D963957
GO
Isoform 2 (identifier: Q9Y5H5-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     799-842: PRQPNPDWRY...GGPDQQWPTV → VGFSSILFIY...EIQQIFFLIK
     843-950: Missing.

Show »
Length:842
Mass (Da):91,297
Checksum:i45E7663DB332DA41
GO

Sequence cautioni

The sequence BAA20803 differs from that shown. Reason: Erroneous initiation.Curated

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_04853028S → R.Corresponds to variant rs251353dbSNPEnsembl.1
Natural variantiVAR_06106264F → L.Corresponds to variant rs56926451dbSNPEnsembl.1
Natural variantiVAR_048531138K → R.Corresponds to variant rs364101dbSNPEnsembl.1
Natural variantiVAR_048532336L → V.Corresponds to variant rs251354dbSNPEnsembl.1
Natural variantiVAR_048533430G → R.Corresponds to variant rs251355dbSNPEnsembl.1
Natural variantiVAR_061063501E → Q.Corresponds to variant rs59056023dbSNPEnsembl.1
Natural variantiVAR_059182764K → Q.Corresponds to variant rs369636dbSNPEnsembl.1
Natural variantiVAR_048534764K → T.Corresponds to variant rs369639dbSNPEnsembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_000688799 – 842PRQPN…QWPTV → VGFSSILFIYIIFFLERYYR LLPGAVQIVLFIFLEIQQIF FLIK in isoform 2. 1 PublicationAdd BLAST44
Alternative sequenceiVSP_000689843 – 950Missing in isoform 2. 1 PublicationAdd BLAST108

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152317 mRNA. Translation: AAD43711.1.
AF152487 mRNA. Translation: AAD43748.1.
AJ007610 mRNA. Translation: CAC22257.1.
AB002343 mRNA. Translation: BAA20803.2. Different initiation.
AC005609 Genomic DNA. Translation: AAC34313.1.
BC104802 mRNA. Translation: AAI04803.1.
BC104804 mRNA. Translation: AAI04805.1.
CCDSiCCDS54920.1. [Q9Y5H5-1]
RefSeqiNP_054724.1. NM_014005.4. [Q9Y5H5-2]
NP_114063.1. NM_031857.1. [Q9Y5H5-1]
UniGeneiHs.199343.

Genome annotation databases

EnsembliENST00000378122; ENSP00000367362; ENSG00000204961. [Q9Y5H5-2]
ENST00000532602; ENSP00000436042; ENSG00000204961. [Q9Y5H5-1]
GeneIDi9752.
KEGGihsa:9752.
UCSCiuc003lht.2. human. [Q9Y5H5-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF152317 mRNA. Translation: AAD43711.1.
AF152487 mRNA. Translation: AAD43748.1.
AJ007610 mRNA. Translation: CAC22257.1.
AB002343 mRNA. Translation: BAA20803.2. Different initiation.
AC005609 Genomic DNA. Translation: AAC34313.1.
BC104802 mRNA. Translation: AAI04803.1.
BC104804 mRNA. Translation: AAI04805.1.
CCDSiCCDS54920.1. [Q9Y5H5-1]
RefSeqiNP_054724.1. NM_014005.4. [Q9Y5H5-2]
NP_114063.1. NM_031857.1. [Q9Y5H5-1]
UniGeneiHs.199343.

3D structure databases

ProteinModelPortaliQ9Y5H5.
SMRiQ9Y5H5.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi115100. 6 interactors.
IntActiQ9Y5H5. 1 interactor.
STRINGi9606.ENSP00000436042.

PTM databases

iPTMnetiQ9Y5H5.
PhosphoSitePlusiQ9Y5H5.

Polymorphism and mutation databases

BioMutaiPCDHA9.
DMDMi13878426.

Proteomic databases

EPDiQ9Y5H5.
PaxDbiQ9Y5H5.
PeptideAtlasiQ9Y5H5.
PRIDEiQ9Y5H5.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000378122; ENSP00000367362; ENSG00000204961. [Q9Y5H5-2]
ENST00000532602; ENSP00000436042; ENSG00000204961. [Q9Y5H5-1]
GeneIDi9752.
KEGGihsa:9752.
UCSCiuc003lht.2. human. [Q9Y5H5-1]

Organism-specific databases

CTDi9752.
GeneCardsiPCDHA9.
HGNCiHGNC:8675. PCDHA9.
MIMi604966. gene.
606315. gene.
neXtProtiNX_Q9Y5H5.
OpenTargetsiENSG00000204961.
PharmGKBiPA33021.
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3594. Eukaryota.
ENOG410XQHI. LUCA.
GeneTreeiENSGT00850000132246.
HOGENOMiHOG000220892.
HOVERGENiHBG054878.
InParanoidiQ9Y5H5.
KOiK16493.
OMAiSARDAXL.
OrthoDBiEOG091G00KR.
PhylomeDBiQ9Y5H5.
TreeFamiTF332299.

Miscellaneous databases

GeneWikiiPCDHA9.
GenomeRNAii9752.
PROiQ9Y5H5.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000204961.
GenevisibleiQ9Y5H5. HS.

Family and domain databases

Gene3Di2.60.40.60. 6 hits.
InterProiIPR002126. Cadherin.
IPR015919. Cadherin-like.
IPR032455. Cadherin_C.
IPR031904. Cadherin_CBD.
IPR020894. Cadherin_CS.
IPR013164. Cadherin_N.
[Graphical view]
PfamiPF00028. Cadherin. 5 hits.
PF08266. Cadherin_2. 1 hit.
PF16492. Cadherin_C_2. 1 hit.
PF15974. Cadherin_tail. 1 hit.
[Graphical view]
PRINTSiPR00205. CADHERIN.
SMARTiSM00112. CA. 6 hits.
[Graphical view]
SUPFAMiSSF49313. SSF49313. 6 hits.
PROSITEiPS00232. CADHERIN_1. 5 hits.
PS50268. CADHERIN_2. 6 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPCDA9_HUMAN
AccessioniPrimary (citable) accession number: Q9Y5H5
Secondary accession number(s): O15053, Q2M3S5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 27, 2001
Last sequence update: November 1, 1999
Last modified: November 2, 2016
This is version 154 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, Reference proteome

Documents

  1. Human chromosome 5
    Human chromosome 5: 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.