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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)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini30 – 697668ExtracellularSequence analysisAdd
BLAST
Transmembranei698 – 71821HelicalSequence analysisAdd
BLAST
Topological domaini719 – 950232CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA33021.

Polymorphism and mutation databases

BioMutaiPCDHA9.
DMDMi13878426.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2929Sequence analysisAdd
BLAST
Chaini30 – 950921Protocadherin alpha-9PRO_0000003900Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi254 – 2541N-linked (GlcNAc...)Sequence analysis
Glycosylationi265 – 2651N-linked (GlcNAc...)Sequence analysis
Glycosylationi548 – 5481N-linked (GlcNAc...)Sequence analysis

Keywords - PTMi

Glycoprotein

Proteomic databases

EPDiQ9Y5H5.
PaxDbiQ9Y5H5.
PeptideAtlasiQ9Y5H5.
PRIDEiQ9Y5H5.

PTM databases

iPTMnetiQ9Y5H5.
PhosphoSiteiQ9Y5H5.

Expressioni

Gene expression databases

BgeeiENSG00000204961.
GenevisibleiQ9Y5H5. HS.

Interactioni

Protein-protein interaction databases

BioGridi115100. 6 interactions.
IntActiQ9Y5H5. 1 interaction.
STRINGi9606.ENSP00000436042.

Structurei

3D structure databases

ProteinModelPortaliQ9Y5H5.
SMRiQ9Y5H5. Positions 27-667.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini30 – 133104Cadherin 1PROSITE-ProRule annotationAdd
BLAST
Domaini134 – 242109Cadherin 2PROSITE-ProRule annotationAdd
BLAST
Domaini243 – 350108Cadherin 3PROSITE-ProRule annotationAdd
BLAST
Domaini351 – 455105Cadherin 4PROSITE-ProRule annotationAdd
BLAST
Domaini456 – 565110Cadherin 5PROSITE-ProRule annotationAdd
BLAST
Domaini588 – 67891Cadherin 6PROSITE-ProRule annotationAdd
BLAST
Repeati734 – 7374PXXP 1
Repeati799 – 8024PXXP 2
Repeati832 – 8354PXXP 3
Repeati873 – 8764PXXP 4
Repeati891 – 8944PXXP 5

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni734 – 8941615 X 4 AA repeats of P-X-X-PAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi923 – 9308Poly-Lys

Sequence similaritiesi

Contains 6 cadherin domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG3594. Eukaryota.
ENOG410XQHI. LUCA.
GeneTreeiENSGT00840000129695.
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)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti28 – 281S → R.
Corresponds to variant rs251353 [ dbSNP | Ensembl ].
VAR_048530
Natural varianti64 – 641F → L.
Corresponds to variant rs56926451 [ dbSNP | Ensembl ].
VAR_061062
Natural varianti138 – 1381K → R.
Corresponds to variant rs364101 [ dbSNP | Ensembl ].
VAR_048531
Natural varianti336 – 3361L → V.
Corresponds to variant rs251354 [ dbSNP | Ensembl ].
VAR_048532
Natural varianti430 – 4301G → R.
Corresponds to variant rs251355 [ dbSNP | Ensembl ].
VAR_048533
Natural varianti501 – 5011E → Q.
Corresponds to variant rs59056023 [ dbSNP | Ensembl ].
VAR_061063
Natural varianti764 – 7641K → Q.
Corresponds to variant rs369636 [ dbSNP | Ensembl ].
VAR_059182
Natural varianti764 – 7641K → T.
Corresponds to variant rs369639 [ dbSNP | Ensembl ].
VAR_048534

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei799 – 84244PRQPN…QWPTV → VGFSSILFIYIIFFLERYYR LLPGAVQIVLFIFLEIQQIF FLIK in isoform 2. 1 PublicationVSP_000688Add
BLAST
Alternative sequencei843 – 950108Missing in isoform 2. 1 PublicationVSP_000689Add
BLAST

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. Positions 27-667.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi115100. 6 interactions.
IntActiQ9Y5H5. 1 interaction.
STRINGi9606.ENSP00000436042.

PTM databases

iPTMnetiQ9Y5H5.
PhosphoSiteiQ9Y5H5.

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.
PharmGKBiPA33021.
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3594. Eukaryota.
ENOG410XQHI. LUCA.
GeneTreeiENSGT00840000129695.
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: September 7, 2016
This is version 152 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.