Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

PDZ and LIM domain protein 5

Gene

Pdlim5

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

May play an important role in the heart development by scaffolding PKC to the Z-disk region. May play a role in the regulation of cardiomyocyte expansion. Isoforms lacking the LIM domains may negatively modulate the scaffolding activity of isoform 1. Overexpression promotes the development of heart hypertrophy. Contributes to the regulation of dendritic spine morphogenesis in neurons (PubMed:20097676). May be required to restrain postsynaptic growth of excitatory synapses. Isoform 1, but not isoform 2, expression favors spine thinning and elongation (PubMed:19900557).2 Publications

GO - Molecular functioni

  • actin binding Source: UniProtKB
  • actinin binding Source: UniProtKB
  • cadherin binding involved in cell-cell adhesion Source: Ensembl
  • metal ion binding Source: UniProtKB-KW
  • protein kinase C binding Source: UniProtKB
  • protein N-terminus binding Source: RGD
  • receptor signaling complex scaffold activity Source: UniProtKB

GO - Biological processi

  • cell growth involved in cardiac muscle cell development Source: BHF-UCL
  • heart development Source: UniProtKB
  • regulation of dendritic spine morphogenesis Source: UniProtKB
  • regulation of synapse assembly Source: UniProtKB

Keywordsi

LigandMetal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-RNO-6794361. Interactions of neurexins and neuroligins at synapses.

Names & Taxonomyi

Protein namesi
Recommended name:
PDZ and LIM domain protein 5
Alternative name(s):
Enigma homolog
Enigma-like PDZ and LIM domains protein
Gene namesi
Name:Pdlim5
Synonyms:Enh
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 2

Organism-specific databases

RGDi621076. Pdlim5.

Subcellular locationi

GO - Cellular componenti

  • actin cytoskeleton Source: Ensembl
  • cell-cell adherens junction Source: Ensembl
  • cytosol Source: UniProtKB
  • membrane Source: UniProtKB
  • neuron projection Source: UniProtKB-SubCell
  • postsynaptic density Source: UniProtKB
  • postsynaptic membrane Source: UniProtKB-KW

Keywords - Cellular componenti

Cell junction, Cell membrane, Cytoplasm, Membrane, Postsynaptic cell membrane, Synapse, Synaptosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedBy similarity
ChainiPRO_00000758792 – 591PDZ and LIM domain protein 5Add BLAST590

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylserineBy similarity1
Modified residuei2PhosphoserineCombined sources1
Modified residuei89N6-acetyllysine; alternateBy similarity1
Modified residuei89N6-succinyllysine; alternateBy similarity1
Modified residuei111PhosphoserineBy similarity1
Modified residuei134PhosphoserineBy similarity1
Modified residuei137PhosphoserineBy similarity1
Modified residuei228PhosphoserineCombined sources1
Modified residuei260PhosphoserineBy similarity1
Modified residuei313PhosphoserineBy similarity1
Modified residuei318PhosphoserineCombined sources1
Modified residuei346N6-acetyllysineBy similarity1
Modified residuei355PhosphoserineCombined sources1
Modified residuei357PhosphoserineBy similarity1

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

PaxDbiQ62920.
PRIDEiQ62920.

PTM databases

iPTMnetiQ62920.
PhosphoSitePlusiQ62920.

Expressioni

Tissue specificityi

Detected in brain, in neurons, including in hippocampal neurons, and glial cells (at protein level). Detected in heart and skeletal muscle.3 Publications

Developmental stagei

In cultured hippocampal neurons, expression levels of both isoform 1 and isoform 2 increases with in vitro development, with prominent expression coinciding with the completion of synaptogenesis and persisting through mature stages.1 Publication

Gene expression databases

BgeeiENSRNOG00000016419.
GenevisibleiQ62920. RN.

Interactioni

Subunit structurei

Interacts with various PKC isoforms through the LIM domains (PubMed:8940095). Interacts with actin and alpha-actinin through the PDZ domain (PubMed:10833443). Interacts (via LIM domains) with SIPA1L1/SPAR; this interaction may occur preferentially with isoform 1 (PubMed:19900557).3 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
PrkcbP68403-15EBI-918433,EBI-12559950

GO - Molecular functioni

  • actin binding Source: UniProtKB
  • actinin binding Source: UniProtKB
  • cadherin binding involved in cell-cell adhesion Source: Ensembl
  • protein kinase C binding Source: UniProtKB
  • protein N-terminus binding Source: RGD
  • receptor signaling complex scaffold activity Source: UniProtKB

Protein-protein interaction databases

IntActiQ62920. 3 interactors.
STRINGi10116.ENSRNOP00000022387.

Structurei

3D structure databases

ProteinModelPortaliQ62920.
SMRiQ62920.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini2 – 85PDZPROSITE-ProRule annotationAdd BLAST84
Domaini413 – 472LIM zinc-binding 1PROSITE-ProRule annotationAdd BLAST60
Domaini472 – 531LIM zinc-binding 2PROSITE-ProRule annotationAdd BLAST60
Domaini531 – 591LIM zinc-binding 3PROSITE-ProRule annotationAdd BLAST61

Keywords - Domaini

LIM domain, Repeat

Phylogenomic databases

eggNOGiKOG1703. Eukaryota.
ENOG410XRD4. LUCA.
GeneTreeiENSGT00760000118910.
HOGENOMiHOG000220936.
HOVERGENiHBG051478.
InParanoidiQ62920.
OMAiSTNNMAY.
OrthoDBiEOG091G0A45.
PhylomeDBiQ62920.

Family and domain databases

InterProiView protein in InterPro
IPR031847. DUF4749.
IPR001478. PDZ.
IPR001781. Znf_LIM.
PfamiView protein in Pfam
PF15936. DUF4749. 1 hit.
PF00412. LIM. 3 hits.
PF00595. PDZ. 1 hit.
SMARTiView protein in SMART
SM00132. LIM. 3 hits.
SM00228. PDZ. 1 hit.
SUPFAMiSSF50156. SSF50156. 1 hit.
PROSITEiView protein in PROSITE
PS00478. LIM_DOMAIN_1. 2 hits.
PS50023. LIM_DOMAIN_2. 3 hits.
PS50106. PDZ. 1 hit.

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: Q62920-1) [UniParc]FASTAAdd to basket
Also known as: PDLIM5a1 Publication

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
MSNYNVSLVG PAPWGFRLQG GKDFNMPLTI SSLKDGGKAS QAHVRIGDVV
60 70 80 90 100
LSIDGISAQG MTHLEAQNKI KACTGSLNMT LQRASAAAKS EPVAVQKGEP
110 120 130 140 150
KEVVKPVPIT SPAVSKVTST TNMAYNKVPR PFGSVSSPKV TSIPSPSSAF
160 170 180 190 200
TPAHAATSSH ASPPPVAAVT PPPLSASGLH ASANPSAAQC SSPPNTGKPA
210 220 230 240 250
VHVPRQPTVT SVCSESAQEL AEGQRRGSQG DIKQQNGPPR KHIVERNTEF
260 270 280 290 300
YHIPTHSDAS KKRLIEDTED WRPRTGTTQS RSFRILAQIT GTEHLKESEN
310 320 330 340 350
DNAKKANSTP EPSQQSASPL SAAESLESPG SNRPVVAGLR SAAAFKPVGS
360 370 380 390 400
TSVKSPSWQR PNQAAPSTGR ISNSASSSGT GAPMKPAVGP PQPSDQDTLV
410 420 430 440 450
QRAEHIPAGK RTPMCAHCNQ AIRGPFLVAL GKSWHPEEFN CAHCKNTMAY
460 470 480 490 500
IGFVEEKGAL YCELCYEKFF APECGRCQRK ILGEVINALK QTWHVSCFVC
510 520 530 540 550
VACGKPIRNN VFHLEDGEPY CETDYYALFG TICRGCEFPI EAGDMFLEAL
560 570 580 590
GSTWHDTCFV CSVCCESLEG QTFFSKKDKP LCKKHAHSVN F
Length:591
Mass (Da):63,201
Last modified:January 1, 1999 - v2
Checksum:i7B26FB9BE1680299
GO
Isoform 2 (identifier: Q62920-2) [UniParc]FASTAAdd to basket
Also known as: PDLIM5b1 Publication

The sequence of this isoform differs from the canonical sequence as follows:
     98-206: Missing.

Note: No experimental confirmation available. Gene prediction based on EST data.
Show »
Length:482
Mass (Da):52,368
Checksum:i194ECAA60CA7D78F
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_05874698 – 206Missing in isoform 2. 1 PublicationAdd BLAST109

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U48247 mRNA. Translation: AAC72251.1.
RefSeqiNP_445778.1. NM_053326.1. [Q62920-1]
XP_006233481.1. XM_006233419.3. [Q62920-2]
UniGeneiRn.17933.

Genome annotation databases

EnsembliENSRNOT00000022387; ENSRNOP00000022387; ENSRNOG00000016419. [Q62920-1]
GeneIDi64353.
KEGGirno:64353.

Keywords - Coding sequence diversityi

Alternative splicing

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.

Entry informationi

Entry nameiPDLI5_RAT
AccessioniPrimary (citable) accession number: Q62920
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 24, 2004
Last sequence update: January 1, 1999
Last modified: July 5, 2017
This is version 136 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome