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Protein

PDZ and LIM domain protein 1

Gene

Pdlim1

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

Functioni

Cytoskeletal protein that may act as an adapter that brings other proteins (like kinases) to the cytoskeleton (By similarity). Involved in assembly, disassembly and directioning of stress fibers in fibroblasts. Required for the localization of ACTN1 and PALLD to stress fibers. Required for cell migration and in maintaining cell polarity of fibroblasts (PubMed:22659164).By similarity1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi258Zinc 1By similarity1
Metal bindingi261Zinc 1By similarity1
Metal bindingi278Zinc 1By similarity1
Metal bindingi281Zinc 1By similarity1
Metal bindingi284Zinc 2By similarity1
Metal bindingi287Zinc 2By similarity1
Metal bindingi305Zinc 2By similarity1
Metal bindingi308Zinc 2By similarity1

GO - Molecular functioni

GO - Biological processi

  • regulation of transcription, DNA-templated Source: Ensembl
  • response to hypoxia Source: RGD

Keywordsi

LigandMetal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
PDZ and LIM domain protein 1
Alternative name(s):
C-terminal LIM domain protein 1
Elfin
LIM domain protein CLP-36
Gene namesi
Name:Pdlim1
Synonyms:Clim1, Clp36
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 1

Organism-specific databases

RGDi68324 Pdlim1

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Cytoskeleton

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedBy similarity
ChainiPRO_00000758612 – 327PDZ and LIM domain protein 1Add BLAST326

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylthreonineBy similarity1
Modified residuei90PhosphoserineCombined sources1
Modified residuei130PhosphoserineBy similarity1
Modified residuei142PhosphotyrosineBy similarity1
Modified residuei314PhosphothreonineBy similarity1
Modified residuei319PhosphotyrosineBy similarity1

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

PaxDbiP52944
PRIDEiP52944

PTM databases

iPTMnetiP52944
PhosphoSitePlusiP52944

Expressioni

Tissue specificityi

Expressed most abundantly in heart, lung and liver, moderately in spleen and skeletal muscle, and at extremely low levels (if at all) in testis and brain tissues.

Gene expression databases

BgeeiENSRNOG00000016166 Expressed in 10 organ(s), highest expression level in colon
GenevisibleiP52944 RN

Interactioni

Subunit structurei

Interacts with ACTN1 (PubMed:22659164). Interacts with ACTN2 and ACTN4 (By similarity). Interacts with PDLIM4 (PubMed:22659164).By similarity1 Publication

Protein-protein interaction databases

CORUMiP52944
IntActiP52944, 1 interactor
STRINGi10116.ENSRNOP00000022000

Structurei

3D structure databases

ProteinModelPortaliP52944
SMRiP52944
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini3 – 85PDZPROSITE-ProRule annotationAdd BLAST83
Domaini256 – 315LIM zinc-bindingPROSITE-ProRule annotationAdd BLAST60

Keywords - Domaini

LIM domain

Phylogenomic databases

eggNOGiKOG1703 Eukaryota
ENOG410XRD4 LUCA
GeneTreeiENSGT00590000082980
HOGENOMiHOG000290704
HOVERGENiHBG061371
InParanoidiP52944
OMAiATANLCI
OrthoDBiEOG091G0A6C
PhylomeDBiP52944
TreeFamiTF106408

Family and domain databases

InterProiView protein in InterPro
IPR031847 DUF4749
IPR028537 PDLIM1
IPR001478 PDZ
IPR036034 PDZ_sf
IPR006643 Zasp-like_motif
IPR001781 Znf_LIM
PANTHERiPTHR24214:SF5 PTHR24214:SF5, 1 hit
PfamiView protein in Pfam
PF15936 DUF4749, 1 hit
PF00412 LIM, 1 hit
PF00595 PDZ, 1 hit
SMARTiView protein in SMART
SM00132 LIM, 1 hit
SM00228 PDZ, 1 hit
SM00735 ZM, 1 hit
SUPFAMiSSF50156 SSF50156, 1 hit
PROSITEiView protein in PROSITE
PS00478 LIM_DOMAIN_1, 1 hit
PS50023 LIM_DOMAIN_2, 1 hit
PS50106 PDZ, 1 hit

Sequencei

Sequence statusi: Complete.

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

P52944-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MTTQQIVLQG PGPWGFRLVG GKDFEQPLAI SRVTPGSKAA IANLCIGDLI
60 70 80 90 100
TAIDGEDTSS MTHLEAQNKI KGCVDNMTLT VSRSEQKIWS PLVTEEGKRH
110 120 130 140 150
PYKMNLASEP QEVLHIGSAH NRSAMPFTAS PAPGTRVITN QYNSPTGLYS
160 170 180 190 200
SENISNFNNA VESKTSASGE EANSRPSAQP HPSGGLIIDK ESEVYKMLQE
210 220 230 240 250
KQELNEPPKQ STSFLVLQEI LESDGKGDPN KPSGFRSVKA PVTKVAASVG
260 270 280 290 300
NAQKLPICDK CGTGIVGVFV KLRDHHRHPE CYVCTDCGIN LKQKGHFFVG
310 320
DQIYCEKHAR ERVTPPEGYD VVTVFPK
Length:327
Mass (Da):35,584
Last modified:January 23, 2007 - v4
Checksum:i4C3B5CDA296544D1
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti277R → P in AAA92046 (PubMed:8522188).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U23769 mRNA Translation: AAA92046.1
BC072465 mRNA Translation: AAH72465.1
PIRiJC4385
RefSeqiNP_059061.1, NM_017365.2
UniGeneiRn.11170

Genome annotation databases

EnsembliENSRNOT00000022000; ENSRNOP00000022000; ENSRNOG00000016166
GeneIDi54133
KEGGirno:54133
UCSCiRGD:68324 rat

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U23769 mRNA Translation: AAA92046.1
BC072465 mRNA Translation: AAH72465.1
PIRiJC4385
RefSeqiNP_059061.1, NM_017365.2
UniGeneiRn.11170

3D structure databases

ProteinModelPortaliP52944
SMRiP52944
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

CORUMiP52944
IntActiP52944, 1 interactor
STRINGi10116.ENSRNOP00000022000

PTM databases

iPTMnetiP52944
PhosphoSitePlusiP52944

Proteomic databases

PaxDbiP52944
PRIDEiP52944

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000022000; ENSRNOP00000022000; ENSRNOG00000016166
GeneIDi54133
KEGGirno:54133
UCSCiRGD:68324 rat

Organism-specific databases

CTDi9124
RGDi68324 Pdlim1

Phylogenomic databases

eggNOGiKOG1703 Eukaryota
ENOG410XRD4 LUCA
GeneTreeiENSGT00590000082980
HOGENOMiHOG000290704
HOVERGENiHBG061371
InParanoidiP52944
OMAiATANLCI
OrthoDBiEOG091G0A6C
PhylomeDBiP52944
TreeFamiTF106408

Miscellaneous databases

PROiPR:P52944

Gene expression databases

BgeeiENSRNOG00000016166 Expressed in 10 organ(s), highest expression level in colon
GenevisibleiP52944 RN

Family and domain databases

InterProiView protein in InterPro
IPR031847 DUF4749
IPR028537 PDLIM1
IPR001478 PDZ
IPR036034 PDZ_sf
IPR006643 Zasp-like_motif
IPR001781 Znf_LIM
PANTHERiPTHR24214:SF5 PTHR24214:SF5, 1 hit
PfamiView protein in Pfam
PF15936 DUF4749, 1 hit
PF00412 LIM, 1 hit
PF00595 PDZ, 1 hit
SMARTiView protein in SMART
SM00132 LIM, 1 hit
SM00228 PDZ, 1 hit
SM00735 ZM, 1 hit
SUPFAMiSSF50156 SSF50156, 1 hit
PROSITEiView protein in PROSITE
PS00478 LIM_DOMAIN_1, 1 hit
PS50023 LIM_DOMAIN_2, 1 hit
PS50106 PDZ, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiPDLI1_RAT
AccessioniPrimary (citable) accession number: P52944
Secondary accession number(s): Q6IN45
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: January 23, 2007
Last modified: September 12, 2018
This is version 137 of the entry and version 4 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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