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Protein

PDZ and LIM domain protein 4

Gene

Pdlim4

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

GO - Molecular functioni

Complete GO annotation...

Keywords - Ligandi

Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
PDZ and LIM domain protein 4
Alternative name(s):
LIM protein RIL
Reversion-induced LIM protein
Gene namesi
Name:Pdlim4
Synonyms:Ril
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 11

Organism-specific databases

MGIiMGI:1353470. Pdlim4.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 330330PDZ and LIM domain protein 4PRO_0000075874Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei107 – 1071PhosphoserineCombined sources
Modified residuei111 – 1111PhosphoserineCombined sources
Modified residuei115 – 1151PhosphoserineCombined sources
Modified residuei118 – 1181PhosphoserineCombined sources
Modified residuei119 – 1191PhosphoserineCombined sources
Modified residuei124 – 1241PhosphoserineCombined sources
Modified residuei134 – 1341PhosphoserineBy similarity

Post-translational modificationi

Phosphorylated on tyrosine residue(s). Can be dephosphorylated by PTPN13.1 Publication

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiP70271.
MaxQBiP70271.
PaxDbiP70271.
PRIDEiP70271.

PTM databases

iPTMnetiP70271.
PhosphoSiteiP70271.

Expressioni

Gene expression databases

BgeeiP70271.
CleanExiMM_PDLIM4.
ExpressionAtlasiP70271. baseline and differential.
GenevisibleiP70271. MM.

Interactioni

Subunit structurei

Interacts with the LIM domain with the second and fourth PDZ domains of PTPN13.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
Trip6Q9Z1Y42EBI-7288319,EBI-643879

Protein-protein interaction databases

BioGridi205965. 4 interactions.
IntActiP70271. 3 interactions.
MINTiMINT-4106929.
STRINGi10090.ENSMUSP00000018755.

Structurei

3D structure databases

ProteinModelPortaliP70271.
SMRiP70271. Positions 3-85, 250-313.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1 – 8484PDZPROSITE-ProRule annotationAdd
BLAST
Domaini255 – 30551LIM zinc-bindingPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 LIM zinc-binding domain.PROSITE-ProRule annotation
Contains 1 PDZ (DHR) domain.PROSITE-ProRule annotation

Keywords - Domaini

LIM domain

Phylogenomic databases

eggNOGiKOG1703. Eukaryota.
ENOG410XRD4. LUCA.
GeneTreeiENSGT00590000082980.
HOGENOMiHOG000290704.
HOVERGENiHBG061371.
InParanoidiP70271.
OMAiHIDPEAQ.
OrthoDBiEOG77DJ69.
TreeFamiTF106408.

Family and domain databases

Gene3Di2.10.110.10. 1 hit.
2.30.42.10. 1 hit.
InterProiIPR031847. DUF4749.
IPR001478. PDZ.
IPR001781. Znf_LIM.
[Graphical view]
PfamiPF15936. DUF4749. 1 hit.
PF00412. LIM. 1 hit.
PF00595. PDZ. 1 hit.
[Graphical view]
SMARTiSM00132. LIM. 1 hit.
SM00228. PDZ. 1 hit.
[Graphical view]
SUPFAMiSSF50156. SSF50156. 1 hit.
PROSITEiPS00478. LIM_DOMAIN_1. 1 hit.
PS50023. LIM_DOMAIN_2. 1 hit.
PS50106. PDZ. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P70271-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTHSVTLRGP SPWGFRLVGG RDFSAPLTIS RVHAGSKAAL AALCPGDLIQ
60 70 80 90 100
AINGESTELM THLEAQNRIK GCHDHLTLSV SRPENKNWPS APDDKAQAHR
110 120 130 140 150
IHIDPESQDC SPATSRRSSV SGISLEDNRS GLGSPYGQPP RLPVPHNGSS
160 170 180 190 200
NEATLPAQMS ALHVSPPTSA DTARVLPRNR DCRVDLGSEV YRMLREPAEP
210 220 230 240 250
TASEPKQSGS FRYLQGMLEA GEGGDRPGSG GPRNLKPAAS KLGAPLSGLQ
260 270 280 290 300
GLPECTRCGH GIVGTIVKAR DKLYHPECFM CSDCGLNLKQ RGYFFLDERL
310 320 330
YCENHAKARV KPPEGYDVVA VYPNAKVELV
Length:330
Mass (Da):35,556
Last modified:July 27, 2011 - v3
Checksum:iBB3421541BFC086E
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti25 – 251A → L in CAA69648 (PubMed:9487134).Curated
Sequence conflicti91 – 911A → S in CAA69648 (PubMed:9487134).Curated
Sequence conflicti107 – 1071S → F in CAA69648 (PubMed:9487134).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y08361 mRNA. Translation: CAA69648.1.
AL596444 Genomic DNA. Translation: CAI25321.1.
CH466575 Genomic DNA. Translation: EDL33550.1.
BC030068 mRNA. Translation: AAH30068.1.
CCDSiCCDS24690.1.
RefSeqiNP_062290.2. NM_019417.3.
UniGeneiMm.21830.

Genome annotation databases

EnsembliENSMUST00000018755; ENSMUSP00000018755; ENSMUSG00000020388.
GeneIDi30794.
KEGGimmu:30794.
UCSCiuc007ixf.2. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y08361 mRNA. Translation: CAA69648.1.
AL596444 Genomic DNA. Translation: CAI25321.1.
CH466575 Genomic DNA. Translation: EDL33550.1.
BC030068 mRNA. Translation: AAH30068.1.
CCDSiCCDS24690.1.
RefSeqiNP_062290.2. NM_019417.3.
UniGeneiMm.21830.

3D structure databases

ProteinModelPortaliP70271.
SMRiP70271. Positions 3-85, 250-313.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi205965. 4 interactions.
IntActiP70271. 3 interactions.
MINTiMINT-4106929.
STRINGi10090.ENSMUSP00000018755.

PTM databases

iPTMnetiP70271.
PhosphoSiteiP70271.

Proteomic databases

EPDiP70271.
MaxQBiP70271.
PaxDbiP70271.
PRIDEiP70271.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000018755; ENSMUSP00000018755; ENSMUSG00000020388.
GeneIDi30794.
KEGGimmu:30794.
UCSCiuc007ixf.2. mouse.

Organism-specific databases

CTDi8572.
MGIiMGI:1353470. Pdlim4.

Phylogenomic databases

eggNOGiKOG1703. Eukaryota.
ENOG410XRD4. LUCA.
GeneTreeiENSGT00590000082980.
HOGENOMiHOG000290704.
HOVERGENiHBG061371.
InParanoidiP70271.
OMAiHIDPEAQ.
OrthoDBiEOG77DJ69.
TreeFamiTF106408.

Miscellaneous databases

PROiP70271.
SOURCEiSearch...

Gene expression databases

BgeeiP70271.
CleanExiMM_PDLIM4.
ExpressionAtlasiP70271. baseline and differential.
GenevisibleiP70271. MM.

Family and domain databases

Gene3Di2.10.110.10. 1 hit.
2.30.42.10. 1 hit.
InterProiIPR031847. DUF4749.
IPR001478. PDZ.
IPR001781. Znf_LIM.
[Graphical view]
PfamiPF15936. DUF4749. 1 hit.
PF00412. LIM. 1 hit.
PF00595. PDZ. 1 hit.
[Graphical view]
SMARTiSM00132. LIM. 1 hit.
SM00228. PDZ. 1 hit.
[Graphical view]
SUPFAMiSSF50156. SSF50156. 1 hit.
PROSITEiPS00478. LIM_DOMAIN_1. 1 hit.
PS50023. LIM_DOMAIN_2. 1 hit.
PS50106. PDZ. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "PDZ motifs in PTP-BL and RIL bind to internal protein segments in the LIM domain protein RIL."
    Cuppen E., Gerrits H., Pepers B., Wieringa B., Hendriks W.
    Mol. Biol. Cell 9:671-683(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], PHOSPHORYLATION, INTERACTION WITH PTPN13.
    Strain: BALB/cJ.
    Tissue: Brain.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: C57BL/6J.
  3. Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.
    Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Lung.
  5. "Comprehensive identification of phosphorylation sites in postsynaptic density preparations."
    Trinidad J.C., Specht C.G., Thalhammer A., Schoepfer R., Burlingame A.L.
    Mol. Cell. Proteomics 5:914-922(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-111, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Brain.
  6. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-111, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Liver.
  7. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-107; SER-111; SER-115; SER-118; SER-119 AND SER-124, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Brain, Brown adipose tissue, Heart, Kidney, Liver, Lung, Pancreas, Spleen and Testis.

Entry informationi

Entry nameiPDLI4_MOUSE
AccessioniPrimary (citable) accession number: P70271
Secondary accession number(s): Q5SWV2, Q8K0W4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 15, 2004
Last sequence update: July 27, 2011
Last modified: June 8, 2016
This is version 123 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. 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.