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Protein

Zyxin

Gene

zyx-1

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Functions as both a mechanical stabilizer (via LIM domains) of focal adhesions and as a sensor component for muscle cell damage (via N-terminus) (PubMed:23427270). Regulates, stabilizes and maintains posterior lateral mechanosensory (PLM) synaptic branch extension and new synapse formation and growth during larval development (PubMed:25252943).2 Publications

GO - Molecular functioni

  • DEAD/H-box RNA helicase binding Source: WormBase
  • zinc ion binding Source: InterPro

GO - Biological processi

  • cell adhesion Source: UniProtKB-KW
  • maintenance of synapse structure Source: WormBase
  • nervous system development Source: UniProtKB-KW
  • reproduction Source: WormBase

Keywordsi

Biological processCell adhesion, Neurogenesis
LigandMetal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-CEL-446353. Cell-extracellular matrix interactions.

Names & Taxonomyi

Protein namesi
Recommended name:
ZyxinImported
Gene namesi
Name:zyx-1Imported
ORF Names:F42G4.3Imported
OrganismiCaenorhabditis elegansImported
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
Proteomesi
  • UP000001940 Componenti: Chromosome II

Organism-specific databases

WormBaseiF42G4.3a; CE23716; WBGene00006999; zyx-1.
F42G4.3b; CE46653; WBGene00006999; zyx-1.
F42G4.3c; CE46595; WBGene00006999; zyx-1.
F42G4.3d; CE10324; WBGene00006999; zyx-1.
F42G4.3e; CE46698; WBGene00006999; zyx-1.

Subcellular locationi

GO - Cellular componenti

  • actin cytoskeleton Source: WormBase
  • axon Source: UniProtKB-SubCell
  • focal adhesion Source: WormBase
  • M band Source: WormBase
  • nucleus Source: WormBase
  • striated muscle dense body Source: WormBase

Keywords - Cellular componenti

Cell junction, Cell projection, Cytoplasm, Cytoskeleton, Nucleus

Pathology & Biotechi

Disruption phenotypei

RNAi-mediated knock-down of isoform a in a dys-1/hlh-1 double mutant background reduces muscle degeneration.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004326261 – 603ZyxinAdd BLAST603

Proteomic databases

EPDiQ9U3F4.
PaxDbiQ9U3F4.
PeptideAtlasiQ9U3F4.

Expressioni

Tissue specificityi

Expressed in neurons and body wall muscle (PubMed:18094057, PubMed:23427270, PubMed:25252943). Expressed in pharyngeal, enteric and uterine muscles and in spermatheca (PubMed:25252943).3 Publications

Developmental stagei

Expressed in neurons and muscle throughout development.1 Publication

Gene expression databases

BgeeiWBGene00006999.

Interactioni

Subunit structurei

Interacts with dyc-1 (PubMed:18094057, PubMed:23427270). Interacts with glh-1 and glh-3 (PubMed:12435362).3 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
glh-3O018362EBI-322208,EBI-1571750

GO - Molecular functioni

  • DEAD/H-box RNA helicase binding Source: WormBase

Protein-protein interaction databases

DIPiDIP-25080N.
IntActiQ9U3F4. 11 interactors.
MINTiMINT-1129713.
STRINGi6239.F42G4.3e.1.

Structurei

3D structure databases

ProteinModelPortaliQ9U3F4.
SMRiQ9U3F4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini409 – 470LIM zinc-binding 1PROSITE-ProRule annotationAdd BLAST62
Domaini471 – 529LIM zinc-binding 2PROSITE-ProRule annotationAdd BLAST59
Domaini530 – 601LIM zinc-binding 3PROSITE-ProRule annotationAdd BLAST72

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi3 – 46Pro-richPROSITE-ProRule annotationAdd BLAST44
Compositional biasi283 – 288Poly-ProSequence analysis6

Domaini

The LIM domains are sufficient for the role in PLM synaptogenesis.1 Publication

Sequence similaritiesi

Belongs to the zyxin/ajuba family.Curated

Keywords - Domaini

LIM domain, Repeat

Phylogenomic databases

eggNOGiKOG1701. Eukaryota.
ENOG410Y3GP. LUCA.
GeneTreeiENSGT00760000119039.
HOGENOMiHOG000016880.
InParanoidiH2L2F7.
KOiK16676.
OMAiDVVCSEC.
OrthoDBiEOG091G085F.
PhylomeDBiQ9U3F4.

Family and domain databases

InterProiView protein in InterPro
IPR001781. Znf_LIM.
PfamiView protein in Pfam
PF00412. LIM. 3 hits.
SMARTiView protein in SMART
SM00132. LIM. 3 hits.
PROSITEiView protein in PROSITE
PS00478. LIM_DOMAIN_1. 2 hits.
PS50023. LIM_DOMAIN_2. 3 hits.

Sequences (5)i

Sequence statusi: Complete.

This entry describes 5 isoformsi produced by alternative promoter usage and alternative splicing. AlignAdd to basket

Isoform aImported (identifier: Q9U3F4-1) [UniParc]FASTAAdd to basket
Also known as: ZYX-1A1 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
MGPPPPPPPP PLLPSGEILP SRKWKTEDAP RRNNHPAPAP PKPSRPTVDA
60 70 80 90 100
SALQHAAARL RKTGYNEPVR GDVENLSDGR LDRPHQQLPD GDRTYRANLQ
110 120 130 140 150
QLAQPKTRAE IPSPPTYSNQ PRPLGDFHRD PNALSQFQQS REALLSSTSP
160 170 180 190 200
TSNYSPINKF SSSTLTQYAN KSPSPPSFGN SNSEATYVSP YSSKHSYPTN
210 220 230 240 250
FRSYHKDDDY FNNTATTATT TTSSNSLNEN NNSNKYGNKE TVLQWSEPYD
260 270 280 290 300
PSKIRRSQSP IRNAREMIHE YSTTNYVTEV QQPPPPPPDL YQRMTQARTF
310 320 330 340 350
LQNSLAKQLR DEGLTESQKA ANRNQTGALS ASSSIPFDAS QIVKNSYNGD
360 370 380 390 400
EVDHLVHQMR TKLNQPADTS PSIVQYPRRQ APDSSRANYS ATTSTSFSSS
410 420 430 440 450
TTRKIMNINI CVGCGKEITG DQPGCNAMNQ IFHVDCFKCG QCSKTLAGAS
460 470 480 490 500
FYNIDDKPTC EGCYQNSLEK CTACNRAISD KLLRACGGVY HVNCFVCFSC
510 520 530 540 550
KKSLDGIPFT LDKDNNVHCV PCFHDKFAPR CALCSKPIVP QDGEKESVRV
560 570 580 590 600
VAMDKSFHVD CYKCEDCGMQ LSSKLEGQGC YPIDNHLLCK TCNGNRLRVV

SST
Length:603
Mass (Da):66,774
Last modified:May 1, 2000 - v1
Checksum:i05417BEEBF2292EA
GO
Isoform bImported (identifier: Q9U3F4-2) [UniParc]FASTAAdd to basket
Also known as: ZYX-1B1 Publication

The sequence of this isoform differs from the canonical sequence as follows:
     1-409: MGPPPPPPPP...STTRKIMNIN → MADQED

Note: Produced by alternative promoter usage.1 Publication
Show »
Length:200
Mass (Da):21,958
Checksum:i0E84CAC25D7F7B11
GO
Isoform cImported (identifier: Q9U3F4-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-266: Missing.

Note: Produced by alternative promoter usage. No experimental confirmation available.Curated
Show »
Length:337
Mass (Da):37,200
Checksum:i84B5C96B9410AED1
GO
Isoform dImported (identifier: Q9U3F4-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-358: Missing.

Note: Produced by alternative promoter usage. No experimental confirmation available.Curated
Show »
Length:245
Mass (Da):26,916
Checksum:i206BB027A556FCA1
GO
Isoform eImported (identifier: Q9U3F4-5) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     575-603: LEGQGCYPIDNHLLCKTCNGNRLRVVSST → KECEFTKCKW...EFIPSLARLQ

Note: Produced by alternative splicing of isoform a. No experimental confirmation available.Curated
Show »
Length:647
Mass (Da):72,252
Checksum:i94895DD6D1FBFC82
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0575391 – 409MGPPP…IMNIN → MADQED in isoform b. Add BLAST409
Alternative sequenceiVSP_0575401 – 358Missing in isoform d. Add BLAST358
Alternative sequenceiVSP_0575411 – 266Missing in isoform c. Add BLAST266
Alternative sequenceiVSP_057542575 – 603LEGQG…VVSST → KECEFTKCKWFFEYGCQPPD DLDINGGHLELCSGALFIRH LCCKFHKNQRYLGRHVEHNP KQFEFIPSLARLQ in isoform e. Add BLAST29

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z81082 Genomic DNA. Translation: CAB03095.2.
Z81082 Genomic DNA. Translation: CAB03096.2.
Z81082 Genomic DNA. Translation: CCE71325.1.
Z81082 Genomic DNA. Translation: CCE71326.1.
Z81082 Genomic DNA. Translation: CCE71327.1.
PIRiC88346.
T22111.
RefSeqiNP_001254364.1. NM_001267435.1. [Q9U3F4-5]
NP_001254365.1. NM_001267436.1. [Q9U3F4-3]
NP_001254366.1. NM_001267437.1. [Q9U3F4-4]
NP_496776.1. NM_064375.6. [Q9U3F4-1]
NP_496777.2. NM_064376.5. [Q9U3F4-2]
UniGeneiCel.6754.

Genome annotation databases

EnsemblMetazoaiF42G4.3a.1; F42G4.3a.1; WBGene00006999. [Q9U3F4-1]
F42G4.3a.2; F42G4.3a.2; WBGene00006999. [Q9U3F4-1]
GeneIDi174951.
KEGGicel:CELE_F42G4.3.
UCSCiF42G4.3a.1. c. elegans.

Keywords - Coding sequence diversityi

Alternative promoter usage, Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z81082 Genomic DNA. Translation: CAB03095.2.
Z81082 Genomic DNA. Translation: CAB03096.2.
Z81082 Genomic DNA. Translation: CCE71325.1.
Z81082 Genomic DNA. Translation: CCE71326.1.
Z81082 Genomic DNA. Translation: CCE71327.1.
PIRiC88346.
T22111.
RefSeqiNP_001254364.1. NM_001267435.1. [Q9U3F4-5]
NP_001254365.1. NM_001267436.1. [Q9U3F4-3]
NP_001254366.1. NM_001267437.1. [Q9U3F4-4]
NP_496776.1. NM_064375.6. [Q9U3F4-1]
NP_496777.2. NM_064376.5. [Q9U3F4-2]
UniGeneiCel.6754.

3D structure databases

ProteinModelPortaliQ9U3F4.
SMRiQ9U3F4.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-25080N.
IntActiQ9U3F4. 11 interactors.
MINTiMINT-1129713.
STRINGi6239.F42G4.3e.1.

Proteomic databases

EPDiQ9U3F4.
PaxDbiQ9U3F4.
PeptideAtlasiQ9U3F4.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaiF42G4.3a.1; F42G4.3a.1; WBGene00006999. [Q9U3F4-1]
F42G4.3a.2; F42G4.3a.2; WBGene00006999. [Q9U3F4-1]
GeneIDi174951.
KEGGicel:CELE_F42G4.3.
UCSCiF42G4.3a.1. c. elegans.

Organism-specific databases

CTDi174951.
WormBaseiF42G4.3a; CE23716; WBGene00006999; zyx-1.
F42G4.3b; CE46653; WBGene00006999; zyx-1.
F42G4.3c; CE46595; WBGene00006999; zyx-1.
F42G4.3d; CE10324; WBGene00006999; zyx-1.
F42G4.3e; CE46698; WBGene00006999; zyx-1.

Phylogenomic databases

eggNOGiKOG1701. Eukaryota.
ENOG410Y3GP. LUCA.
GeneTreeiENSGT00760000119039.
HOGENOMiHOG000016880.
InParanoidiH2L2F7.
KOiK16676.
OMAiDVVCSEC.
OrthoDBiEOG091G085F.
PhylomeDBiQ9U3F4.

Enzyme and pathway databases

ReactomeiR-CEL-446353. Cell-extracellular matrix interactions.

Miscellaneous databases

PROiPR:Q9U3F4.

Gene expression databases

BgeeiWBGene00006999.

Family and domain databases

InterProiView protein in InterPro
IPR001781. Znf_LIM.
PfamiView protein in Pfam
PF00412. LIM. 3 hits.
SMARTiView protein in SMART
SM00132. LIM. 3 hits.
PROSITEiView protein in PROSITE
PS00478. LIM_DOMAIN_1. 2 hits.
PS50023. LIM_DOMAIN_2. 3 hits.
ProtoNetiSearch...

Entry informationi

Entry nameiZYX_CAEEL
AccessioniPrimary (citable) accession number: Q9U3F4
Secondary accession number(s): H2L2F5
, H2L2F6, H2L2F7, Q9U3F5
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 1, 2015
Last sequence update: May 1, 2000
Last modified: June 7, 2017
This is version 119 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  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.