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Protein

Chloride channel protein CLC-a

Gene

CLC-A

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Voltage-gated chloride channel that could play a role in the regulation of nitrate content.1 Publication

GO - Molecular functioni

GO - Biological processi

  • chloride transport Source: TAIR
  • nitrate transport Source: TAIR
  • response to nitrate Source: TAIR
Complete GO annotation...

Keywords - Molecular functioni

Chloride channel, Ion channel, Voltage-gated channel

Keywords - Biological processi

Ion transport, Transport

Keywords - Ligandi

Chloride

Enzyme and pathway databases

ReactomeiR-ATH-2672351. Stimuli-sensing channels.

Names & Taxonomyi

Protein namesi
Recommended name:
Chloride channel protein CLC-a
Short name:
AtCLC-a
Alternative name(s):
CBS domain-containing protein CBSCLC5
Gene namesi
Name:CLC-A
Synonyms:CBSCLC5
Ordered Locus Names:At5g40890
ORF Names:MHK7.12
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 5

Organism-specific databases

TAIRiAT5G40890.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei88 – 10821Helical; Name=1Sequence analysisAdd
BLAST
Transmembranei131 – 15121Helical; Name=2Sequence analysisAdd
BLAST
Transmembranei178 – 19821Helical; Name=3Sequence analysisAdd
BLAST
Transmembranei206 – 22621Helical; Name=4Sequence analysisAdd
BLAST
Transmembranei248 – 26821Helical; Name=5Sequence analysisAdd
BLAST
Transmembranei278 – 29821Helical; Name=6Sequence analysisAdd
BLAST
Transmembranei328 – 34821Helical; Name=7Sequence analysisAdd
BLAST
Transmembranei371 – 39121Helical; Name=8Sequence analysisAdd
BLAST
Transmembranei453 – 47321Helical; Name=9Sequence analysisAdd
BLAST
Transmembranei478 – 49821Helical; Name=10Sequence analysisAdd
BLAST
Transmembranei510 – 53021Helical; Name=11Sequence analysisAdd
BLAST
Transmembranei531 – 55121Helical; Name=12Sequence analysisAdd
BLAST
Transmembranei730 – 75021Helical; Name=13Sequence analysisAdd
BLAST

GO - Cellular componenti

  • chloride channel complex Source: UniProtKB-KW
  • intracellular Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Membrane

Pathology & Biotechi

Disruption phenotypei

Loss-of-function mutation clca-1 leads to an altered nitrate content and hypersensitivity to chlorate.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 775775Chloride channel protein CLC-aPRO_0000094465Add
BLAST

Proteomic databases

PaxDbiP92941.
PRIDEiP92941.

PTM databases

iPTMnetiP92941.

Expressioni

Tissue specificityi

Broadly expressed in the plant.

Inductioni

In shoots and roots by nitrate treatment.1 Publication

Gene expression databases

ExpressionAtlasiP92941. baseline and differential.
GenevisibleiP92941. AT.

Interactioni

Subunit structurei

Homodimer.By similarity

Protein-protein interaction databases

BioGridi19341. 5 interactions.
IntActiP92941. 5 interactions.
STRINGi3702.AT5G40890.1.

Structurei

3D structure databases

ProteinModelPortaliP92941.
SMRiP92941. Positions 89-628.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini595 – 65864CBS 1PROSITE-ProRule annotationAdd
BLAST
Domaini703 – 76866CBS 2PROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 2 CBS domains.PROSITE-ProRule annotation

Keywords - Domaini

CBS domain, Repeat, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG0474. Eukaryota.
COG0038. LUCA.
HOGENOMiHOG000231081.
InParanoidiP92941.
OMAiKQFNCPD.
PhylomeDBiP92941.

Family and domain databases

Gene3Di1.10.3080.10. 2 hits.
InterProiIPR000644. CBS_dom.
IPR014743. Cl-channel_core.
IPR001807. Cl-channel_volt-gated.
IPR002251. Cl_channel_pln.
[Graphical view]
PfamiPF00571. CBS. 2 hits.
PF00654. Voltage_CLC. 1 hit.
[Graphical view]
PRINTSiPR00762. CLCHANNEL.
PR01120. CLCHANNELPLT.
SMARTiSM00116. CBS. 2 hits.
[Graphical view]
SUPFAMiSSF81340. SSF81340. 2 hits.
PROSITEiPS51371. CBS. 2 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

This entry describes 1 isoform i produced by alternative splicing. AlignAdd to basket

Note: A number of isoforms are produced. According to EST sequences.

Isoform 1 (identifier: P92941-1) [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
MDEDGNLQIS NSNYNGEEEG EDPENNTLNQ PLLKRHRTLS STPLALVGAK
60 70 80 90 100
VSHIESLDYE INENDLFKHD WRSRSKAQVF QYIFLKWTLA CLVGLFTGLI
110 120 130 140 150
ATLINLAVEN IAGYKLLAVG YYIAQDRFWT GLMVFTGANL GLTLVATVLV
160 170 180 190 200
VYFAPTAAGP GIPEIKAYLN GIDTPNMFGF TTMMVKIVGS IGAVAAGLDL
210 220 230 240 250
GKEGPLVHIG SCIASLLGQG GPDNHRIKWR WLRYFNNDRD RRDLITCGSA
260 270 280 290 300
SGVCAAFRSP VGGVLFALEE VATWWRSALL WRTFFSTAVV VVVLRAFIEI
310 320 330 340 350
CNSGKCGLFG SGGLIMFDVS HVEVRYHAAD IIPVTLIGVF GGILGSLYNH
360 370 380 390 400
LLHKVLRLYN LINQKGKIHK VLLSLGVSLF TSVCLFGLPF LAECKPCDPS
410 420 430 440 450
IDEICPTNGR SGNFKQFNCP NGYYNDLSTL LLTTNDDAVR NIFSSNTPNE
460 470 480 490 500
FGMVSLWIFF GLYCILGLIT FGIATPSGLF LPIILMGSAY GRMLGTAMGS
510 520 530 540 550
YTNIDQGLYA VLGAASLMAG SMRMTVSLCV IFLELTNNLL LLPITMFVLL
560 570 580 590 600
IAKTVGDSFN LSIYEIILHL KGLPFLEANP EPWMRNLTVG ELNDAKPPVV
610 620 630 640 650
TLNGVEKVAN IVDVLRNTTH NAFPVLDGAD QNTGTELHGL ILRAHLVKVL
660 670 680 690 700
KKRWFLNEKR RTEEWEVREK FTPVELAERE DNFDDVAITS SEMQLYVDLH
710 720 730 740 750
PLTNTTPYTV VQSMSVAKAL VLFRSVGLRH LLVVPKIQAS GMSPVIGILT
760 770
RQDLRAYNIL QAFPHLDKHK SGKAR
Length:775
Mass (Da):85,406
Last modified:February 2, 2004 - v2
Checksum:iA352FB24583E714E
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti330 – 3301D → H in CAA96057 (PubMed:8969232).Curated
Sequence conflicti506 – 5061Q → L in AAL24139 (PubMed:14593172).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z71445 mRNA. Translation: CAA96057.1.
AF044313 mRNA. Translation: AAC05742.1.
AB011477 Genomic DNA. Translation: BAB11351.1.
CP002688 Genomic DNA. Translation: AED94612.1.
AY059791 mRNA. Translation: AAL24139.1.
AY150506 mRNA. Translation: AAN13022.1.
PIRiT52107.
RefSeqiNP_198905.1. NM_123454.2. [P92941-1]
UniGeneiAt.25457.

Genome annotation databases

EnsemblPlantsiAT5G40890.1; AT5G40890.1; AT5G40890. [P92941-1]
GeneIDi834090.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z71445 mRNA. Translation: CAA96057.1.
AF044313 mRNA. Translation: AAC05742.1.
AB011477 Genomic DNA. Translation: BAB11351.1.
CP002688 Genomic DNA. Translation: AED94612.1.
AY059791 mRNA. Translation: AAL24139.1.
AY150506 mRNA. Translation: AAN13022.1.
PIRiT52107.
RefSeqiNP_198905.1. NM_123454.2. [P92941-1]
UniGeneiAt.25457.

3D structure databases

ProteinModelPortaliP92941.
SMRiP92941. Positions 89-628.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi19341. 5 interactions.
IntActiP92941. 5 interactions.
STRINGi3702.AT5G40890.1.

PTM databases

iPTMnetiP92941.

Proteomic databases

PaxDbiP92941.
PRIDEiP92941.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT5G40890.1; AT5G40890.1; AT5G40890. [P92941-1]
GeneIDi834090.

Organism-specific databases

TAIRiAT5G40890.

Phylogenomic databases

eggNOGiKOG0474. Eukaryota.
COG0038. LUCA.
HOGENOMiHOG000231081.
InParanoidiP92941.
OMAiKQFNCPD.
PhylomeDBiP92941.

Enzyme and pathway databases

ReactomeiR-ATH-2672351. Stimuli-sensing channels.

Miscellaneous databases

PROiP92941.

Gene expression databases

ExpressionAtlasiP92941. baseline and differential.
GenevisibleiP92941. AT.

Family and domain databases

Gene3Di1.10.3080.10. 2 hits.
InterProiIPR000644. CBS_dom.
IPR014743. Cl-channel_core.
IPR001807. Cl-channel_volt-gated.
IPR002251. Cl_channel_pln.
[Graphical view]
PfamiPF00571. CBS. 2 hits.
PF00654. Voltage_CLC. 1 hit.
[Graphical view]
PRINTSiPR00762. CLCHANNEL.
PR01120. CLCHANNELPLT.
SMARTiSM00116. CBS. 2 hits.
[Graphical view]
SUPFAMiSSF81340. SSF81340. 2 hits.
PROSITEiPS51371. CBS. 2 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "A family of putative chloride channels from Arabidopsis and functional complementation of a yeast strain with a CLC gene disruption."
    Hechenberger M., Schwappach B., Fischer W.N., Frommer W.B., Jentsch T.J., Steinmeyer K.
    J. Biol. Chem. 271:33632-33638(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], CHARACTERIZATION.
    Strain: cv. Columbia.
  2. "Disruption of putative anion channel gene AtCLC-a in Arabidopsis suggests a role in the regulation of nitrate content."
    Geelen D., Lurin C., Bouchez D., Frachisse J.-M., Lelievre F., Courtial B., Barbier-Brygoo H., Maurel C.
    Plant J. 21:259-267(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, INDUCTION, DISRUPTION PHENOTYPE.
    Strain: cv. Wassilewskija.
  3. "Structural analysis of Arabidopsis thaliana chromosome 5. V. Sequence features of the regions of 1,381,565 bp covered by twenty one physically assigned P1 and TAC clones."
    Kaneko T., Kotani H., Nakamura Y., Sato S., Asamizu E., Miyajima N., Tabata S.
    DNA Res. 5:131-145(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  4. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  5. "Empirical analysis of transcriptional activity in the Arabidopsis genome."
    Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G.
    , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.
    Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Columbia.
  6. "Genome wide expression analysis of CBS domain containing proteins in Arabidopsis thaliana (L.) Heynh and Oryza sativa L. reveals their developmental and stress regulation."
    Kushwaha H.R., Singh A.K., Sopory S.K., Singla-Pareek S.L., Pareek A.
    BMC Genomics 10:200-200(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: GENE FAMILY, NOMENCLATURE.
  7. "Large-scale Arabidopsis phosphoproteome profiling reveals novel chloroplast kinase substrates and phosphorylation networks."
    Reiland S., Messerli G., Baerenfaller K., Gerrits B., Endler A., Grossmann J., Gruissem W., Baginsky S.
    Plant Physiol. 150:889-903(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiCLCA_ARATH
AccessioniPrimary (citable) accession number: P92941
Secondary accession number(s): O64990, Q93YS0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 2, 2004
Last sequence update: February 2, 2004
Last modified: February 17, 2016
This is version 116 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  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.