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Protein

H(+)/Cl(-) exchange transporter 3

Gene

Clcn3

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

Functioni

Mediates the exchange of chloride ions against protons. Functions as antiporter and contributes to the acidification of the endosome and synaptic vesicle lumen, and may thereby affect vesicle trafficking and exocytosis. May play an important role in neuronal cell function through regulation of membrane excitability by protein kinase C. It could help neuronal cells to establish short-term memory.2 Publications

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei239ChlorideBy similarity1
Sitei282Mediates proton transfer from the outer aqueous phase to the interior of the protein; involved in linking H(+) and Cl(-) transportBy similarity1
Sitei339Mediates proton transfer from the protein to the inner aqueous phaseBy similarity1
Binding sitei527Chloride; via amide nitrogenBy similarity1
Binding sitei630ChlorideBy similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi689 – 691ATPBy similarity3
Nucleotide bindingi796 – 799ATPBy similarity4

GO - Molecular functioni

GO - Biological processi

Keywordsi

Biological processAntiport, Ion transport, Transport
LigandATP-binding, Chloride, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
H(+)/Cl(-) exchange transporter 3
Alternative name(s):
Chloride channel protein 3
Short name:
ClC-3
Chloride transporter ClC-3
Gene namesi
Name:Clcn3
Synonyms:Clc3
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 8

Organism-specific databases

MGIiMGI:103555 Clcn3

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

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini1 – 125CytoplasmicBy similarityAdd BLAST125
Transmembranei126 – 163HelicalBy similarityAdd BLAST38
Transmembranei209 – 232HelicalBy similarityAdd BLAST24
Intramembranei241 – 248HelicalBy similarity8
Transmembranei258 – 276HelicalBy similarityAdd BLAST19
Transmembranei282 – 301HelicalBy similarityAdd BLAST20
Intramembranei313 – 325HelicalBy similarityAdd BLAST13
Intramembranei329 – 337HelicalBy similarity9
Transmembranei349 – 367HelicalBy similarityAdd BLAST19
Transmembranei391 – 416HelicalBy similarityAdd BLAST26
Transmembranei423 – 443HelicalBy similarityAdd BLAST21
Transmembranei500 – 520HelicalBy similarityAdd BLAST21
Transmembranei525 – 544HelicalBy similarityAdd BLAST20
Intramembranei572 – 586HelicalBy similarityAdd BLAST15
Intramembranei590 – 601HelicalBy similarityAdd BLAST12
Intramembranei602 – 605Note=Loop between two helicesBy similarity4
Transmembranei606 – 624HelicalBy similarityAdd BLAST19
Topological domaini625 – 818CytoplasmicBy similarityAdd BLAST194

Keywords - Cellular componenti

Cytoplasmic vesicle, Endosome, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000944391 – 818H(+)/Cl(-) exchange transporter 3Add BLAST818

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi177N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi451N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi479N-linked (GlcNAc...) asparagineSequence analysis1

Post-translational modificationi

N-glycosylated.By similarity

Keywords - PTMi

Glycoprotein

Proteomic databases

MaxQBiP51791
PaxDbiP51791
PeptideAtlasiP51791
PRIDEiP51791

PTM databases

iPTMnetiP51791
PhosphoSitePlusiP51791

Expressioni

Tissue specificityi

Detected in kidney, in the apical part of proximal tubule cells (at protein level). Expressed at high levels in the kidney while a low level expression is seen in the brain. Within the brain, it is prominent in the hippocampus, cerebral cortex and olfactory bulb.1 Publication

Developmental stagei

At 10.5 days of development it is expressed throughout the embryo. Later in development (12.5 to 14.5 days of gestation), expression is progressively up-regulated in neurons of the brain and the spinal cord, in all cranial sensory ganglia and in the sympathetic dorsal root ganglia.

Gene expression databases

BgeeiENSMUSG00000004319 Expressed in 299 organ(s), highest expression level in rostral migratory stream
CleanExiMM_CLCN3
ExpressionAtlasiP51791 baseline and differential
GenevisibleiP51791 MM

Interactioni

GO - Molecular functioni

Protein-protein interaction databases

IntActiP51791, 1 interactor
MINTiP51791
STRINGi10090.ENSMUSP00000004430

Structurei

3D structure databases

ProteinModelPortaliP51791
SMRiP51791
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini658 – 722CBS 1PROSITE-ProRule annotationAdd BLAST65
Domaini755 – 812CBS 2PROSITE-ProRule annotationAdd BLAST58

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi238 – 242Selectivity filter part_1By similarity5
Motifi280 – 284Selectivity filter part_2By similarity5
Motifi525 – 529Selectivity filter part_3By similarity5

Sequence similaritiesi

Keywords - Domaini

CBS domain, Repeat, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG0475 Eukaryota
COG0038 LUCA
GeneTreeiENSGT00760000119109
HOGENOMiHOG000164493
HOVERGENiHBG050984
InParanoidiP51791
KOiK05012
OMAiFVIKWNL

Family and domain databases

Gene3Di1.10.3080.10, 1 hit
InterProiView protein in InterPro
IPR000644 CBS_dom
IPR014743 Cl-channel_core
IPR001807 Cl-channel_volt-gated
IPR002245 Cl_channel-3
PfamiView protein in Pfam
PF00571 CBS, 2 hits
PF00654 Voltage_CLC, 1 hit
PRINTSiPR00762 CLCHANNEL
PR01114 CLCHANNEL3
SMARTiView protein in SMART
SM00116 CBS, 2 hits
SUPFAMiSSF81340 SSF81340, 1 hit
PROSITEiView protein in PROSITE
PS51371 CBS, 2 hits

Sequences (2+)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 2 described isoforms and 3 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: P51791-1) [UniParc]FASTAAdd to basket
Also known as: b

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
MESEQLFHRG YYRNSYNSIT SASSDEELLD GAGAIMDFQT SEDDNLLDGD
60 70 80 90 100
TAAGTHYTMT NGGSINSSTH LLDLLDEPIP GVGTYDDFHT IDWVREKCKD
110 120 130 140 150
RERHRRINSK KKESAWEMTK SLYDAWSGWL VVTLTGLASG ALAGLIDIAA
160 170 180 190 200
DWMTDLKEGI CLSALWYNHE QCCWGSNETT FEERDKCPQW KTWAELIIGQ
210 220 230 240 250
AEGPGSYIMN YIMYIFWALS FAFLAVSLVK VFAPYACGSG IPEIKTILSG
260 270 280 290 300
FIIRGYLGKW TLMIKTITLV LAVASGLSLG KEGPLVHVAC CCGNIFSYLF
310 320 330 340 350
PKYSTNEAKK REVLSAASAA GVSVAFGAPI GGVLFSLEEV SYYFPLKTLW
360 370 380 390 400
RSFFAALVAA FVLRSINPFG NSRLVLFYVE YHTPWYLFEL FPFILLGVFG
410 420 430 440 450
GLWGAFFIRA NIAWCRRRKS TKFGKYPVLE VIIVAAITAV IAFPNPYTRL
460 470 480 490 500
NTSELIKELF TDCGPLESSS LCDYRNDMNA SKIVDDIPDR PAGVGVYSAI
510 520 530 540 550
WQLCLALIFK IIMTVFTFGI KVPSGLFIPS MAIGAIAGRI VGIAVEQLAY
560 570 580 590 600
YHHDWFIFKE WCEVGADCIT PGLYAMVGAA ACLGGVTRMT VSLVVIVFEL
610 620 630 640 650
TGGLEYIVPL MAAVMTSKWV GDAFGREGIY EAHIRLNGYP FLDAKEEFTH
660 670 680 690 700
TTLAADVMRP RRSDPPLAVL TQDNMTVDDI ENMINETSYN GFPVIMSKES
710 720 730 740 750
QRLVGFALRR DLTIAIESAR KKQEGIVGSS RVCFAQHTPS LPAESPRPLK
760 770 780 790 800
LRSILDMSPF TVTDHTPMEI VVDIFRKLGL RQCLVTHNGR LLGIITKKDI
810
LRHMAQTANQ DPASIMFN
Length:818
Mass (Da):90,869
Last modified:April 14, 2009 - v2
Checksum:i8DD21FD156A5B29E
GO
Isoform 2 (identifier: P51791-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-58: Missing.

Show »
Length:760
Mass (Da):84,475
Checksum:i0101C45A23509AFE
GO

Computationally mapped potential isoform sequencesi

There are 3 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
Q3TF45Q3TF45_MOUSE
Chloride channel protein
Clcn3
866Annotation score:
E9Q2I1E9Q2I1_MOUSE
Chloride channel protein
Clcn3
839Annotation score:
Q8K4W8Q8K4W8_MOUSE
Chloride channel protein
Clcn3
791Annotation score:

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0368991 – 58Missing in isoform 2. 1 PublicationAdd BLAST58

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X78874 mRNA Translation: CAA55476.1
AF029347 mRNA Translation: AAB95162.1
AF347688
, AF347682, AF347683, AF347684, AF347685, AF347686 Genomic DNA Translation: AAM89113.1
AK141136 mRNA Translation: BAE24568.1
AK159698 mRNA Translation: BAE35298.1
AK162639 mRNA Translation: BAE37002.1
CH466569 Genomic DNA Translation: EDL28642.1
CCDSiCCDS22323.1 [P51791-2]
CCDS52554.1 [P51791-1]
PIRiI48295 S55473
RefSeqiNP_031737.1, NM_007711.3 [P51791-2]
NP_776298.1, NM_173873.1 [P51791-1]
UniGeneiMm.25263
Mm.259751

Genome annotation databases

EnsembliENSMUST00000093490; ENSMUSP00000091202; ENSMUSG00000004319 [P51791-2]
ENSMUST00000110301; ENSMUSP00000105930; ENSMUSG00000004319 [P51791-1]
GeneIDi12725
KEGGimmu:12725
UCSCiuc009ltl.2 mouse [P51791-1]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X78874 mRNA Translation: CAA55476.1
AF029347 mRNA Translation: AAB95162.1
AF347688
, AF347682, AF347683, AF347684, AF347685, AF347686 Genomic DNA Translation: AAM89113.1
AK141136 mRNA Translation: BAE24568.1
AK159698 mRNA Translation: BAE35298.1
AK162639 mRNA Translation: BAE37002.1
CH466569 Genomic DNA Translation: EDL28642.1
CCDSiCCDS22323.1 [P51791-2]
CCDS52554.1 [P51791-1]
PIRiI48295 S55473
RefSeqiNP_031737.1, NM_007711.3 [P51791-2]
NP_776298.1, NM_173873.1 [P51791-1]
UniGeneiMm.25263
Mm.259751

3D structure databases

ProteinModelPortaliP51791
SMRiP51791
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiP51791, 1 interactor
MINTiP51791
STRINGi10090.ENSMUSP00000004430

PTM databases

iPTMnetiP51791
PhosphoSitePlusiP51791

Proteomic databases

MaxQBiP51791
PaxDbiP51791
PeptideAtlasiP51791
PRIDEiP51791

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000093490; ENSMUSP00000091202; ENSMUSG00000004319 [P51791-2]
ENSMUST00000110301; ENSMUSP00000105930; ENSMUSG00000004319 [P51791-1]
GeneIDi12725
KEGGimmu:12725
UCSCiuc009ltl.2 mouse [P51791-1]

Organism-specific databases

CTDi1182
MGIiMGI:103555 Clcn3

Phylogenomic databases

eggNOGiKOG0475 Eukaryota
COG0038 LUCA
GeneTreeiENSGT00760000119109
HOGENOMiHOG000164493
HOVERGENiHBG050984
InParanoidiP51791
KOiK05012
OMAiFVIKWNL

Miscellaneous databases

ChiTaRSiClcn3 mouse
PROiPR:P51791
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000004319 Expressed in 299 organ(s), highest expression level in rostral migratory stream
CleanExiMM_CLCN3
ExpressionAtlasiP51791 baseline and differential
GenevisibleiP51791 MM

Family and domain databases

Gene3Di1.10.3080.10, 1 hit
InterProiView protein in InterPro
IPR000644 CBS_dom
IPR014743 Cl-channel_core
IPR001807 Cl-channel_volt-gated
IPR002245 Cl_channel-3
PfamiView protein in Pfam
PF00571 CBS, 2 hits
PF00654 Voltage_CLC, 1 hit
PRINTSiPR00762 CLCHANNEL
PR01114 CLCHANNEL3
SMARTiView protein in SMART
SM00116 CBS, 2 hits
SUPFAMiSSF81340 SSF81340, 1 hit
PROSITEiView protein in PROSITE
PS51371 CBS, 2 hits
ProtoNetiSearch...

Entry informationi

Entry nameiCLCN3_MOUSE
AccessioniPrimary (citable) accession number: P51791
Secondary accession number(s): Q8K4X0
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: April 14, 2009
Last modified: November 7, 2018
This is version 147 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

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
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