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Protein

ADP-ribosylation factor-like protein 13B

Gene

Arl13b

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

Functioni

Cilium-specific protein required to control the microtubule-based, ciliary axoneme structure. May act by maintaining the association between IFT subcomplexes A and B. Binds GTP but is not able to hydrolyze it; the GTPase activity remains unclear. Required to pattern the neural tube. Involved in cerebral cortex development: required for the initial formation of a polarized radial glial scaffold, the first step in the construction of the cerebral cortex, by regulating ciliary signaling (PubMed:23817546). Regulates the migration and placement of postmitotic interneurons in the developing cerebral cortex (PubMed:23153492).7 Publications

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi28 – 358GTPBy similarity
Nucleotide bindingi71 – 755GTPBy similarity
Nucleotide bindingi130 – 1334GTPBy similarity

GO - Molecular functioni

GO - Biological processi

  • cilium assembly Source: UniProtKB
  • determination of left/right symmetry Source: MGI
  • dorsal/ventral pattern formation Source: MGI
  • formation of radial glial scaffolds Source: UniProtKB
  • heart looping Source: MGI
  • interneuron migration from the subpallium to the cortex Source: UniProtKB
  • left/right axis specification Source: MGI
  • neural tube patterning Source: UniProtKB
  • nonmotile primary cilium assembly Source: UniProtKB
  • small GTPase mediated signal transduction Source: InterPro
  • smoothened signaling pathway Source: UniProtKB
Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Ligandi

GTP-binding, Nucleotide-binding

Enzyme and pathway databases

ReactomeiR-MMU-5624958. ARL13B-mediated ciliary trafficking of INPP5E.

Names & Taxonomyi

Protein namesi
Recommended name:
ADP-ribosylation factor-like protein 13B
Alternative name(s):
ADP-ribosylation factor-like protein 2-like 1
Short name:
ARL2-like protein 1
Protein hennin
Gene namesi
Name:Arl13b
Synonyms:Arl2l1
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 16

Organism-specific databases

MGIiMGI:1915396. Arl13b.

Subcellular locationi

GO - Cellular componenti

  • axoneme Source: CACAO
  • ciliary membrane Source: UniProtKB
  • cilium Source: UniProtKB
  • motile cilium Source: MGI
  • primary cilium Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Cell projection, Cilium, Membrane

Pathology & Biotechi

Disruption phenotypei

Impaired cilium's ability to convey critical extracellular signals such as Shh, without destroying cilia and their downstream pathways. Mice show a constitutive low-level of Shh activity owing to loss of modulation of Gli2 activator, corresponding to the specification of progenitors of motoneurons through most of the neural tube. In contrast to other mouse mutants that disrupt cilia, Gli3 repressor activity is unaffected in mutants (PubMed:17488627). Mutants show abnormal cilia in which components of Shh signaling are not regulated properly: Ptch1 and Smo localize to cilia regardless of Shh stimulation, and there is no Gli enrichment in cilia upon Shh stimulation (PubMed:21976698). Conditional deletion disrupts interneuronal placement, but not postmigratory differentiation in the developing cerebral cortex (PubMed:23153492). Early neuroepithelial-specific deletion in cortical progenitors induces a reversal of the apical-basal polarity of radial progenitors and aberrant neuronal placement (PubMed:23817546).7 Publications

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi8 – 92CC → SS: Abolishes palmitoylation and localization to the cilium membrane. 1 Publication
Mutagenesisi358 – 3581V → A: Abolishes localization to cilium. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 427427ADP-ribosylation factor-like protein 13BPRO_0000251138Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Lipidationi8 – 81S-palmitoyl cysteine1 Publication
Lipidationi9 – 91S-palmitoyl cysteine1 Publication
Modified residuei328 – 3281PhosphoserineCombined sources

Post-translational modificationi

Sumoylation is required for PKD2 entry into cilium.By similarity

Keywords - PTMi

Lipoprotein, Palmitate, Phosphoprotein, Ubl conjugation

Proteomic databases

MaxQBiQ640N2.
PaxDbiQ640N2.
PeptideAtlasiQ640N2.
PRIDEiQ640N2.

PTM databases

iPTMnetiQ640N2.
PhosphoSiteiQ640N2.

Expressioni

Tissue specificityi

Cilium-specific protein. Expressed in neuroepithelial cells and developing radial glia of the developing cerebral cortex: present in both neuroepithelial and radial progenitor cells. In radial progenitors, found in the apical, cell soma domains of these cells (at protein level). Expressed in the primary cilia of postmitotic cortical neurons during embryonic and postnatal development.2 Publications

Gene expression databases

BgeeiENSMUSG00000022911.
CleanExiMM_ARL13B.
GenevisibleiQ640N2. MM.

Interactioni

Subunit structurei

Monomer. Interacts with IFT complex B components IFT46 and IFT74 (By similarity). Interacts with PIFO.By similarity1 Publication

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000086703.

Structurei

3D structure databases

ProteinModelPortaliQ640N2.
SMRiQ640N2. Positions 20-219.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili194 – 28592Sequence analysisAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi371 – 3799Poly-Pro

Sequence similaritiesi

Belongs to the small GTPase superfamily. Arf family.Curated

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiKOG0074. Eukaryota.
KOG0076. Eukaryota.
ENOG410XRG9. LUCA.
GeneTreeiENSGT00550000074639.
HOGENOMiHOG000034031.
HOVERGENiHBG060221.
InParanoidiQ640N2.
KOiK07962.
OMAiINLRQGK.
OrthoDBiEOG091G0BQV.
TreeFamiTF105476.

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
InterProiIPR027417. P-loop_NTPase.
IPR005225. Small_GTP-bd_dom.
IPR024156. Small_GTPase_ARF.
IPR006689. Small_GTPase_ARF/SAR.
[Graphical view]
PfamiPF00025. Arf. 1 hit.
[Graphical view]
PRINTSiPR00328. SAR1GTPBP.
SUPFAMiSSF52540. SSF52540. 1 hit.
TIGRFAMsiTIGR00231. small_GTP. 1 hit.
PROSITEiPS51417. ARF. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q640N2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFSLMANCCN LFKRWREPVR KVTLVMVGLD NAGKTATAKG IQGEHPEDVA
60 70 80 90 100
PTVGFSKIDL RQGKFQVTIF DLGGGKRIRG IWKNYYAESY GVIFVVDSSD
110 120 130 140 150
EERMEETKET MSEVLRHPRI SGKPILVLAN KQDKEGALGE ADVIECLSLE
160 170 180 190 200
KLVNEHKCLC QIEPCSAVLG YGKKIDKSIK KGLYWLLHII AKDFDALSER
210 220 230 240 250
IQKDTTEQRA LEEQEKRERA ERVRKLREER EREQTELDGT SGLAEIDSGP
260 270 280 290 300
VLANPFQPIA AVIIENEKKQ EKEKKKQTVE KDSDVGLLEH KVEPEQAAPQ
310 320 330 340 350
SEADCCLQNP DERVVDSYRE ALSQQLDSED EQDQRGSESG ENSKKKTKKL
360 370 380 390 400
RMKRSHRVEP VNTDESTPKS PTPPQPPPPV GWGTPKVTRL PKLEPLGETR
410 420
HNDFYGKPLP PLAVRQRPNG DAQDTIS
Length:427
Mass (Da):48,144
Last modified:October 3, 2012 - v2
Checksum:iAC131D386B999ABB
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti356 – 3561H → Q in AAH82574 (PubMed:15489334).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC154309 Genomic DNA. No translation available.
CH466521 Genomic DNA. Translation: EDK98235.1.
BC082574 mRNA. Translation: AAH82574.1.
CCDSiCCDS28261.1.
RefSeqiNP_080853.3. NM_026577.3.
UniGeneiMm.96833.

Genome annotation databases

EnsembliENSMUST00000089289; ENSMUSP00000086703; ENSMUSG00000022911.
GeneIDi68146.
KEGGimmu:68146.
UCSCiuc007zpu.2. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC154309 Genomic DNA. No translation available.
CH466521 Genomic DNA. Translation: EDK98235.1.
BC082574 mRNA. Translation: AAH82574.1.
CCDSiCCDS28261.1.
RefSeqiNP_080853.3. NM_026577.3.
UniGeneiMm.96833.

3D structure databases

ProteinModelPortaliQ640N2.
SMRiQ640N2. Positions 20-219.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000086703.

PTM databases

iPTMnetiQ640N2.
PhosphoSiteiQ640N2.

Proteomic databases

MaxQBiQ640N2.
PaxDbiQ640N2.
PeptideAtlasiQ640N2.
PRIDEiQ640N2.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000089289; ENSMUSP00000086703; ENSMUSG00000022911.
GeneIDi68146.
KEGGimmu:68146.
UCSCiuc007zpu.2. mouse.

Organism-specific databases

CTDi200894.
MGIiMGI:1915396. Arl13b.

Phylogenomic databases

eggNOGiKOG0074. Eukaryota.
KOG0076. Eukaryota.
ENOG410XRG9. LUCA.
GeneTreeiENSGT00550000074639.
HOGENOMiHOG000034031.
HOVERGENiHBG060221.
InParanoidiQ640N2.
KOiK07962.
OMAiINLRQGK.
OrthoDBiEOG091G0BQV.
TreeFamiTF105476.

Enzyme and pathway databases

ReactomeiR-MMU-5624958. ARL13B-mediated ciliary trafficking of INPP5E.

Miscellaneous databases

ChiTaRSiArl13b. mouse.
PROiQ640N2.
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000022911.
CleanExiMM_ARL13B.
GenevisibleiQ640N2. MM.

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
InterProiIPR027417. P-loop_NTPase.
IPR005225. Small_GTP-bd_dom.
IPR024156. Small_GTPase_ARF.
IPR006689. Small_GTPase_ARF/SAR.
[Graphical view]
PfamiPF00025. Arf. 1 hit.
[Graphical view]
PRINTSiPR00328. SAR1GTPBP.
SUPFAMiSSF52540. SSF52540. 1 hit.
TIGRFAMsiTIGR00231. small_GTP. 1 hit.
PROSITEiPS51417. ARF. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiAR13B_MOUSE
AccessioniPrimary (citable) accession number: Q640N2
Secondary accession number(s): G3X9K5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 3, 2006
Last sequence update: October 3, 2012
Last modified: September 7, 2016
This is version 103 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Miscellaneous

Used as a ciliary marker because of its specific localization to microtubule doublets of the ciliary axoneme. Frequently used to study cilium signaling, since in contrast to most cilia null mutants, deletion of Arl13b impairs without destroying cilia and their downstream pathways (PubMed:23817546).1 Publication

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.