Skip Header

You are using a version of Internet Explorer that may not display all features of this website. Please upgrade to a modern browser.
Contribute Send feedback
Read comments (?) or add your own

Q96DZ5 (CLIP3_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 114. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (6) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
CAP-Gly domain-containing linker protein 3
Alternative name(s):
Cytoplasmic linker protein 170-related 59 kDa protein
Short name=CLIP-170-related 59 kDa protein
Short name=CLIPR-59
Gene names
Name:CLIP3
Synonyms:CLIPR59
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length547 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Functions as a cytoplasmic linker protein. Involved in TGN-endosome dynamics. May modulate the cellular compartmentalization of AKT kinase family and promote its cell membrane localization, thereby playing a role in glucose transport in adipocytes. Ref.5

Subunit structure

Homodimer. Interacts with AKT1 and AKT2; when AKT1 and AKT2 are phosphorylated and activated, affinity is higher for AKT2. Ref.5

Subcellular location

Cell membrane; Lipid-anchor. Cytoplasm. Golgi apparatusGolgi stack. Note: Localized to Golgi stacks as well as on tubulovesicular elements juxtaposed to Golgi cisternae. Ref.6

Domain

Microtubule association is inhibited by the ANK repeats and the Golgi localization region (GoLD).

Post-translational modification

Palmitoylation by ZDHHC17 regulates association with the plasma membrane. Ref.6

Miscellaneous

The N-terminal half is dispensable for proper Golgi targeting, whereas the GoLD region is required.

Sequence similarities

Contains 3 ANK repeats.

Contains 2 CAP-Gly domains.

Ontologies

Keywords
   Cellular componentCell membrane
Cytoplasm
Golgi apparatus
Membrane
   Coding sequence diversityPolymorphism
   DomainANK repeat
Repeat
   PTMLipoprotein
Palmitate
   Technical term3D-structure
Complete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processchaperone-mediated protein transport

Inferred from mutant phenotype PubMed 20052288. Source: UniProtKB

fat cell differentiation

Inferred from sequence or structural similarity. Source: UniProtKB

membrane biogenesis

Inferred from mutant phenotype Ref.1. Source: UniProtKB

negative regulation of microtubule polymerization

Inferred from mutant phenotype PubMed 15262990. Source: UniProtKB

peptidyl-L-cysteine S-palmitoylation

Inferred from mutant phenotype PubMed 15262990. Source: UniProtKB

positive regulation of apoptotic process

Inferred from mutant phenotype PubMed 20052288. Source: UniProtKB

positive regulation of endocytosis

Inferred from mutant phenotype Ref.1. Source: UniProtKB

positive regulation of establishment of protein localization to plasma membrane

Inferred from sequence or structural similarity. Source: UniProtKB

positive regulation of glucose transport

Inferred from sequence or structural similarity. Source: UniProtKB

positive regulation of protein phosphorylation

Inferred from sequence or structural similarity. Source: UniProtKB

   Cellular_componentGolgi stack

Inferred from electronic annotation. Source: UniProtKB-SubCell

early endosome membrane

Inferred from direct assay Ref.1. Source: UniProtKB

membrane raft

Inferred from direct assay PubMed 15262990. Source: UniProtKB

plasma membrane

Inferred from direct assay Ref.5. Source: UniProtKB

recycling endosome membrane

Inferred from direct assay Ref.1. Source: UniProtKB

trans-Golgi network

Inferred from sequence or structural similarity. Source: UniProtKB

trans-Golgi network membrane

Inferred from direct assay Ref.1. Source: UniProtKB

   Molecular_functionganglioside binding

Inferred from direct assay PubMed 20052288. Source: UniProtKB

microtubule binding

Inferred from direct assay PubMed 15262990. Source: UniProtKB

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 547547CAP-Gly domain-containing linker protein 3
PRO_0000076212

Regions

Repeat117 – 15842ANK 1
Repeat160 – 19132ANK 2
Repeat197 – 22933ANK 3
Domain314 – 35643CAP-Gly 1
Domain436 – 47843CAP-Gly 2
Region488 – 54760GoLD
Compositional bias16 – 2510Poly-Glu

Amino acid modifications

Lipidation5341S-palmitoyl cysteine Ref.6
Lipidation5351S-palmitoyl cysteine Ref.6

Natural variations

Natural variant1751D → V. Ref.3
Corresponds to variant rs17851002 [ dbSNP | Ensembl ].
VAR_027962

Experimental info

Mutagenesis534 – 5352CC → AA: Strongly reduced plasma membrane association and decrease in the levels of Akt at the plasma membrane. Ref.6

Secondary structure

.................... 547
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Q96DZ5 [UniParc].

Last modified October 17, 2006. Version 3.
Checksum: A718D9673EC1CF4B

FASTA54759,560
        10         20         30         40         50         60 
MTKTDPAPMA PPPRGEEEEE EEEDEPVPEA PSPTQERRQK PVVHPSAPAP LPKDYAFTFF 

        70         80         90        100        110        120 
DPNDPACQEI LFDPQTTIPE LFAIVRQWVP QVQHKIDVIG NEILRRGCHV NDRDGLTDMT 

       130        140        150        160        170        180 
LLHYACKAGA HGVGDPAAAV RLSQQLLALG ADVTLRSRWT NMNALHYAAY FDVPDLVRVL 

       190        200        210        220        230        240 
LKGARPRVVN STCSDFNHGS ALHIAASSLC LGAAKCLLEH GANPALRNRK GQVPAEVVPD 

       250        260        270        280        290        300 
PMDMSLDKAE AALVAKELRT LLEEAVPLSC ALPKVTLPNY DNVPGNLMLS ALGLRLGDRV 

       310        320        330        340        350        360 
LLDGQKTGTL RFCGTTEFAS GQWVGVELDE PEGKNDGSVG GVRYFICPPK QGLFASVSKI 

       370        380        390        400        410        420 
SKAVDAPPSS VTSTPRTPRM DFSRVTGKGR REHKGKKKTP SSPSLGSLQQ RDGAKAEVGD 

       430        440        450        460        470        480 
QVLVAGQKQG IVRFYGKTDF APGYWYGIEL DQPTGKHDGS VFGVRYFTCP PRHGVFAPAS 

       490        500        510        520        530        540 
RIQRIGGSTD SPGDSVGAKK VHQVTMTQPK RTFTTVRTPK DIASENSISR LLFCCWFPWM 


LRAEMQS 

« Hide

References

« Hide 'large scale' references
[1]"CLIPR-59, a new trans-Golgi/TGN cytoplasmic linker protein belonging to the CLIP-170 family."
Perez F., Pernet-Gallay K., Nizak C., Goodson H.V., Kreis T.E., Goud B.
J. Cell Biol. 156:631-642(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[2]"Complete sequencing and characterization of 21,243 full-length human cDNAs."
Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S. expand/collapse author list , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
Tissue: Brain and Cerebellum.
[3]"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], VARIANT VAL-175.
Tissue: Brain and Skin.
[4]"The full-ORF clone resource of the German cDNA consortium."
Bechtel S., Rosenfelder H., Duda A., Schmidt C.P., Ernst U., Wellenreuther R., Mehrle A., Schuster C., Bahr A., Bloecker H., Heubner D., Hoerlein A., Michel G., Wedler H., Koehrer K., Ottenwaelder B., Poustka A., Wiemann S., Schupp I.
BMC Genomics 8:399-399(2007) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 387-547.
Tissue: Uterus.
[5]"ClipR-59 interacts with Akt and regulates Akt cellular compartmentalization."
Ding J., Du K.
Mol. Cell. Biol. 29:1459-1471(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, INTERACTION WITH AKT1 AND AKT2.
[6]"DHHC17 palmitoylates ClipR-59 and modulates ClipR-59 association with the plasma membrane."
Ren W., Sun Y., Du K.
Mol. Cell. Biol. 33:4255-4265(2013) [PubMed] [Europe PMC] [Abstract]
Cited for: PALMITOYLATION AT CYS-534 AND CYS-535, SUBCELLULAR LOCATION, MUTAGENESIS OF 534-CYS--CYS-535.
[7]"Solution structure of the 1st CAP-GLY domain in human clip-170-related protein CLIPR59."
RIKEN structural genomics initiative (RSGI)
Submitted (NOV-2005) to the PDB data bank
Cited for: STRUCTURE BY NMR OF 285-366.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AJ427922 mRNA. Translation: CAD20873.1.
AK094738 mRNA. Translation: BAG52921.1.
AK289509 mRNA. Translation: BAF82198.1.
BC013116 mRNA. Translation: AAH13116.2.
BC014486 mRNA. Translation: AAH14486.2.
AL117468 mRNA. Translation: CAB55943.1.
CCDSCCDS12486.1.
PIRT17253.
RefSeqNP_001186499.1. NM_001199570.1.
NP_056341.1. NM_015526.2.
UniGeneHs.466539.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
2CP0NMR-A285-366[»]
ProteinModelPortalQ96DZ5.
SMRQ96DZ5. Positions 99-238, 286-370, 409-491.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid117475. 9 interactions.
STRING9606.ENSP00000353732.

PTM databases

PhosphoSiteQ96DZ5.

Polymorphism databases

DMDM116241302.

Proteomic databases

PaxDbQ96DZ5.
PRIDEQ96DZ5.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000360535; ENSP00000353732; ENSG00000105270.
ENST00000593074; ENSP00000466832; ENSG00000105270.
GeneID25999.
KEGGhsa:25999.
UCSCuc002ocz.2. human.

Organism-specific databases

CTD25999.
GeneCardsGC19M036505.
H-InvDBHIX0040341.
HGNCHGNC:24314. CLIP3.
HPAHPA041429.
MIM607382. gene.
neXtProtNX_Q96DZ5.
PharmGKBPA162382439.
GenAtlasSearch...

Phylogenomic databases

eggNOGCOG5244.
HOGENOMHOG000007206.
HOVERGENHBG057079.
InParanoidQ96DZ5.
KOK10423.
OMADNVGAKK.
OrthoDBEOG75QR3B.
PhylomeDBQ96DZ5.
TreeFamTF326096.

Gene expression databases

ArrayExpressQ96DZ5.
BgeeQ96DZ5.
CleanExHS_CLIP3.
GenevestigatorQ96DZ5.

Family and domain databases

Gene3D1.25.40.20. 1 hit.
2.30.30.190. 2 hits.
InterProIPR002110. Ankyrin_rpt.
IPR020683. Ankyrin_rpt-contain_dom.
IPR000938. CAP-Gly_domain.
[Graphical view]
PfamPF12796. Ank_2. 1 hit.
PF01302. CAP_GLY. 2 hits.
[Graphical view]
SMARTSM00248. ANK. 3 hits.
SM01052. CAP_GLY. 2 hits.
[Graphical view]
SUPFAMSSF48403. SSF48403. 1 hit.
SSF74924. SSF74924. 2 hits.
PROSITEPS50297. ANK_REP_REGION. 1 hit.
PS50088. ANK_REPEAT. 1 hit.
PS00845. CAP_GLY_1. 2 hits.
PS50245. CAP_GLY_2. 2 hits.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceQ96DZ5.
GenomeRNAi25999.
NextBio47718.
PROQ96DZ5.
SOURCESearch...

Entry information

Entry nameCLIP3_HUMAN
AccessionPrimary (citable) accession number: Q96DZ5
Secondary accession number(s): A8K0E4 expand/collapse secondary AC list , Q8WWL1, Q96C99, Q9UFT7
Entry history
Integrated into UniProtKB/Swiss-Prot: January 10, 2006
Last sequence update: October 17, 2006
Last modified: July 9, 2014
This is version 114 of the entry and version 3 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

Human polymorphisms and disease mutations

Index of human polymorphisms and disease mutations

Human entries with polymorphisms or disease mutations

List of human entries with polymorphisms or disease mutations

Human chromosome 19

Human chromosome 19: entries, gene names and cross-references to MIM