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Q96DZ5

- CLIP3_HUMAN

UniProt

Q96DZ5 - CLIP3_HUMAN

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Protein
CAP-Gly domain-containing linker protein 3
Gene
CLIP3, CLIPR59
Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

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.1 Publication

GO - Molecular functioni

  1. ganglioside binding Source: UniProtKB
  2. microtubule binding Source: UniProtKB

GO - Biological processi

  1. chaperone-mediated protein transport Source: UniProtKB
  2. fat cell differentiation Source: UniProtKB
  3. membrane biogenesis Source: UniProtKB
  4. negative regulation of microtubule polymerization Source: UniProtKB
  5. peptidyl-L-cysteine S-palmitoylation Source: UniProtKB
  6. positive regulation of apoptotic process Source: UniProtKB
  7. positive regulation of endocytosis Source: UniProtKB
  8. positive regulation of establishment of protein localization to plasma membrane Source: UniProtKB
  9. positive regulation of glucose transport Source: UniProtKB
  10. positive regulation of protein phosphorylation Source: UniProtKB
Complete GO annotation...

Names & Taxonomyi

Protein namesi
Recommended 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 namesi
Name:CLIP3
Synonyms:CLIPR59
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640: Chromosome 19

Organism-specific databases

HGNCiHGNC:24314. CLIP3.

Subcellular locationi

Cell membrane; Lipid-anchor. Cytoplasm. Golgi apparatusGolgi stack
Note: Localized to Golgi stacks as well as on tubulovesicular elements juxtaposed to Golgi cisternae.1 Publication

GO - Cellular componenti

  1. Golgi stack Source: UniProtKB-SubCell
  2. early endosome membrane Source: UniProtKB
  3. membrane raft Source: UniProtKB
  4. plasma membrane Source: UniProtKB
  5. recycling endosome membrane Source: UniProtKB
  6. trans-Golgi network Source: UniProtKB
  7. trans-Golgi network membrane Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Cytoplasm, Golgi apparatus, Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi534 – 5352CC → AA: Strongly reduced plasma membrane association and decrease in the levels of Akt at the plasma membrane. 1 Publication

Organism-specific databases

PharmGKBiPA162382439.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 547547CAP-Gly domain-containing linker protein 3
PRO_0000076212Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Lipidationi534 – 5341S-palmitoyl cysteine1 Publication
Lipidationi535 – 5351S-palmitoyl cysteine1 Publication

Post-translational modificationi

Palmitoylation by ZDHHC17 regulates association with the plasma membrane.1 Publication

Keywords - PTMi

Lipoprotein, Palmitate

Proteomic databases

PaxDbiQ96DZ5.
PRIDEiQ96DZ5.

PTM databases

PhosphoSiteiQ96DZ5.

Expressioni

Gene expression databases

ArrayExpressiQ96DZ5.
BgeeiQ96DZ5.
CleanExiHS_CLIP3.
GenevestigatoriQ96DZ5.

Organism-specific databases

HPAiHPA041429.

Interactioni

Subunit structurei

Homodimer. Interacts with AKT1 and AKT2; when AKT1 and AKT2 are phosphorylated and activated, affinity is higher for AKT2.1 Publication

Protein-protein interaction databases

BioGridi117475. 9 interactions.
STRINGi9606.ENSP00000353732.

Structurei

Secondary structure

Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi288 – 2925
Beta strandi299 – 3024
Turni303 – 3053
Beta strandi306 – 3149
Beta strandi317 – 3193
Beta strandi323 – 3319
Beta strandi337 – 3393
Beta strandi348 – 3503
Beta strandi352 – 3554
Helixi357 – 3593
Beta strandi360 – 3623

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2CP0NMR-A285-366[»]
ProteinModelPortaliQ96DZ5.
SMRiQ96DZ5. Positions 99-238, 286-370, 409-491.

Miscellaneous databases

EvolutionaryTraceiQ96DZ5.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati117 – 15842ANK 1
Add
BLAST
Repeati160 – 19132ANK 2
Add
BLAST
Repeati197 – 22933ANK 3
Add
BLAST
Domaini314 – 35643CAP-Gly 1
Add
BLAST
Domaini436 – 47843CAP-Gly 2
Add
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni488 – 54760GoLD
Add
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi16 – 2510Poly-Glu

Domaini

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

Sequence similaritiesi

Contains 3 ANK repeats.
Contains 2 CAP-Gly domains.

Keywords - Domaini

ANK repeat, Repeat

Phylogenomic databases

eggNOGiCOG5244.
HOGENOMiHOG000007206.
HOVERGENiHBG057079.
InParanoidiQ96DZ5.
KOiK10423.
OMAiDNVGAKK.
OrthoDBiEOG75QR3B.
PhylomeDBiQ96DZ5.
TreeFamiTF326096.

Family and domain databases

Gene3Di1.25.40.20. 1 hit.
2.30.30.190. 2 hits.
InterProiIPR002110. Ankyrin_rpt.
IPR020683. Ankyrin_rpt-contain_dom.
IPR000938. CAP-Gly_domain.
[Graphical view]
PfamiPF12796. Ank_2. 1 hit.
PF01302. CAP_GLY. 2 hits.
[Graphical view]
SMARTiSM00248. ANK. 3 hits.
SM01052. CAP_GLY. 2 hits.
[Graphical view]
SUPFAMiSSF48403. SSF48403. 1 hit.
SSF74924. SSF74924. 2 hits.
PROSITEiPS50297. ANK_REP_REGION. 1 hit.
PS50088. ANK_REPEAT. 1 hit.
PS00845. CAP_GLY_1. 2 hits.
PS50245. CAP_GLY_2. 2 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q96DZ5-1 [UniParc]FASTAAdd to Basket

« Hide

MTKTDPAPMA PPPRGEEEEE EEEDEPVPEA PSPTQERRQK PVVHPSAPAP    50
LPKDYAFTFF DPNDPACQEI LFDPQTTIPE LFAIVRQWVP QVQHKIDVIG 100
NEILRRGCHV NDRDGLTDMT LLHYACKAGA HGVGDPAAAV RLSQQLLALG 150
ADVTLRSRWT NMNALHYAAY FDVPDLVRVL LKGARPRVVN STCSDFNHGS 200
ALHIAASSLC LGAAKCLLEH GANPALRNRK GQVPAEVVPD PMDMSLDKAE 250
AALVAKELRT LLEEAVPLSC ALPKVTLPNY DNVPGNLMLS ALGLRLGDRV 300
LLDGQKTGTL RFCGTTEFAS GQWVGVELDE PEGKNDGSVG GVRYFICPPK 350
QGLFASVSKI SKAVDAPPSS VTSTPRTPRM DFSRVTGKGR REHKGKKKTP 400
SSPSLGSLQQ RDGAKAEVGD QVLVAGQKQG IVRFYGKTDF APGYWYGIEL 450
DQPTGKHDGS VFGVRYFTCP PRHGVFAPAS RIQRIGGSTD SPGDSVGAKK 500
VHQVTMTQPK RTFTTVRTPK DIASENSISR LLFCCWFPWM LRAEMQS 547
Length:547
Mass (Da):59,560
Last modified:October 17, 2006 - v3
Checksum:iA718D9673EC1CF4B
GO

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti175 – 1751D → V.1 Publication
Corresponds to variant rs17851002 [ dbSNP | Ensembl ].
VAR_027962

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
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.
CCDSiCCDS12486.1.
PIRiT17253.
RefSeqiNP_001186499.1. NM_001199570.1.
NP_056341.1. NM_015526.2.
UniGeneiHs.466539.

Genome annotation databases

EnsembliENST00000360535; ENSP00000353732; ENSG00000105270.
ENST00000593074; ENSP00000466832; ENSG00000105270.
GeneIDi25999.
KEGGihsa:25999.
UCSCiuc002ocz.2. human.

Polymorphism databases

DMDMi116241302.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
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 .
CCDSi CCDS12486.1.
PIRi T17253.
RefSeqi NP_001186499.1. NM_001199570.1.
NP_056341.1. NM_015526.2.
UniGenei Hs.466539.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
2CP0 NMR - A 285-366 [» ]
ProteinModelPortali Q96DZ5.
SMRi Q96DZ5. Positions 99-238, 286-370, 409-491.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 117475. 9 interactions.
STRINGi 9606.ENSP00000353732.

PTM databases

PhosphoSitei Q96DZ5.

Polymorphism databases

DMDMi 116241302.

Proteomic databases

PaxDbi Q96DZ5.
PRIDEi Q96DZ5.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENST00000360535 ; ENSP00000353732 ; ENSG00000105270 .
ENST00000593074 ; ENSP00000466832 ; ENSG00000105270 .
GeneIDi 25999.
KEGGi hsa:25999.
UCSCi uc002ocz.2. human.

Organism-specific databases

CTDi 25999.
GeneCardsi GC19M036505.
H-InvDB HIX0040341.
HGNCi HGNC:24314. CLIP3.
HPAi HPA041429.
MIMi 607382. gene.
neXtProti NX_Q96DZ5.
PharmGKBi PA162382439.
GenAtlasi Search...

Phylogenomic databases

eggNOGi COG5244.
HOGENOMi HOG000007206.
HOVERGENi HBG057079.
InParanoidi Q96DZ5.
KOi K10423.
OMAi DNVGAKK.
OrthoDBi EOG75QR3B.
PhylomeDBi Q96DZ5.
TreeFami TF326096.

Miscellaneous databases

EvolutionaryTracei Q96DZ5.
GenomeRNAii 25999.
NextBioi 47718.
PROi Q96DZ5.
SOURCEi Search...

Gene expression databases

ArrayExpressi Q96DZ5.
Bgeei Q96DZ5.
CleanExi HS_CLIP3.
Genevestigatori Q96DZ5.

Family and domain databases

Gene3Di 1.25.40.20. 1 hit.
2.30.30.190. 2 hits.
InterProi IPR002110. Ankyrin_rpt.
IPR020683. Ankyrin_rpt-contain_dom.
IPR000938. CAP-Gly_domain.
[Graphical view ]
Pfami PF12796. Ank_2. 1 hit.
PF01302. CAP_GLY. 2 hits.
[Graphical view ]
SMARTi SM00248. ANK. 3 hits.
SM01052. CAP_GLY. 2 hits.
[Graphical view ]
SUPFAMi SSF48403. SSF48403. 1 hit.
SSF74924. SSF74924. 2 hits.
PROSITEi PS50297. ANK_REP_REGION. 1 hit.
PS50088. ANK_REPEAT. 1 hit.
PS00845. CAP_GLY_1. 2 hits.
PS50245. CAP_GLY_2. 2 hits.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  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.
    , 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. 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.

Entry informationi

Entry nameiCLIP3_HUMAN
AccessioniPrimary (citable) accession number: Q96DZ5
Secondary accession number(s): A8K0E4
, Q8WWL1, Q96C99, Q9UFT7
Entry historyi
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 statusiReviewed (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.

Miscellaneousi

Miscellaneous

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

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 19
    Human chromosome 19: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  6. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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