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CLIP1 CAP-Gly domain containing linker protein 1 [ Homo sapiens (human) ]

Gene ID: 6249, updated on 7-Dec-2018

Summary

Official Symbol
CLIP1provided by HGNC
Official Full Name
CAP-Gly domain containing linker protein 1provided by HGNC
Primary source
HGNC:HGNC:10461
See related
Ensembl:ENSG00000130779 MIM:179838
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
RSN; CLIP; CYLN1; CLIP170; CLIP-170
Summary
The protein encoded by this gene links endocytic vesicles to microtubules. This gene is highly expressed in Reed-Sternberg cells of Hodgkin disease. Several transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Oct 2011]
Expression
Ubiquitous expression in thyroid (RPKM 36.8), esophagus (RPKM 33.7) and 25 other tissues See more
Orthologs

Genomic context

See CLIP1 in Genome Data Viewer
Location:
12q24.31
Exon count:
30
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 12 NC_000012.12 (122271432..122422956, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (122755981..122907179, complement)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101593348 Neighboring gene diablo IAP-binding mitochondrial protein Neighboring gene VPS33A, CORVET/HOPS core subunit Neighboring gene coiled-coil domain containing 150 pseudogene 1 Neighboring gene ribosomal protein L21 pseudogene 1 Neighboring gene CLIP1 antisense RNA 1 Neighboring gene zinc finger CCHC-type containing 8 Neighboring gene arginine and serine rich coiled-coil 2

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Pathways from BioSystems

  • Cell Cycle, organism-specific biosystem (from REACTOME)
    Cell Cycle, organism-specific biosystem
    Cell Cycle
  • Cell Cycle, Mitotic, organism-specific biosystem (from REACTOME)
    Cell Cycle, Mitotic, organism-specific biosystemThe replication of the genome and the subsequent segregation of chromosomes into daughter cells are controlled by a series of events collectively known as the cell cycle. DNA replication is carried o...
  • Lissencephaly gene (LIS1) in neuronal migration and development, organism-specific biosystem (from Pathway Interaction Database)
    Lissencephaly gene (LIS1) in neuronal migration and development, organism-specific biosystem
    Lissencephaly gene (LIS1) in neuronal migration and development
  • M Phase, organism-specific biosystem (from REACTOME)
    M Phase, organism-specific biosystemMitosis, or the M phase, involves nuclear division and cytokinesis, where two identical daughter cells are produced. Mitosis involves prophase, prometaphase, metaphase, anaphase, and telophase. Fin...
  • Mitotic Anaphase, organism-specific biosystem (from REACTOME)
    Mitotic Anaphase, organism-specific biosystemIn anaphase, the paired chromosomes separate at the centromeres, and move to the opposite sides of the cell. The movement of the chromosomes is facilitated by a combination of kinetochore movement al...
  • Mitotic Metaphase and Anaphase, organism-specific biosystem (from REACTOME)
    Mitotic Metaphase and Anaphase, organism-specific biosystemMetaphase is marked by the formation of the metaphase plate. The metaphase plate is formed when the spindle fibers align the chromosomes along the middle of the cell. Such an organization helps to ...
  • Mitotic Prometaphase, organism-specific biosystem (from REACTOME)
    Mitotic Prometaphase, organism-specific biosystemThe dissolution of the nuclear membrane marks the beginning of the prometaphase. Kinetochores are created when proteins attach to the centromeres. Microtubules then attach at the kinetochores, and th...
  • RHO GTPase Effectors, organism-specific biosystem (from REACTOME)
    RHO GTPase Effectors, organism-specific biosystemRHO GTPases regulate cell behaviour by activating a number of downstream effectors that regulate cytoskeletal organization, intracellular trafficking and transcription (reviewed by Sahai and Marshall...
  • RHO GTPases Activate Formins, organism-specific biosystem (from REACTOME)
    RHO GTPases Activate Formins, organism-specific biosystemFormins are a family of proteins with 15 members in mammals, organized into 8 subfamilies. Formins are involved in the regulation of actin cytoskeleton. Many but not all formin family members are act...
  • RHO GTPases activate IQGAPs, organism-specific biosystem (from REACTOME)
    RHO GTPases activate IQGAPs, organism-specific biosystemIQGAPs constitute a family of scaffolding proteins characterized by a calponin homology (CH) domain, a polyproline binding region (WW domain), a tandem of four IQ (isoleucine and glutamine-rich) repe...
  • Resolution of Sister Chromatid Cohesion, organism-specific biosystem (from REACTOME)
    Resolution of Sister Chromatid Cohesion, organism-specific biosystemThe resolution of sister chromatids in mitotic prometaphase involves removal of cohesin complexes from chromosomal arms, with preservation of cohesion at centromeres (Losada et al. 1998, Hauf et al. ...
  • Separation of Sister Chromatids, organism-specific biosystem (from REACTOME)
    Separation of Sister Chromatids, organism-specific biosystemWhile sister chromatids resolve in prometaphase, separating along chromosomal arms, the cohesion of sister centromeres persists until anaphase. At the anaphase onset, the anaphase promoting complex/c...
  • Signal Transduction, organism-specific biosystem (from REACTOME)
    Signal Transduction, organism-specific biosystemSignal transduction is a process in which extracellular signals elicit changes in cell state and activity. Transmembrane receptors sense changes in the cellular environment by binding ligands, such a...
  • Signaling by Rho GTPases, organism-specific biosystem (from REACTOME)
    Signaling by Rho GTPases, organism-specific biosystemThe Rho family of small guanine nucleotide binding proteins is one of five generally recognized branches of the Ras superfamily. Like most Ras superfamily members, typical Rho proteins function as bi...
  • mTOR signaling pathway, organism-specific biosystem (from KEGG)
    mTOR signaling pathway, organism-specific biosystemThe mammalian (mechanistic) target of rapamycin (mTOR) is a highly conserved serine/threonine protein kinase, which exists in two complexes termed mTOR complex 1 (mTORC1) and 2 (mTORC2). mTORC1 conta...
  • mTOR signaling pathway, organism-specific biosystem (from Pathway Interaction Database)
    mTOR signaling pathway, organism-specific biosystem
    mTOR signaling pathway
  • mTOR signaling pathway, conserved biosystem (from KEGG)
    mTOR signaling pathway, conserved biosystemThe mammalian (mechanistic) target of rapamycin (mTOR) is a highly conserved serine/threonine protein kinase, which exists in two complexes termed mTOR complex 1 (mTORC1) and 2 (mTORC2). mTORC1 conta...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC131604

Gene Ontology Provided by GOA

Function Evidence Code Pubs
metal ion binding NAS
Non-traceable Author Statement
more info
PubMed 
microtubule binding IDA
Inferred from Direct Assay
more info
PubMed 
microtubule plus-end binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein homodimerization activity TAS
Traceable Author Statement
more info
PubMed 
tubulin binding IDA
Inferred from Direct Assay
more info
PubMed 
zinc ion binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
microtubule bundle formation IMP
Inferred from Mutant Phenotype
more info
PubMed 
mitotic cell cycle TAS
Traceable Author Statement
more info
PubMed 
positive regulation of microtubule polymerization IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein transport into plasma membrane raft IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
centrosome IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasmic microtubule IEA
Inferred from Electronic Annotation
more info
 
cytoplasmic vesicle membrane IEA
Inferred from Electronic Annotation
more info
 
cytosol TAS
Traceable Author Statement
more info
 
endosome TAS
Traceable Author Statement
more info
PubMed 
intermediate filament TAS
Traceable Author Statement
more info
PubMed 
kinetochore TAS
Traceable Author Statement
more info
PubMed 
colocalizes_with macropinosome IDA
Inferred from Direct Assay
more info
PubMed 
microtubule IMP
Inferred from Mutant Phenotype
more info
PubMed 
microtubule ISS
Inferred from Sequence or Structural Similarity
more info
 
microtubule cytoskeleton IMP
Inferred from Mutant Phenotype
more info
PubMed 
colocalizes_with microtubule plus-end IDA
Inferred from Direct Assay
more info
PubMed 
nuclear envelope IEA
Inferred from Electronic Annotation
more info
 
ruffle IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
CAP-Gly domain-containing linker protein 1
Names
cytoplasmic linker protein 1
cytoplasmic linker protein 170 alpha-2
cytoplasmic linker protein CLIP-170
restin (Reed-Steinberg cell-expressed intermediate filament-associated protein)

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_030352.1 RefSeqGene

    Range
    5001..156136
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001247997.1NP_001234926.1  CAP-Gly domain-containing linker protein 1 isoform c

    See identical proteins and their annotated locations for NP_001234926.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) represents the longest transcript and encodes the longest isoform (c).
    Source sequence(s)
    AC048338, BC126305, CB305431, M97501
    Consensus CDS
    CCDS58285.1
    UniProtKB/Swiss-Prot
    P30622
    Related
    ENSP00000479322.1, ENST00000620786.4
    Conserved Domains (5) summary
    COG5244
    Location:212812
    NIP100; Dynactin complex subunit involved in mitotic spindle partitioning in anaphase B [Cell cycle control, cell division, chromosome partitioning]
    pfam01302
    Location:215278
    CAP_GLY; CAP-Gly domain
    pfam07851
    Location:567666
    TMPIT; TMPIT-like protein
    pfam10174
    Location:4741255
    Cast; RIM-binding protein of the cytomatrix active zone
    pfam16641
    Location:14161432
    CLIP1_ZNF; CLIP1 zinc knuckle
  2. NM_002956.2NP_002947.1  CAP-Gly domain-containing linker protein 1 isoform a

    See identical proteins and their annotated locations for NP_002947.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) lacks an alternate in-frame exon compared to variant 3. The resulting isoform (a) has the same N- and C-termini but is shorter compared to isoform c.
    Source sequence(s)
    AK126990, BM998166, M97501, X64838
    Consensus CDS
    CCDS9232.1
    UniProtKB/Swiss-Prot
    P30622
    UniProtKB/TrEMBL
    A0A024RBR1, B3KXA5
    Related
    ENSP00000351665.2, ENST00000358808.6
    Conserved Domains (4) summary
    TIGR04523
    Location:4291147
    Mplasa_alph_rch; helix-rich Mycoplasma protein
    pfam01302
    Location:215278
    CAP_GLY; CAP-Gly domain
    pfam07851
    Location:556655
    TMPIT; TMPIT-like protein
    pfam16641
    Location:14051421
    CLIP1_ZNF; CLIP1 zinc knuckle
  3. NM_198240.1NP_937883.1  CAP-Gly domain-containing linker protein 1 isoform b

    See identical proteins and their annotated locations for NP_937883.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks two consecutive alternate in-frame exons compared to variant 3. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform c.
    Source sequence(s)
    AK126990, BM998166, M97501, X64838
    Consensus CDS
    CCDS9233.1
    UniProtKB/Swiss-Prot
    P30622
    UniProtKB/TrEMBL
    B3KXA5
    Related
    ENSP00000445531.1, ENST00000537178.5
    Conserved Domains (5) summary
    COG1196
    Location:6091250
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    COG5244
    Location:212866
    NIP100; Dynactin complex subunit involved in mitotic spindle partitioning in anaphase B [Cell cycle control, cell division, chromosome partitioning]
    pfam01302
    Location:215278
    CAP_GLY; CAP-Gly domain
    pfam07851
    Location:521620
    TMPIT; TMPIT-like protein
    pfam16641
    Location:13701386
    CLIP1_ZNF; CLIP1 zinc knuckle

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p12 Primary Assembly

    Range
    122271432..122422956 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017019790.1XP_016875279.1  CAP-Gly domain-containing linker protein 1 isoform X6

    UniProtKB/Swiss-Prot
    P30622
    Conserved Domains (5) summary
    COG1196
    Location:6091250
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    COG5244
    Location:212866
    NIP100; Dynactin complex subunit involved in mitotic spindle partitioning in anaphase B [Cell cycle control, cell division, chromosome partitioning]
    pfam01302
    Location:215278
    CAP_GLY; CAP-Gly domain
    pfam07851
    Location:521620
    TMPIT; TMPIT-like protein
    pfam16641
    Location:13701386
    CLIP1_ZNF; CLIP1 zinc knuckle
  2. XM_017019788.2XP_016875277.1  CAP-Gly domain-containing linker protein 1 isoform X5

  3. XM_017019791.2XP_016875280.1  CAP-Gly domain-containing linker protein 1 isoform X7

  4. XM_006719552.4XP_006719615.1  CAP-Gly domain-containing linker protein 1 isoform X2

    Conserved Domains (4) summary
    TIGR04523
    Location:4291147
    Mplasa_alph_rch; helix-rich Mycoplasma protein
    pfam01302
    Location:215278
    CAP_GLY; CAP-Gly domain
    pfam07851
    Location:556655
    TMPIT; TMPIT-like protein
    pfam16641
    Location:14071423
    CLIP1_ZNF; CLIP1 zinc knuckle
  5. XM_017019787.2XP_016875276.1  CAP-Gly domain-containing linker protein 1 isoform X4

  6. XM_005253593.3XP_005253650.1  CAP-Gly domain-containing linker protein 1 isoform X1

    Conserved Domains (5) summary
    COG5244
    Location:212812
    NIP100; Dynactin complex subunit involved in mitotic spindle partitioning in anaphase B [Cell cycle control, cell division, chromosome partitioning]
    pfam01302
    Location:215278
    CAP_GLY; CAP-Gly domain
    pfam07851
    Location:567666
    TMPIT; TMPIT-like protein
    pfam10174
    Location:4741255
    Cast; RIM-binding protein of the cytomatrix active zone
    pfam16641
    Location:14181434
    CLIP1_ZNF; CLIP1 zinc knuckle
  7. XM_017019792.2XP_016875281.1  CAP-Gly domain-containing linker protein 1 isoform X8

  8. XM_017019786.1XP_016875275.1  CAP-Gly domain-containing linker protein 1 isoform X3

    UniProtKB/Swiss-Prot
    P30622
    UniProtKB/TrEMBL
    A0A024RBR1
    Conserved Domains (4) summary
    TIGR04523
    Location:4291147
    Mplasa_alph_rch; helix-rich Mycoplasma protein
    pfam01302
    Location:215278
    CAP_GLY; CAP-Gly domain
    pfam07851
    Location:556655
    TMPIT; TMPIT-like protein
    pfam16641
    Location:14051421
    CLIP1_ZNF; CLIP1 zinc knuckle
  9. XM_017019789.1XP_016875278.1  CAP-Gly domain-containing linker protein 1 isoform X5

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