CLASP1

gene
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Also known as KIAA0622MAST1

Summary

CLASP1 (cytoplasmic linker associated protein 1, HGNC:17088) is a protein-coding gene on chromosome 2q14.2-q14.3, encoding CLIP-associating protein 1 (Q7Z460). Microtubule plus-end tracking protein that promotes the stabilization of dynamic microtubules.

CLASPs, such as CLASP1, are nonmotor microtubule-associated proteins that interact with CLIPs (e.g., CLIP170; MIM 179838). CLASP1 is involved in the regulation of microtubule dynamics at the kinetochore and throughout the spindle (Maiato et al., 2003 [PubMed 12837247]).

Source: NCBI Gene 23332 — RefSeq curated summary.

At a glance

  • Gene–disease (curated): focal epilepsy (Limited, GenCC) — +1 more curated relationship
  • GWAS associations: 9
  • Clinical variants (ClinVar): 403 total — 10 pathogenic, 9 likely-pathogenic
  • Phenotypes (HPO): 19
  • Druggable target: yes
  • Dosage sensitivity (ClinGen): haploinsufficiency no evidence, triplosensitivity no evidence
  • MANE Select transcript: NM_001395891

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:17088
Approved symbolCLASP1
Namecytoplasmic linker associated protein 1
Location2q14.2-q14.3
Locus typegene with protein product
StatusApproved
AliasesKIAA0622, MAST1
Ensembl geneENSG00000074054
Ensembl biotypeprotein_coding
OMIM605852
Entrez23332

Gene structure

Transcript identifiers

Ensembl transcripts: 49 — 42 protein_coding, 5 retained_intron, 2 protein_coding_CDS_not_defined

ENST00000263710, ENST00000409078, ENST00000418989, ENST00000430234, ENST00000449975, ENST00000452274, ENST00000455322, ENST00000463621, ENST00000472776, ENST00000474065, ENST00000480007, ENST00000485112, ENST00000491646, ENST00000541377, ENST00000696935, ENST00000700754, ENST00000700755, ENST00000877407, ENST00000877408, ENST00000961907, ENST00000961908, ENST00000961909, ENST00000961910, ENST00000961911, ENST00000961912, ENST00000961913, ENST00000961914, ENST00000961915, ENST00000961916, ENST00000961917, ENST00000961918, ENST00000961919, ENST00000961920, ENST00000961921, ENST00000961922, ENST00000961923, ENST00000961924, ENST00000961925, ENST00000961926, ENST00000961927, ENST00000961928, ENST00000961929, ENST00000961930, ENST00000961931, ENST00000961932, ENST00000961933, ENST00000961934, ENST00000961935, ENST00000961936

RefSeq mRNA: 8 — MANE Select: NM_001395891 NM_001142273, NM_001142274, NM_001207051, NM_001378003, NM_001378004, NM_001378005, NM_001395891, NM_015282

CCDS: CCDS92851, CCDS92852, CCDS92853, CCDS92854

Canonical transcript exons

ENST00000696935 — 41 exons

ExonStartEnd
ENSE00000857213121448276121448325
ENSE00000963879121530247121530325
ENSE00001020860121427404121427430
ENSE00001275221121448953121449120
ENSE00001275227121450913121450990
ENSE00001341077121605701121606180
ENSE00001363713121430073121430177
ENSE00001363830121447337121447507
ENSE00001363849121451790121451849
ENSE00001363854121457687121457757
ENSE00001584912121649372121649462
ENSE00001614542121337776121340947
ENSE00002363734121404371121404434
ENSE00002370767121458840121458975
ENSE00002407519121407471121407715
ENSE00002444616121401868121401870
ENSE00003463416121363172121363300
ENSE00003469214121387763121387906
ENSE00003514732121348512121348718
ENSE00003539726121347038121347154
ENSE00003551470121515665121515762
ENSE00003563240121462532121462605
ENSE00003574373121398322121398400
ENSE00003582522121469808121469960
ENSE00003586143121461101121461193
ENSE00003589059121365094121365284
ENSE00003609948121527799121527890
ENSE00003612658121387122121387228
ENSE00003617302121459980121460125
ENSE00003625020121377499121377649
ENSE00003625435121503167121503234
ENSE00003634691121525845121525920
ENSE00003634998121401509121401672
ENSE00003639293121528677121528780
ENSE00003673163121397140121397283
ENSE00003688769121367588121367831
ENSE00003756210121410866121410969
ENSE00003757808121425139121425306
ENSE00003968979121382208121382324
ENSE00003968980121418622121418729
ENSE00003968981121414141121414203

Expression profiles

Bgee: expression breadth ubiquitous, 286 present calls, max score 96.66.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 28.1157 / max 1411.1280, expressed in 1820 samples.

FANTOM5 promoters (11 alternative TSS)

Promoter IDTPM avgSamples expressed
3046320.32711799
304604.15961417
304641.0720680
304580.8142483
304520.6678117
304510.6188113
304490.218276
304590.191560
304540.030515
304570.00833

Top tissues by expression

298 total, by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
cortical plateUBERON:000534396.66gold quality
calcaneal tendonUBERON:000370195.65gold quality
dorsal motor nucleus of vagus nerveUBERON:000287095.54gold quality
adrenal tissueUBERON:001830395.49gold quality
dorsal root ganglionUBERON:000004495.04gold quality
CA1 field of hippocampusUBERON:000388195.01gold quality
postcentral gyrusUBERON:000258194.77gold quality
cerebellar vermisUBERON:000472094.72gold quality
corpus callosumUBERON:000233694.70gold quality
parietal lobeUBERON:000187294.64gold quality
inferior olivary complexUBERON:000212793.88gold quality
lateral nuclear group of thalamusUBERON:000273693.58gold quality
entorhinal cortexUBERON:000272893.57gold quality
superior vestibular nucleusUBERON:000722793.29gold quality
ponsUBERON:000098893.18gold quality
superior frontal gyrusUBERON:000266193.13gold quality
ventral tegmental areaUBERON:000269193.08gold quality
trigeminal ganglionUBERON:000167593.00gold quality
ganglionic eminenceUBERON:000402392.98gold quality
medulla oblongataUBERON:000189692.88gold quality
skeletal muscle tissue of rectus abdominisUBERON:000451192.63gold quality
sural nerveUBERON:001548892.58gold quality
renal medullaUBERON:000036292.51gold quality
substantia nigra pars compactaUBERON:000196592.37gold quality
substantia nigra pars reticulataUBERON:000196692.33gold quality
left ventricle myocardiumUBERON:000656692.08gold quality
inferior vagus X ganglionUBERON:000536391.95gold quality
colonic epitheliumUBERON:000039791.93gold quality
lateral globus pallidusUBERON:000247691.79gold quality
body of tongueUBERON:001187691.69gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 2.

ExperimentMarker?Max mean expression
E-CURD-119yes48.94
E-ANND-3yes5.85

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): KAT5, ZHX2

miRNA regulators (miRDB)

126 targeting CLASP1, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-8485100.0077.574731
HSA-MIR-4262100.0073.263931
HSA-MIR-3613-3P100.0076.367965
HSA-MIR-200B-3P100.0073.312693
HSA-MIR-200C-3P100.0073.352685
HSA-MIR-429100.0073.442698
HSA-MIR-3163100.0077.238605
HSA-MIR-4776-3P100.0068.731340
HSA-MIR-12118100.0065.881270
HSA-MIR-126-5P100.0072.713180
HSA-MIR-4533100.0069.482758
HSA-MIR-181A-5P99.9972.962995
HSA-MIR-181B-5P99.9972.972996
HSA-MIR-181C-5P99.9972.952996
HSA-MIR-181D-5P99.9973.042997
HSA-MIR-548C-3P99.9974.017587
HSA-MIR-371B-5P99.9975.344759
HSA-MIR-548P99.9872.253784
HSA-MIR-6891-5P99.9866.531372
HSA-MIR-3173-3P99.9866.491217
HSA-MIR-373-5P99.9875.364753
HSA-MIR-616-5P99.9875.584775
HSA-MIR-3065-5P99.9771.563281
HSA-MIR-6825-5P99.9669.813431
HSA-MIR-1250-3P99.9670.044038
HSA-MIR-568899.9673.234504
HSA-MIR-365899.9673.874379
HSA-MIR-7-1-3P99.9171.534384
HSA-MIR-7-2-3P99.9171.404394
HSA-MIR-219A-5P99.9173.36735

Functional genomics

ClinGen dosage: haploinsufficiency 0 (no evidence), triplosensitivity 0 (no evidence). ClinGen Gene Dosage Map

Literature-anchored findings (GeneRIF, showing 17)

  • These results suggest that CLASP1 is required at kinetochores to regulate the dynamic behavior of attached microtubules. (PMID:14504462)
  • propose that CLASP1 and CLASP2 can mediate interactions between microtubule plus ends and the cell cortex and act as local rescue factors, possibly through forming a complex with EB1 at microtubule tips (PMID:15631994)
  • A fusion protein of the putative microtubule-binding domain (1-662 out of 1289 residues) of hOrbit1 & GFP was transfected into human cells. The GFP-hOrbit1 N-terminal fragment binds to the newly formed microtubules rather than the pre-formed ones. (PMID:16145243)
  • CLASPs provide apparent stabilization of microtubules by locally reducing the amplitude of growth/shortening episodes at the microtubule ends. (PMID:16866869)
  • Data propose that PRC1 forms a link between stabilization of CLASP1 association with central spindle microtubules and anti-parallel microtubule elongation. (PMID:19561070)
  • A role for microtubules that form at the Golgi membranes is identified in a manner dependent on the microtubule regulators CLASPs. (PMID:19701196)
  • Data show that CLASP1-astrin-Kif2b complex acts as a central switch at kinetochores that defines mitotic progression and promotes fidelity by temporally regulating kinetochore-microtuble attachments. (PMID:20852589)
  • Data show that the tau-related protein MAP4 and the microtubule rescue factor CLASP1 are essential for maintaining spindle position and the correct cell-division axis. (PMID:21822276)
  • Data show that CENP-E-mediated traction forces on misaligned chromosomes are responsible for the irreversible loss of spindle-pole integrity in CLASP1/2-depleted cells. (PMID:22307330)
  • Acute silencing of CLASP1, a +TIP that participates in microtubule stabilization at the cell periphery, impairs trypomastigote internalization without diminishing the capacity for calcium-regulated lysosome exocytosis. (PMID:23107073)
  • findings highlight the common mechanistic use of TOG domains in XMAP215 and CLASP families to regulate MT dynamics and suggest that differential TOG domain architecture may confer distinct functions to these critical cytoskeletal regulators (PMID:23727231)
  • our data suggest a model for mitotic spindle positioning in which RanGTP and CLASP1 cooperate to align the spindle along the long axis of the dividing cell. (PMID:23783028)
  • The epiblast epithelial status was maintained by anchoring microtubules to the basal cortex via CLIP1, a microtubule plus-end tracking protein, and Dystroglycan, a transmembrane protein that bridges the cytoskeleton and basement membrane (BM). (PMID:23940118)
  • Propose that CLASPs couple microtubule organization, vesicle transport and cell interactions with the ECM, establishing a local secretion pathway that facilitates focal adhesion turnover by severing cell-matrix connections. (PMID:24859005)
  • Prickle1 localized to the membrane through its farnesyl moiety, and the membrane localization was necessary for Prickle1 to regulate migration, to bind to CLASPs and LL5beta, and to promote microtubule targeting of focal adhesions. (PMID:27378169)
  • catastrophe inhibition by SLAIN2 and CLASP1 supports mesenchymal cell shape in soft 3D matrices by enabling microtubules to perform a load-bearing function. (PMID:27939686)
  • Differential regulation of single microtubules and bundles by a three-protein module. (PMID:34083810)

Cross-species orthologs

4 orthologs

OrganismSymbolGene ID
danio_rerioENSDARG00000104358
danio_rerioENSDARG00000115906
mus_musculusClasp1ENSMUSG00000064302
rattus_norvegicusClasp1ENSRNOG00000002376

Paralogs (3): CLASP2 (ENSG00000163539), TOGARAM2 (ENSG00000189350), TOGARAM1 (ENSG00000198718)

Protein

Protein identifiers

CLIP-associating protein 1Q7Z460 (reviewed: Q7Z460)

Alternative names: Cytoplasmic linker-associated protein 1, Multiple asters homolog 1, Protein Orbit homolog 1

All UniProt accessions (8): Q7Z460, A0A8V8TLP7, A0A8V8TQK9, A0A8V8TRF6, C9J151, C9JP76, F8WA11, H0Y5T1

UniProt curated annotations — full annotation on UniProt →

Function. Microtubule plus-end tracking protein that promotes the stabilization of dynamic microtubules. Involved in the nucleation of noncentrosomal microtubules originating from the trans-Golgi network (TGN). Required for the polarization of the cytoplasmic microtubule arrays in migrating cells towards the leading edge of the cell. May act at the cell cortex to enhance the frequency of rescue of depolymerizing microtubules by attaching their plus-ends to cortical platforms composed of ERC1 and PHLDB2. This cortical microtubule stabilizing activity is regulated at least in part by phosphatidylinositol 3-kinase signaling. Also performs a similar stabilizing function at the kinetochore which is essential for the bipolar alignment of chromosomes on the mitotic spindle.

Subunit / interactions. Interacts with CLIP2, ERC1, MAPRE1, MAPRE3, microtubules, PHLDB2 and RSN. The interaction with ERC1 may be mediated by PHLDB2. Interacts with GCC2; recruits CLASP1 to Golgi membranes. Interacts with MACF1. Interacts with mtcl2 and MTCL1.

Subcellular location. Cytoplasm. Cytoskeleton. Microtubule organizing center. Centrosome. Chromosome. Centromere. Kinetochore. Spindle. Golgi apparatus. trans-Golgi network.

Similarity. Belongs to the CLASP family.

Isoforms (5)

UniProt IDNamesCanonical?
Q7Z460-11yes
Q7Z460-22
Q7Z460-33
Q7Z460-44
Q7Z460-55

RefSeq proteins (8): NP_001135745, NP_001135746, NP_001193980, NP_001364932, NP_001364933, NP_001364934, NP_001382820, NP_056097 (=MANE)

Domains & families (InterPro)

IDNameType
IPR011989ARM-likeHomologous_superfamily
IPR016024ARM-type_foldHomologous_superfamily
IPR021133HEAT_type_2Repeat
IPR024395CLASP_N_domDomain
IPR034085TOGDomain
IPR048491XMAP215_CLASP_TOGDomain
IPR057546HEAT_GCN1Domain

Pfam: PF12348, PF21040, PF21041, PF23271

UniProt features (104 total): helix 34, modified residue 27, compositionally biased region 10, region of interest 9, splice variant 8, repeat 7, turn 3, sequence conflict 2, chain 1, coiled-coil region 1, sequence variant 1, strand 1

Structure

Experimental structures (PDB)

3 structures.

PDBMethodResolution (Å)
6MQ7X-RAY DIFFRACTION1.78
4K92X-RAY DIFFRACTION2
6MQ5X-RAY DIFFRACTION2.15

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q7Z460-F169.440.45

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Post-translational modifications (27): 246, 545, 548, 558, 559, 568, 600, 636, 646, 647, 649, 656, 684, 688, 695, 705, 711, 714, 787, 797 …

Function

Pathways and Gene Ontology

Reactome pathways

14 pathways

IDPathway
R-HSA-141444Amplification of signal from unattached kinetochores via a MAD2 inhibitory signal
R-HSA-2467813Separation of Sister Chromatids
R-HSA-2500257Resolution of Sister Chromatid Cohesion
R-HSA-2565942Regulation of PLK1 Activity at G2/M Transition
R-HSA-380259Loss of Nlp from mitotic centrosomes
R-HSA-380270Recruitment of mitotic centrosome proteins and complexes
R-HSA-380284Loss of proteins required for interphase microtubule organization from the centrosome
R-HSA-380320Recruitment of NuMA to mitotic centrosomes
R-HSA-428890Role of ABL in ROBO-SLIT signaling
R-HSA-5620912Anchoring of the basal body to the plasma membrane
R-HSA-5663220RHO GTPases Activate Formins
R-HSA-68877Mitotic Prometaphase
R-HSA-8854518AURKA Activation by TPX2
R-HSA-9648025EML4 and NUDC in mitotic spindle formation

MSigDB gene sets: 564 (showing top): GSE45365_NK_CELL_VS_CD8_TCELL_DN, GOBP_MORPHOGENESIS_OF_AN_EPITHELIUM, GOBP_CHROMOSOME_ORGANIZATION, GOBP_ESTABLISHMENT_OF_SPINDLE_ORIENTATION, GOBP_EPITHELIUM_DEVELOPMENT, GOBP_REGULATION_OF_PROTEIN_POLYMERIZATION, GOBP_CYTOPLASMIC_MICROTUBULE_ORGANIZATION, TAATAAT_MIR126, GOBP_ACTIN_FILAMENT_BUNDLE_ORGANIZATION, MYOGENIN_Q6, GOBP_ESTABLISHMENT_OR_MAINTENANCE_OF_CELL_POLARITY, GOBP_REGULATION_OF_MICROTUBULE_BASED_PROCESS, GOBP_REGULATION_OF_WOUND_HEALING, GOBP_VESICLE_LOCALIZATION, GOBP_MICROTUBULE_ANCHORING

GO Biological Process (30): microtubule cytoskeleton organization (GO:0000226), microtubule bundle formation (GO:0001578), obsolete vesicle targeting (GO:0006903), microtubule nucleation (GO:0007020), negative regulation of microtubule depolymerization (GO:0007026), Golgi organization (GO:0007030), mitotic spindle organization (GO:0007052), establishment or maintenance of cell polarity (GO:0007163), exit from mitosis (GO:0010458), positive regulation of epithelial cell migration (GO:0010634), astral microtubule organization (GO:0030953), microtubule organizing center organization (GO:0031023), negative regulation of microtubule polymerization or depolymerization (GO:0031111), positive regulation of microtubule polymerization (GO:0031116), microtubule anchoring (GO:0034453), establishment of mitotic spindle localization (GO:0040001), positive regulation of exocytosis (GO:0045921), establishment of spindle orientation (GO:0051294), cell division (GO:0051301), negative regulation of stress fiber assembly (GO:0051497), regulation of focal adhesion assembly (GO:0051893), basement membrane organization (GO:0071711), positive regulation of extracellular matrix disassembly (GO:0090091), mitotic spindle assembly (GO:0090307), negative regulation of wound healing, spreading of epidermal cells (GO:1903690), regulation of gastrulation (GO:0010470), regulation of epithelial to mesenchymal transition (GO:0010717), establishment of cell polarity (GO:0030010), regulation of microtubule polymerization or depolymerization (GO:0031110), obsolete positive regulation of basement membrane assembly involved in embryonic body morphogenesis (GO:1904261)

GO Molecular Function (6): dystroglycan binding (GO:0002162), microtubule binding (GO:0008017), kinetochore binding (GO:0043515), microtubule plus-end binding (GO:0051010), protein binding (GO:0005515), tubulin binding (GO:0015631)

GO Cellular Component (22): kinetochore (GO:0000776), Golgi apparatus (GO:0005794), centrosome (GO:0005813), microtubule organizing center (GO:0005815), kinetochore microtubule (GO:0005828), cytosol (GO:0005829), spindle microtubule (GO:0005876), cytoplasmic microtubule (GO:0005881), cell cortex (GO:0005938), membrane (GO:0016020), cortical microtubule cytoskeleton (GO:0030981), centrosomal corona (GO:0031592), microtubule plus-end (GO:0035371), basal cortex (GO:0045180), mitotic spindle (GO:0072686), chromosome, centromeric region (GO:0000775), chromosome (GO:0005694), cytoplasm (GO:0005737), spindle (GO:0005819), cytoskeleton (GO:0005856), microtubule (GO:0005874), focal adhesion (GO:0005925)

Reactome top-level categories

Rollup of top-10 pathways:

CategoryPathways
Mitotic Prometaphase3
G2/M Transition2
Centrosome maturation2
Amplification of signal from the kinetochores1
Mitotic Anaphase1
Loss of proteins required for interphase microtubule organization from the centrosome1
Signaling by ROBO receptors1
Assembly of the 9+0 primary cilium1
RHO GTPase Effectors1
M Phase1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
cellular anatomical structure5
microtubule cytoskeleton organization4
intracellular membraneless organelle4
cytoplasm4
microtubule cytoskeleton3
microtubule-based process2
microtubule polymerization2
mitotic cell cycle2
spindle organization2
microtubule cytoskeleton organization involved in mitosis2
cellular process2
establishment of spindle localization2
binding2
spindle2
microtubule2
cytoskeleton organization1
microtubule depolymerization1
negative regulation of microtubule polymerization or depolymerization1
regulation of microtubule depolymerization1
negative regulation of protein depolymerization1
negative regulation of supramolecular fiber organization1
organelle organization1
endomembrane system organization1
mitotic cell cycle phase transition1
mitotic nuclear division1
epithelial cell migration1
regulation of epithelial cell migration1
positive regulation of cell migration1
cytoplasmic microtubule organization1
cellular component organization1
microtubule polymerization or depolymerization1
regulation of microtubule polymerization or depolymerization1
negative regulation of cytoskeleton organization1
positive regulation of microtubule polymerization or depolymerization1
regulation of microtubule polymerization1
positive regulation of protein polymerization1
positive regulation of supramolecular fiber organization1
exocytosis1
regulation of exocytosis1
positive regulation of secretion by cell1

Protein interactions and networks

STRING

1344 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
CLASP1CLASRPQ8N2M8958
CLASP1CLIP1P30622954
CLASP1CLIP2Q9UDT6912
CLASP1KIF2BQ8N4N8901
CLASP1SPAG5Q96R06740
CLASP1CENPEQ02224688
CLASP1MAPRE3Q9UPY8635
CLASP1KNSTRNQ9Y448630
CLASP1PHLDB2Q86SQ0597
CLASP1KIF18AQ8NI77557
CLASP1SLAIN2Q9P270554
CLASP1DCTN1Q14203521
CLASP1KIF2CQ99661519
CLASP1INCENPQ9NQS7510
CLASP1GSK3BP49841507

IntAct

148 interactions, top by confidence:

ABTypeScore
YWHAGCLASP1psi-mi:“MI:0915”(physical association)0.900
YWHAQWDR62psi-mi:“MI:0914”(association)0.830
YWHAHABLIM1psi-mi:“MI:0914”(association)0.800
CLASP1YWHAEpsi-mi:“MI:0915”(physical association)0.650
YWHAGBLTP3Bpsi-mi:“MI:2364”(proximity)0.640
YWHAHPLEKHG3psi-mi:“MI:0914”(association)0.610
YWHABBLTP3Bpsi-mi:“MI:2364”(proximity)0.610
YWHABBLTP3Bpsi-mi:“MI:0914”(association)0.610
YWHAHBLTP3Bpsi-mi:“MI:2364”(proximity)0.570
YWHAGSHTN1psi-mi:“MI:0914”(association)0.560
CLASP1KIF1Bpsi-mi:“MI:0914”(association)0.560
CLASP1KIF1Bpsi-mi:“MI:0915”(physical association)0.560
CLASP1SPAG5psi-mi:“MI:0915”(physical association)0.560
YWHAQIGLC7psi-mi:“MI:0914”(association)0.530
YWHABSHTN1psi-mi:“MI:0914”(association)0.530
YWHAESHTN1psi-mi:“MI:0914”(association)0.530
MIS12SPC24psi-mi:“MI:0914”(association)0.530
YWHAZBLTP3Bpsi-mi:“MI:0914”(association)0.530
BSGBTAF1psi-mi:“MI:0914”(association)0.530
LPAR1TMEM223psi-mi:“MI:0914”(association)0.530
PNMA2CCDC85Cpsi-mi:“MI:0914”(association)0.530
CLASP1Clip2psi-mi:“MI:0915”(physical association)0.520
Clip1CLASP1psi-mi:“MI:0915”(physical association)0.510
CLASP1Clip1psi-mi:“MI:0915”(physical association)0.510
YWHABPLEKHG3psi-mi:“MI:0914”(association)0.480
YWHAQPLEKHG3psi-mi:“MI:0914”(association)0.480

BioGRID (194): CLASP1 (Two-hybrid), CLASP1 (Reconstituted Complex), GCC2 (Co-fractionation), CLASP1 (Affinity Capture-MS), CLIP2 (Affinity Capture-Western), CLASP1 (Affinity Capture-Western), CLASP1 (Proximity Label-MS), CLASP1 (Biochemical Activity), CLASP1 (Proximity Label-MS), CLASP1 (Proximity Label-MS), CLASP1 (Proximity Label-MS), CLASP1 (Proximity Label-MS), CLASP1 (Proximity Label-MS), CLASP1 (Affinity Capture-MS), CLASP1 (Affinity Capture-MS)

ESM2 similar proteins: A0A3Q1LSX9, A1A5G0, A1A5K2, A2A5R2, A2APV2, A2VE70, D3ZYR1, O00203, O04376, O35643, O60308, O75122, P52303, Q05397, Q08AM6, Q08DS7, Q0JRZ9, Q10567, Q13367, Q28FH2, Q32PG1, Q3UQN2, Q4U0G1, Q561M0, Q5R807, Q5ZIW5, Q6NUP7, Q6NXC0, Q6NYW6, Q6ZPF4, Q7TSU1, Q7YRF1, Q7Z460, Q80TV8, Q8BRT1, Q8C0Y0, Q8IVF7, Q8LF36, Q8N7B6, Q8RW96

Diamond homologs: A1A5G0, A1A5K2, O75122, Q4U0G1, Q61J98, Q61QN4, Q6NYW6, Q7Z460, Q80TV8, Q8BRT1, Q99JD4, Q9NBD7, Q9PT63, Q03609, Q61KX5, P32744, Q95YF0, A2AGT5, O94534, Q14008, Q1ZXQ8, Q9VEZ3

SIGNOR signaling

4 interactions.

AEffectBMechanism
TPX2“up-regulates activity”CLASP1binding
CLASP1“up-regulates activity”CLIP1binding
CLASP1“up-regulates activity”CLIP2binding
CLASP1“up-regulates activity”MAPRE1binding

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 147 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.

Reactome pathways:

PathwayPartnersFoldFDR
Activation of BAD and translocation to mitochondria759.9×8e-10
Chk1/Chk2(Cds1) mediated inactivation of Cyclin B:Cdk1 complex752.8×2e-09
SARS-CoV-1 targets host intracellular signalling and regulatory pathways752.8×2e-09
Activation of BH3-only proteins739.0×1e-08
RHO GTPases activate PKNs724.9×2e-07
Intrinsic Pathway for Apoptosis723.0×4e-07
Translocation of SLC2A4 (GLUT4) to the plasma membrane1220.8×9e-11
RHO GTPases activate IQGAPs519.4×6e-05

GO biological processes:

GO termPartnersFoldFDR
positive regulation of microtubule polymerization527.9×2e-04
protein targeting515.1×3e-03
non-motile cilium assembly512.0×7e-03
mitotic spindle organization511.2×8e-03
microtubule cytoskeleton organization1010.0×3e-05
intracellular protein localization108.7×8e-05
mitotic cell cycle77.7×5e-03
cell division155.7×3e-05

Disease & clinical

Clinical variants and AI predictions

ClinVar

403 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic10
Likely pathogenic9
Uncertain significance286
Likely benign22
Benign13

Top pathogenic / likely-pathogenic (19)

Variant IDHGVSClassification
1341988GRCh37/hg19 2q14.2-14.3(chr2:120628484-127658188)x1Pathogenic
1808683GRCh37/hg19 2q14.2-14.3(chr2:121241775-126487783)x1Pathogenic
2498871GRCh37/hg19 2q14.2(chr2:121981917-122363471)x1Pathogenic
2813456NC_000002.12:g.121531003G>TPathogenic
30179NR_023343.3(RNU4ATAC):n.55G>APathogenic
30181NC_000002.12:g.121530990G>APathogenic
4682547GRCh37/hg19 2q14.2-14.3(chr2:120941682-124792343)x1Pathogenic
636959NR_023343.3(RNU4ATAC):n.46G>APathogenic
977779NR_023343.3(RNU4ATAC):n.120T>GPathogenic
977780NR_023343.3(RNU4ATAC):n.114G>CPathogenic
1224468NR_023343.3(RNU4ATAC):n.124delGLikely pathogenic
30180NR_023343.1:n.30G>ALikely pathogenic
30182NC_000002.12:g.121530929G>CLikely pathogenic
3771898NR_023343.3(RNU4ATAC):n.38A>TLikely pathogenic
4699372NR_023343.3(RNU4ATAC):n.33C>GLikely pathogenic
692040NM_001395891.1(CLASP1):c.196-562G>TLikely pathogenic
812960NC_000002.12:g.121530995A>TLikely pathogenic
977856NR_023343.3(RNU4ATAC):n.46G>TLikely pathogenic
977869NR_023343.3(RNU4ATAC):n.29T>GLikely pathogenic

SpliceAI

12709 predictions. Top by Δscore:

VariantEffectΔscore
19:12847288:A:AGacceptor_gain1.0000
19:12847289:G:GAacceptor_gain1.0000
19:12847289:GT:Gacceptor_gain1.0000
19:12847289:GTC:Gacceptor_gain1.0000
19:12847289:GTCCT:Gacceptor_gain1.0000
19:12847401:G:GTdonor_gain1.0000
19:12847446:CTCAG:Cdonor_loss1.0000
19:12847447:TCAG:Tdonor_loss1.0000
19:12847448:CAG:Cdonor_loss1.0000
19:12847449:AGG:Adonor_loss1.0000
19:12847451:G:GAdonor_loss1.0000
19:12847452:T:Adonor_loss1.0000
19:12847609:CA:Cacceptor_loss1.0000
19:12847610:A:AGacceptor_gain1.0000
19:12847611:G:GAacceptor_gain1.0000
19:12847611:GC:Gacceptor_gain1.0000
19:12847611:GCC:Gacceptor_gain1.0000
19:12847611:GCCC:Gacceptor_gain1.0000
19:12847611:GCCCC:Gacceptor_gain1.0000
19:12847674:A:Tdonor_gain1.0000
19:12847843:CGCA:Cacceptor_loss1.0000
19:12847844:GCA:Gacceptor_loss1.0000
19:12847847:GGCC:Gacceptor_gain1.0000
19:12848054:AGAC:Adonor_gain1.0000
19:12848054:AGACG:Adonor_loss1.0000
19:12848055:GAC:Gdonor_gain1.0000
19:12848055:GACG:Gdonor_gain1.0000
19:12848055:GACGT:Gdonor_loss1.0000
19:12848056:AC:Adonor_gain1.0000
19:12848056:ACGTG:Adonor_loss1.0000

AlphaMissense

10153 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
2:121340918:C:AR1520S1.000
2:121340918:C:GR1520S1.000
2:121340919:C:AR1520M1.000
2:121340937:A:GL1514P1.000
2:121340940:A:GL1513P1.000
2:121347051:A:GL1506P1.000
2:121347060:A:GL1503P1.000
2:121347072:A:GL1499P1.000
2:121347109:A:GC1487R1.000
2:121347110:A:CF1486L1.000
2:121347110:A:TF1486L1.000
2:121347112:A:GF1486L1.000
2:121347114:A:TV1485E1.000
2:121347116:G:CS1484R1.000
2:121347116:G:TS1484R1.000
2:121347118:T:GS1484R1.000
2:121347122:C:AK1482N1.000
2:121347122:C:GK1482N1.000
2:121347124:T:CK1482E1.000
2:121347126:C:GR1481P1.000
2:121347127:G:TR1481S1.000
2:121348600:G:TA1442D1.000
2:121348606:A:GL1440P1.000
2:121348645:A:GL1427P1.000
2:121348705:G:TA1407D1.000
2:121348706:C:GA1407P1.000
2:121363200:A:GL1393P1.000
2:121365116:A:GL1352P1.000
2:121365119:A:GL1351P1.000
2:121365122:A:GL1350P1.000

dbSNP variants (sampled 300 via entrez): RS1000004283 (2:121546749 G>A), RS1000006224 (2:121446975 G>A,T), RS1000010563 (2:121411685 A>C,G,T), RS1000011268 (2:121379143 A>G), RS1000014259 (2:121553841 G>A), RS1000033694 (2:121405431 G>A), RS1000071790 (2:121344953 T>C), RS1000099927 (2:121463766 T>C), RS1000118892 (2:121507816 A>G,T), RS1000122574 (2:121483587 C>G,T), RS1000146263 (2:121373264 T>C), RS1000150228 (2:121598703 T>C), RS1000151346 (2:121578489 GGAGGCC>G), RS1000152458 (2:121493156 A>C), RS1000154460 (2:121623355 G>A)

Disease associations

OMIM: gene MIM:605852 | disease phenotypes: MIM:210710, MIM:226960, MIM:300258, MIM:616651, MIM:183900, MIM:123100, MIM:236600

GenCC curated gene-disease

DiseaseClassificationInheritance
focal epilepsyLimitedAutosomal dominant
complex neurodevelopmental disorderNo Known Disease RelationshipAutosomal dominant

Mondo (12): microcephalic osteodysplastic primordial dwarfism type I (MONDO:0008871), Lowry-Wood syndrome (MONDO:0009191), Roifman syndrome (MONDO:0014722), RNU4ATAC spectrum disorder (MONDO:0100558), spondyloepiphyseal dysplasia congenita (MONDO:0008471), microcephaly (MONDO:0001149), cardiomyopathy (MONDO:0004994), craniosynostosis (MONDO:0015469), retinal disorder (MONDO:0005283), hydrocephalus, nonsyndromic, autosomal recessive 1 (MONDO:0009360), focal epilepsy (MONDO:0005384), complex neurodevelopmental disorder (MONDO:0100038)

Orphanet (7): Lowry-Wood syndrome (Orphanet:1824), Microcephalic osteodysplastic primordial dwarfism types I and III (Orphanet:2636), Roifman syndrome (Orphanet:353298), Spondyloepiphyseal dysplasia congenita (Orphanet:94068), Craniosynostosis (Orphanet:1531), Rare cardiomyopathy (Orphanet:167848), Congenital hydrocephalus (Orphanet:2185)

HPO phenotypes

19 total (20 of 19 shown, HPO-id order):

HPOTerm
HP:0000006Autosomal dominant inheritance
HP:0000657Oculomotor apraxia
HP:0001249Intellectual disability
HP:0001250Seizure
HP:0001263Global developmental delay
HP:0001290Generalized hypotonia
HP:0001320Cerebellar vermis hypoplasia
HP:0001321Cerebellar hypoplasia
HP:0001344Absent speech
HP:0002078Truncal ataxia
HP:0002119Ventriculomegaly
HP:0002317Unsteady gait
HP:0002365Hypoplasia of the brainstem
HP:0002540Inability to walk
HP:0003593Infantile onset
HP:0004322Short stature
HP:0007074Thick corpus callosum
HP:0007165Periventricular heterotopia
HP:0009879Simplified gyral pattern
HP:0000252Microcephaly

GWAS associations

9 associations (top):

StudyTraitp-value
GCST004049_10Cough in response to angiotensin-converting enzyme inhibitor drugs1.000000e-09
GCST004049_9Cough in response to angiotensin-converting enzyme inhibitor drugs1.000000e-07
GCST006030_2Chloride levels2.000000e-09
GCST006031_5Potassium levels2.000000e-13
GCST007281_1HDL cholesterol x physical activity interaction (1df test)8.000000e-09
GCST007282_13HDL cholesterol x physical activity interaction (2df test)4.000000e-07
GCST009391_1293Metabolite levels7.000000e-07
GCST010173_105Triglyceride levels8.000000e-09
GCST010204_113Low density lipoprotein cholesterol levels2.000000e-24

EFO canonical traits (8, from GWAS)

EFO IDTrait name
EFO:0005325response to angiotensin-converting enzyme inhibitor
EFO:0009283potassium measurement
EFO:0003940physical activity
EFO:0004612high density lipoprotein cholesterol measurement
EFO:0007805HDL cholesterol change measurement
EFO:0010549xanthosine measurement
EFO:0004530triglyceride measurement
EFO:0004611low density lipoprotein cholesterol measurement

MeSH disease descriptors (8)

DescriptorNameTree numbers
D009202CardiomyopathiesC14.280.238
D003398CraniosynostosesC05.116.099.370.894.232; C05.660.207.240; C05.660.906.364; C16.131.621.207.240; C16.131.621.906.364
D004828Epilepsies, PartialC10.228.140.490.360
D008831MicrocephalyC05.660.207.620; C10.500.507.400.500; C16.131.621.207.620; C16.131.666.507.400.500
D012164Retinal DiseasesC11.768
C537038Lowry Wood syndrome (supp.)
C535866Roifman syndrome (supp.)
C535788Spondyloepiphyseal dysplasia, congenita (supp.)

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (1): CHEMBL5724765 (SINGLE PROTEIN)

PharmGKB: 1 entry (VIP=true, CPIC=false)

PharmGKB variants

1 variants.

VariantGenesLevelScore#Clin annotsDrugs
rs62151109CLASP10.000

CTD chemical–gene interactions

43 total (human), top 30 by PubMed support.

ChemicalActions (top 5)PubMed papers
Benzo(a)pyrenedecreases expression3
Valproic Aciddecreases expression2
GSK-J4increases expression1
FR900359affects phosphorylation1
dicrotophosincreases expression1
2,4,6-tribromophenoldecreases expression1
triphenyl phosphateaffects expression1
alpha-pineneincreases abundance, affects cotreatment, increases oxidation1
bisphenol Aaffects cotreatment, increases methylation1
decabromobiphenyl etherdecreases expression1
arseniteaffects binding, decreases reaction1
butyraldehydedecreases expression1
tetrabromobisphenol Adecreases expression1
potassium chromate(VI)affects cotreatment, decreases expression1
coumarinaffects phosphorylation1
methacrylaldehydeaffects cotreatment, increases oxidation, increases abundance1
epigallocatechin gallateaffects cotreatment, decreases expression1
pentanaldecreases expression1
di-n-butylphosphoric acidaffects expression1
2,3,5-(triglutathion-S-yl)hydroquinoneincreases ADP-ribosylation1
CGP 52608affects binding, increases reaction1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamideaffects cotreatment, increases expression1
pentabrominated diphenyl ether 100increases expression1
hexabrominated diphenyl ether 153decreases expression1
LDN 193189affects cotreatment, increases expression1
Fulvestrantaffects cotreatment, increases methylation1
Acroleinaffects cotreatment, increases oxidation, increases abundance1
Air Pollutantsaffects cotreatment, increases abundance, increases oxidation1
Arsenicaffects methylation1
Caffeineaffects phosphorylation1

ChEMBL screening assays

10 unique, capped per target: 10 binding

Representative assays (with source publication via chembl_document):

Assay IDTypeDescriptionSource paper
CHEMBL5651121BindingBinding affinity to human CLASP1 incubated for 45 mins by Kinobead based pull down assayNVP-BHG712: Effects of Regioisomers on the Affinity and Selectivity toward the EPHrin Family. — ChemMedChem

Cellosaurus cell lines

5 cell lines: 5 cancer cell line

First 10 cell lines (id-ordered, not curated):

CellosaurusNameCategorySex
CVCL_D1M0Abcam K-562 CLASP1 KOCancer cell lineFemale
CVCL_D2IKAbcam Raji CLASP1 KOCancer cell lineMale
CVCL_SJ13HAP1 CLASP1 (-) 1Cancer cell lineMale
CVCL_SJ14HAP1 CLASP1 (-) 2Cancer cell lineMale
CVCL_UQ32Abcam Jurkat CLASP1 KOCancer cell lineMale

Clinical trials (associated diseases)

399 trials via MONDO — disease-level, not drug-specific.

TrialPhaseStatusTitle
NCT00438451PHASE4COMPLETEDStudy on the Treatment of Elderly Patients With Older and Newer Antiepileptic Drugs
NCT00522418PHASE4TERMINATEDStudy Comparing Best Medical Practice With or Without VNS Therapy in Pharmacoresistant Partial Epilepsy Patients
NCT00855738PHASE4COMPLETEDA Prospective, Observational Study On The Effectiveness Of New Antiepileptic Drugs As First Bitherapy In The Daily Clinical Practice
NCT00955357PHASE4COMPLETEDTrial to Assess Lacosamide as the First add-on Anti-epileptic Drug Treatment in Patients With Partial-onset Seizures
NCT01190098PHASE4COMPLETEDRandomized Controlled Trial to Assess Effects of Lacosamide on Sleep and Wake in Adults With Focal Epilepsy
NCT01235403PHASE4COMPLETEDTrial to Assess Optimized Dosage of Lacosamide as add-on Therapy in Patients With Partial Onset Seizure
NCT02208492PHASE4COMPLETEDThe Effects on Cognitive Function of Levetiracetam (Keppra®) Compared to Carbamazepine (Tegretol®, Carmazepine®) as Monotherapy for Children With Partial Seizure; A Multicentric Randomized Controlled Study
NCT03607851PHASE4COMPLETEDEfficacy and Safety of Rapid Titration Protocols of Lacosamide
NCT05748236PHASE4UNKNOWNThe Efficacy and Safety of Lamotrigine Versus Carbamazepine in Focal Epilepsy
NCT07193277PHASE4RECRUITINGButylphthalide for Cognitive Impairment in Elderly Patients With Focal Epilepsy
NCT00348530PHASE4UNKNOWNCarvedilol Versus Verapamil in Chronic Heart Failure Secondary to Non-Ischemic Cardiomyopathy
NCT00371891PHASE4COMPLETEDOntario Multidetector Computed Tomographic (MDCT) Coronary Angiography Study (OMCAS)
NCT00401856PHASE4COMPLETEDCMR to Assess Fibrosis in Cardiomyopathy Using Eplerenone
NCT00559338PHASE4COMPLETEDImpact of Nesiritide Infusion for Decompensated Heart Failure in the Emergency Department
NCT00606775PHASE4UNKNOWNThe Preventive Efficacy of Carvedilol on Cardiac Dysfunction in Duchenne Muscular Dystrophy
NCT00658203PHASE4COMPLETEDClinical Evaluation on Advanced Resynchronization
NCT00701220PHASE4COMPLETEDStatin Therapy for Ischemic and Nonischemic Cardiomyopathy
NCT00800761PHASE4COMPLETEDIntensive Combined Chelation Therapy for Iron-Induced Cardiac Disease in Patients With Thalassemia Major
NCT00806390PHASE4TERMINATEDPrevention of Anthracycline or Trastuzumab Induced Cardiomyopathy by Metoprolol
NCT01006473PHASE4COMPLETEDExercise Training in Chagas Cardiomyopathy
NCT01261065PHASE4COMPLETEDMechanisms of Improvement With Beta-Blocker Treatment in Heart Failure
NCT01345188PHASE4COMPLETEDRanolazine in Ischemic Cardiomyopathy
NCT01868841PHASE4COMPLETED123-I mIBG (AdreView) Heart-to-Mediastinal (H/M) Ratio and SPECT Imaging on a Small Field of View-High Efficiency Cardiac SPECT System
NCT02640846PHASE4UNKNOWNEffects of Levosimendan, Milrinone and Norepinephrine on Left and Right Ventricular Function in Septic Shock
NCT03228823PHASE4UNKNOWNProspective Assessment of Premature Ventricular Contractions Suppression in Cardiomyopathy(PAPS)
NCT04323852PHASE4COMPLETEDCan Vitamin D Reduce Heart Muscle Damage After Bypass Surgery?
NCT05034432PHASE4RECRUITINGThe PIVATAL Study -Study of Ventricular Arrhythmia (VTA) Ablation in Left Ventricular Assist Device (LVAD) Patients
NCT05718128PHASE4RECRUITINGClinical Study of Endocardial Myocardial Biopsy
NCT06964464PHASE4RECRUITINGComparative Effectiveness of Carvedilol Versus Metoprolol Succinate in Heart Failure Patients With an Implantable Cardioverter Defibrillator
NCT00391534PHASE3TERMINATEDEXTENT: EXtended Tolerability and Efficacy of a Novel Formulation of Oxcarbazepine in a Trial in Partial Epilepsy
NCT00522275PHASE3COMPLETEDDetermine Safety and Efficacy of Long-term Oral Lacosamide in Patients With Partial Seizures
NCT00655486PHASE3COMPLETEDStudy to Assess the Long-term Safety of Oral Lacosamide in Subjects With Partial-onset Seizures
NCT00655551PHASE3COMPLETEDSafety of Intravenous Lacosamide Dose Followed by Twice Daily Oral Lacosamide in Subjects With Partial-onset Seizures
NCT00908349PHASE3COMPLETEDSafety and Tolerability of OXC XR as Adjunctive Therapy in Subjects With Refractory Partial Epilepsy
NCT00957047PHASE3COMPLETEDEfficacy and Safety Study of BIA 2-093 in Combination With Other Anti-Epileptic Drugs to Treat Partial Epilepsy
NCT00957372PHASE3COMPLETEDEfficacy and Safety of Eslicarbazepine Acetate as Adjunctive Therapy for Refractory Partial Epilepsy
NCT00957684PHASE3COMPLETEDEfficacy and Safety of Eslicarbazepine Acetate as Adjunctive Therapy for Refractory Partial Seizures
NCT00988429PHASE3COMPLETEDEfficacy and Safety of Eslicarbazepine Acetate (BIA 2-093) as Adjunctive Therapy for Refractory Partial Seizures
NCT02076698PHASE3COMPLETEDDeep Brain Stimulation of the Anterior Nucleus of the Thalamus in Epilepsy
NCT02535091PHASE3COMPLETEDSafety and Pharmacokinetic Study of YKP3089 as Adjunctive Therapy in Subjects With Partial Onset Seizures