FlyBase Gene Report: Dmel\Klp54D

KINESINS -: Kinesin superfamily proteins (KIFs) are microtubule motor proteins which use the hydrolysis of ATP to drive directional movement along microtubules. KIFs possess a well-conserved 360 residue globular head domain which binds and hydrolyses ATP and interacts with microtubules. Many KIFs homodimerize via coiled-coil interactions in the stalk region. KIFs bind cargo through their variable tail regions and are involved in transporting organelles, protein complexes, mRNAs and the movement of spindles and chromosomes during cell division. (Adapted from FBrf0219884).

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the GBrowse view of Dmel\Klp54D or the JBrowse view of Dmel\Klp54D for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)

Isoform displayed:

Pfam protein domains

InterPro name

classification

start

end

Protein Domains (via SMART)

Isoform displayed:

SMART protein domains

InterPro name

classification

start

end

Comments on Gene Model

Gene model reviewed during 5.50

Gene model reviewed during 6.04

gene_with_non_canonical_start_codon ; SO:0001739

Unconventional translation start (GUG) postulated; FlyBase analysis.

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Klp54D-RA

FBtr0306905

NM_001259469

2278

628

Klp54D-RB

FBtr0306906

NM_080144

2359

724

Klp54D-RC

FBtr0340221

NM_001299610

2238

636

Klp54D-RD

FBtr0392907

NM_001316425

2421

727

Klp54D-RE

FBtr0392908

NM_001316426

2421

760

Additional Transcript Data and Comments

Reported size (kB)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

RefSeq ID

GenBank

Klp54D-PA

FBpp0297759

68.8

628

9.46

NP_001246398

AFH08151

Klp54D-PB

FBpp0297760

79.6

724

9.44

NP_524883

AAF57836

Klp54D-PC

FBpp0309196

69.8

636

9.34

NP_001286539

AHN56335

Klp54D-PD

FBpp0352249

80.0

727

9.44

NP_001303354

ALI30183

Klp54D-PE

FBpp0352250

83.5

760

9.43

NP_001303355

ALI30184

Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Crossreferences

InterPro - A database of protein families, domains and functional sites

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Klp54D using the Feature Mapper tool.

External Data

Crossreferences

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

Klp54D_1

Linkouts

Gene Ontology (7 terms)

Molecular Function (4 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (4 terms)

CV Term

Evidence

References

ATP binding

inferred from electronic annotation with InterPro:IPR001752, InterPro:IPR019821

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

ATPase activity

inferred from biological aspect of ancestor with PANTHER:PTN000648413

(assigned by GO_Central )

(Gaudet et al., 2011)

microtubule binding

inferred from biological aspect of ancestor with PANTHER:PTN000648413

(assigned by GO_Central )

(Gaudet et al., 2011)

microtubule motor activity

inferred from biological aspect of ancestor with PANTHER:PTN000648413

(assigned by GO_Central )

(Gaudet et al., 2011)

Biological Process (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

microtubule-based movement

inferred from biological aspect of ancestor with PANTHER:PTN000648413

(assigned by GO_Central )

(Gaudet et al., 2011)

Cellular Component (2 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

kinesin complex

inferred from biological aspect of ancestor with PANTHER:PTN000648413

(assigned by GO_Central )

(Gaudet et al., 2011)

microtubule

inferred from biological aspect of ancestor with PANTHER:PTN000648413

(assigned by GO_Central )

(Gaudet et al., 2011)

Expression Data

Expression Summary Ribbons

Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.

For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.

Transcript Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

Expression Deduced from Reporters

Reporter: PBac{768.FSVS-0}Klp54D^CPTI003686

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult brain cell body rind

(Knowles-Barley, 2011.8.24)

adult gnathal ganglion

(Knowles-Barley, 2011.8.24)

High-Throughput Expression Data

Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\Klp54D in GBrowse 2

RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region

View exonic expression by developmental stage for Dmel\Klp54D

View exonic expression by tissue for Dmel\Klp54D

Bulk Downloads

RNA-Seq RPKM values for all genes

Reference

See Gelbart and Emmert, 2013 for analysis details and data files for all genes.

Developmental Proteome: Life Cycle

Developmental Proteome: Embryogenesis

External Data and Images

Linkouts

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, and Transgenic Constructs

Classical and Insertion Alleles ( 4 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 6 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Klp54D

Transgenic constructs containing regulatory region of Klp54D

Deletions and Duplications ( 0 )

Phenotypes

For more details about a specific phenotype click on the relevant allele symbol.

Lethality

Allele

viable | recessive

Klp54D³

Sterility

Allele

fertile | recessive

Klp54D³

Phenotype manifest in

Allele

meiotic spindle | oogenesis

Klp54D³

Orthologs

Downloads

Download All DIOPT Orthologs

Download All OrthoDB Orthologs

Human Orthologs (via DIOPT v7.1)

Homo sapiens (Human) (10)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\KIF12

14 of 15

Yes

1 of 15

1 of 15

1 of 15

1 of 15

Yes

Hsap\KIF9

1 of 15

Yes

Hsap\KIF15

1 of 15

Yes

Hsap\KIF20A

1 of 15

Hsap\KIF26A

1 of 15

Hsap\KIF26B

1 of 15

Model Organism Orthologs (via DIOPT v7.1)

Mus musculus (laboratory mouse) (9)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\Kif12

13 of 15

Yes

1 of 15

1 of 15

1 of 15

1 of 15

Yes

Mmus\Kif9

1 of 15

Yes

Mmus\Kif15

1 of 15

Yes

Mmus\Kif26a

1 of 15

Mmus\Kif26b

1 of 15

Rattus norvegicus (Norway rat) (8)

Rnor\Kif12

12 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Rnor\Kif9

1 of 13

Yes

Rnor\Kif26a

1 of 13

Rnor\Kif26b

1 of 13

Xenopus tropicalis (Western clawed frog) (6)

Xtro\kif3a

1 of 12

Yes

Xtro\kif3b

1 of 12

Yes

Xtro\kif3c

1 of 12

Yes

Xtro\kif9

1 of 12

Yes

Xtro\kif15

1 of 12

Yes

Xtro\kif26a

1 of 12

Yes

Danio rerio (Zebrafish) (11)

Drer\kif3a

1 of 15

Yes

Drer\kif3cb

1 of 15

Yes

Drer\kif3c

1 of 15

Yes

Drer\kif9

1 of 15

Yes

Drer\kif15

1 of 15

Yes

Drer\kif17

1 of 15

Yes

Drer\kif26aa

1 of 15

Yes

Drer\kif26ab

1 of 15

Yes

Drer\kif26ba

1 of 15

Yes

Drer\kif26bb

1 of 15

Yes

Drer\si:ch211-63b16.4

1 of 15

Yes

Caenorhabditis elegans (Nematode, roundworm) (6)

Cele\klp-10

1 of 15

Yes

Cele\klp-11

1 of 15

Yes

Cele\klp-18

1 of 15

Yes

Cele\klp-20

1 of 15

Yes

Cele\osm-3

1 of 15

Yes

Cele\vab-8

1 of 15

Yes

Arabidopsis thaliana (thale-cress) (2)

Atha\AT4G26660

1 of 9

Yes

Atha\AT5G55520

1 of 9

Yes

Saccharomyces cerevisiae (Brewer's yeast) (0)

No records found.

Schizosaccharomyces pombe (Fission yeast) (0)

No records found.

Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG0919040U )

Organism

Common Name

Gene

AAA Syntenic Ortholog

Multiple Dmel Genes in this Orthologous Group

Drosophila suzukii

Spotted wing Drosophila

Drosophila simulans

Drosophila sechellia

Drosophila erecta

Drosophila yakuba

Drosophila ananassae

Drosophila pseudoobscura pseudoobscura

Dpse\GA24738

Drosophila persimilis

Dper\GL11466

Drosophila willistoni

Dwil\GK21901

Drosophila virilis

Dvir\GJ21429

Drosophila mojavensis

Dmoj\GI18360

Drosophila grimshawi

Dgri\GH20922

Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091501UO )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Musca domestica

House fly

Mdoa\17023844

Glossina morsitans

Tsetse fly

Gmor\GMOY001368

Lucilia cuprina

Australian sheep blowfly

Lcup\FF38_07120

Mayetiola destructor

Hessian fly

Mdes\Mdes011623

Aedes aegypti

Yellow fever mosquito

Aaeg\AAEL000773

Anopheles darlingi

American malaria mosquito

Adar\ADAC008379

Anopheles gambiae

Malaria mosquito

Agam\AGAP011874

Culex quinquefasciatus

Southern house mosquito

Cqui\CPIJ001422

Culex quinquefasciatus

Southern house mosquito

Cqui\CPIJ016560

Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W0HP1 )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Bombyx mori

Silkmoth

Bmor\BGIBMGA009884

Danaus plexippus

Monarch butterfly

Dple\DPOGS200831-PA

Heliconius melpomene

Postman butterfly

Hmel\HMEL012629

Apis florea

Little honeybee

Aflo\2178234468

Apis mellifera

Western honey bee

Amel\kinesin-12

Bombus impatiens

Common eastern bumble bee

Bimp\BIMP13937

Bombus terrestris

Buff-tailed bumblebee

Bter\15215341

Linepithema humile

Argentine ant

Lhum\LH12263

Megachile rotundata

Alfalfa leafcutting bee

Mrot\MROTU:000bdc

Dendroctonus ponderosae

Mountain pine beetle

Dpod\YQE_08372

Tribolium castaneum

Red flour beetle

Tcas\TC031474

Pediculus humanus

Human body louse

Phum\PHUM354900

Rhodnius prolixus

Kissing bug

Rpro\RPRC002395

Cimex lectularius

Bed bug

Clec\CLEC001808

Acyrthosiphon pisum

Pea aphid

Apim\ACYPI066810

Zootermopsis nevadensis

Nevada dampwood termite

Znev\Znev_17937

Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X0HRO )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strigamia maritima

European centipede

Smar\SMAR005873

Ixodes scapularis

Black-legged tick

Isca\ISCW020188

Stegodyphus mimosarum

African social velvet spider

Smim\KFM61511.1

Tetranychus urticae

Two-spotted spider mite

Turt\tetur07g06350

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_314281

Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G0SNP )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-Kif12L

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-Kif12

Ciona intestinalis

Vase tunicate

Cint\LOC100179715

Gallus gallus

Domestic chicken

Ggal\KIF12

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v7.1)

Drosophila melanogaster (Fruit fly) (27)

Gene Symbol

Score

Source

Alignment

3 of 10

3 of 10

3 of 10

2 of 10

2 of 10

2 of 10

2 of 10

cos

2 of 10

Khc-73

2 of 10

Khc

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

ncd

2 of 10

neb

2 of 10

nod

2 of 10

pav

2 of 10

sub

2 of 10

unc-104

2 of 10

CG5004

1 of 10

Gγ1

1 of 10

Human Disease Associations

FlyBase Human Disease Model Reports

Disease Model Summary Ribbon

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 0 )

Allele

Disease

Evidence

References

Potential Models Based on Orthology ( 0 )

Human Ortholog

Disease

Evidence

References

Modifiers Based on Experimental Evidence ( 0 )

Allele

Disease

Interaction

References

Disease Associations of Human Orthologs (via DIOPT v7.1 and OMIM)

Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.

Homo sapiens (Human)

Gene name

Score

OMIM

OMIM Phenotype

DO term

Complementation?

Transgene?

KIF12; kinesin family member 12

14 of 15

611278

Functional Complementation Data

Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.

Interactions

Summary of Physical Interactions

esyN Network Diagram

Interactions Browser

Summary of Genetic Interactions

esyN Network Diagram

esyN Network Key:

Suppression

Enhancement

View in Interactions Browser

Please look at the allele data for full details of the genetic interactions

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Klp61F

suppressible

Klp54D

(Radford et al., 2017)

External Data

Linkouts

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-83

Cytogenetic map

54C5-54C8

Sequence location

2R:17,557,031..17,563,406 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

54C5-54C8

Limits computationally determined from genome sequence between P{EP}MESR4^EP386&P{EP}POSH^EP1206 and P{PZ}l(2)10505¹⁰⁵⁰⁵

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

2-83

(FlyBase, 2016)

2-86.2

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (7)

Bloomington

63533

y¹ v¹; P{TRiP.HMJ30099}attP40/CyO

43077

y¹ w^*; Mi{MIC}Klp54D^MI06670

59114

y¹ w^*; Mi{MIC}Klp54D^MI13125

36577

y¹ sc^* v¹ sev²¹; P{TRiP.GL00537}attP2

84026

y¹ sc^* v¹ sev²¹; P{TKO.GS04368}attP40

Kyoto

115439

w¹¹¹⁸; PBac{768.FSVS-0}Klp54D^CPTI003686

VDRC

v100140

P{KK105004}VIE-260B

Genomic Clones (26)

Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

cDNA Clones (2)

Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see GBrowse for alignment of the cDNAs and ESTs to the gene model.

cDNA clones, fully sequences

BDGP DGC clones

Other clones

MIP14187

Drosophila Genomics Resource Center cDNA clones

For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

FBgn0263076

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

DMG4-chr2R.24.005.pred.a

RNAi and Array Information

Linkouts

GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents

47216

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for database merge of

Source for merge of: Klp54D CG15844

(Misra, 2000.4.8)

Additional comments

Annotation CG15844 split into CG43323 (which corresponds to Klp54D) and CG43324 in release 5.36 of the genome annotation.

(FlyBase Genome Annotators, 2011)

Other Comments

dsRNA made from templates generated with primers directed against this gene tested in RNAi screen for effects on Kc167 and S2R⁺ cell morphology.

(Kiger et al., 2003)

Klp54D has been cloned, partially sequenced and its expression pattern analysed.

(Stewart et al., 1991)

Origin and Etymology

Discoverer

Etymology

Identification

External Crossreferences and Linkouts ( 36 )

Sequence Crossreferences

NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.

47216

GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.

GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.

RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.

UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information

Other crossreferences

Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones

FBgn0263076

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

Klp54D_1

GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents

47216

iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)

TC031474

InterPro - A database of protein families, domains and functional sites

KEGG Genes - Molecular building blocks of life in the genomic space.

Dmel_CG43323

Synonyms and Secondary IDs (12)

Reported As

Symbol Synonym

CG15844

(Keleman et al., 2009.8.5, Miki et al., 2001, Goldstein and Gunawardena, 2000, Greene, 2000.4.11)

CG43323

(FlyBase Genome Annotators, 2011, Ni et al., 2011.7.19, Perkins et al., 2009)

DmKlp54D

(Hirokawa, 2012, Dagenbach and Endow, 2004)

KIF 12

(Miki et al., 2001)

KIF12

(Hirokawa, 2012.11.20)

KLP1

(Stewart et al., 1991)

KLP54D

(Miki et al., 2005)

Klp1

Klp54D

(Hughes et al., 2018, Radford et al., 2017, Transgenic RNAi Project members, 2017-, Hudry et al., 2016, Matthews et al., 2015, Liang et al., 2014, Hirokawa, 2012.11.20, Long et al., 2008, Stark et al., 2007)

Name Synonyms

Kinesin-like protein 54D

(Long et al., 2008)

Kinesin-like protein at 54D

(Hirokawa, 2012.11.20)

Kinesin4A

(Kollmar, 2015.9.15)

Secondary FlyBase IDs

FBgn0004377
FBgn0034241
FBan0015844
FBgn0263028

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

References (39)

Report Sections

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