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Protein

Dynamin

Gene

dyn-1

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Microtubule-associated force-producing protein involved in producing microtubule bundles and able to bind and hydrolyze GTP. Most probably involved in vesicular trafficking processes, in particular endocytosis (By similarity). Required for coelomocyte endocytosis (PubMed:20803083). Involved in apoptotic cell phagocytosis (PubMed:21490059). Required for recruitment of phosphatidylinositol 3-kinase piki-1 to phagosomes (PubMed:22272187). May play a role in rab-5 recruitment to cell-corpses-containing phagosomes but not to endosomes (PubMed:18425118). Required for embryonic and larval development (PubMed:9294229, PubMed:21490059, PubMed:20803083).By similarity4 Publications

Catalytic activityi

GTP + H2O = GDP + phosphate.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi40 – 48GTPBy similarity9
Nucleotide bindingi207 – 213GTPBy similarity7
Nucleotide bindingi238 – 241GTPBy similarity4

GO - Molecular functioni

  • GTPase activity Source: WormBase
  • GTP binding Source: UniProtKB-KW
  • microtubule binding Source: GO_Central

GO - Biological processi

  • dynamin family protein polymerization involved in mitochondrial fission Source: GO_Central
  • embryo development ending in birth or egg hatching Source: WormBase
  • endocytosis Source: WormBase
  • locomotion Source: WormBase
  • membrane fusion Source: GO_Central
  • mitochondrial fission Source: GO_Central
  • phagosome maturation involved in apoptotic cell clearance Source: WormBase
  • positive regulation of necrotic cell death Source: WormBase
  • receptor internalization Source: GO_Central
  • receptor-mediated endocytosis Source: WormBase
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase, Motor protein

Keywords - Biological processi

Endocytosis, Phagocytosis

Keywords - Ligandi

GTP-binding, Nucleotide-binding

Enzyme and pathway databases

BRENDAi3.6.5.5. 1045.
ReactomeiR-CEL-432720. Lysosome Vesicle Biogenesis.
R-CEL-432722. Golgi Associated Vesicle Biogenesis.
R-CEL-437239. Recycling pathway of L1.
R-CEL-8856828. Clathrin-mediated endocytosis.

Names & Taxonomyi

Protein namesi
Recommended name:
Dynamin (EC:3.6.5.5)
Gene namesi
Name:dyn-1
ORF Names:C02C6.1
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
Proteomesi
  • UP000001940 Componenti: Chromosome X

Organism-specific databases

WormBaseiC02C6.1a; CE07833; WBGene00001130; dyn-1.
C02C6.1b; CE07832; WBGene00001130; dyn-1.

Subcellular locationi

GO - Cellular componenti

  • apical part of cell Source: WormBase
  • axon Source: WormBase
  • cleavage furrow Source: WormBase
  • cytoplasmic vesicle Source: WormBase
  • midbody Source: WormBase
  • mitochondrial membrane Source: GO_Central
  • periciliary membrane compartment Source: WormBase
  • phagocytic cup Source: WormBase
  • phagocytic vesicle Source: WormBase
  • phagocytic vesicle membrane Source: UniProtKB-SubCell
  • presynaptic active zone Source: WormBase
  • pseudopodium Source: WormBase
  • spindle microtubule Source: WormBase
  • synapse Source: WormBase
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Cytoplasmic vesicle, Cytoskeleton, Membrane, Microtubule

Pathology & Biotechi

Disruption phenotypei

RNAi-mediated knockdown causes abnormal accumulation of apoptotic cell corpses in early phagosomes in gonads.1 Publication

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi70P → S in dy51; temperature sensitive mutant which at the restrictive temperature of 25 degrees Celsius displays uncoordinated movements, reduced pharyngeal pumping rate, prolonged defecation cycle, an egg-laying defect and embryonic lethality of the progeny. Accumulates of apoptotic cell corpses in abnormally enlarged early phagosomes prior to rab-5 recruitment. Decreases rab-5 recruitment to phagosomes. Impaired coelomocyte endocytosis. 3 Publications1
Mutagenesisi204G → E in n4039; loss of apoptotic cell engulfment. Embryos fail to hatch. Loss of piki-1 recruitment to the nascent phagosome during apoptotic cell corpse engulfment. 2 Publications1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002065751 – 830DynaminAdd BLAST830

Proteomic databases

PaxDbiP39055.
PeptideAtlasiP39055.
PRIDEiP39055.

Expressioni

Tissue specificityi

Expressed in motor neurons in the head and in ventral nerve cord and, to a lesser extent, in sensory neurons in the nerve ring and the tail and interneurons. Expressed in pharyngeal-intestinal valve, intestinal-rectal valve and in intestinal cells.1 Publication

Gene expression databases

BgeeiWBGene00001130.
ExpressionAtlasiP39055. baseline and differential.

Interactioni

Subunit structurei

May be a component of a complex composed of rab-5 (in GDP-bound form), dyn-1 and vps-34 (PubMed:18425118). Interacts with tax-6 (PubMed:20803083).1 Publication1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
B0303.7P342584EBI-317945,EBI-322705
gei-18Q7K7J03EBI-317945,EBI-2315822
lst-4Q8I4E24EBI-317945,EBI-4325777
Y37A1B.17G5ECK44EBI-317945,EBI-6533538

GO - Molecular functioni

Protein-protein interaction databases

BioGridi46538. 4 interactors.
IntActiP39055. 20 interactors.
MINTiMINT-230275.
STRINGi6239.C02C6.1b.

Structurei

3D structure databases

ProteinModelPortaliP39055.
SMRiP39055.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini30 – 296Dynamin-type GAdd BLAST267
Domaini519 – 624PHPROSITE-ProRule annotationAdd BLAST106
Domaini653 – 744GEDPROSITE-ProRule annotationAdd BLAST92

Sequence similaritiesi

Contains 1 GED domain.PROSITE-ProRule annotation
Contains 1 PH domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG0446. Eukaryota.
COG0699. LUCA.
GeneTreeiENSGT00760000119213.
HOGENOMiHOG000161069.
InParanoidiP39055.
KOiK01528.
OMAiLRECETH.
OrthoDBiEOG091G0EIQ.
PhylomeDBiP39055.

Family and domain databases

Gene3Di2.30.29.30. 1 hit.
3.40.50.300. 1 hit.
InterProiIPR000375. Dynamin_central.
IPR001401. Dynamin_GTPase.
IPR019762. Dynamin_GTPase_CS.
IPR022812. Dynamin_SF.
IPR030381. G_DYNAMIN_dom.
IPR003130. GED.
IPR020850. GED_dom.
IPR027417. P-loop_NTPase.
IPR011993. PH_dom-like.
IPR001849. PH_domain.
[Graphical view]
PANTHERiPTHR11566. PTHR11566. 1 hit.
PfamiPF01031. Dynamin_M. 1 hit.
PF00350. Dynamin_N. 1 hit.
PF02212. GED. 1 hit.
PF00169. PH. 1 hit.
[Graphical view]
PRINTSiPR00195. DYNAMIN.
SMARTiSM00053. DYNc. 1 hit.
SM00302. GED. 1 hit.
SM00233. PH. 1 hit.
[Graphical view]
SUPFAMiSSF50729. SSF50729. 1 hit.
SSF52540. SSF52540. 1 hit.
PROSITEiPS00410. G_DYNAMIN_1. 1 hit.
PS51718. G_DYNAMIN_2. 1 hit.
PS51388. GED. 1 hit.
PS50003. PH_DOMAIN. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform a (identifier: P39055-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MSWQNQGMQA LIPVINRVQD AFSQLGTSVS FELPQIAVVG GQSAGKSSVL
60 70 80 90 100
ENFVGKDFLP RGSGIVTRRP LILQLIQDRN EYAEFLHKKG HRFVDFDAVR
110 120 130 140 150
KEIEDETDRV TGQNKGISPH PINLRVFSPN VLNLTLIDLP GLTKVPVGDQ
160 170 180 190 200
PADIEQQIRD MILTFINRET CLILAVTPAN SDLATSDALK LAKEVDPQGL
210 220 230 240 250
RTIGVLTKLD LMDEGTDARE ILENKLFTLR RGYVGVVNRG QKDIVGRKDI
260 270 280 290 300
RAALDAERKF FISHPSYRHM ADRLGTSYLQ HTLNQQLTNH IRDTLPTLRD
310 320 330 340 350
SLQKKMFAME KDVAEYKNYQ PNDPGRKTKA LLQMVTQFNA DIERSIEGSS
360 370 380 390 400
AKLVSTNELS GGARINRLFH ERFPFEIVKM EIDEKEMRKE IQYAIRNIHG
410 420 430 440 450
IRVGLFTPDM AFEAIAKKQI TRLKEPSLKC VDLVVNELAN VIRQCADTMA
460 470 480 490 500
RYPRLRDELE RIVVSHMRER EQIAKQQIGL IVDYELAYMN TNHEDFIGFS
510 520 530 540 550
NAEAKASQGQ SAKKNLGNQV IRKGWLSLSN VSFVRGSKDN WFVLMSDSLS
560 570 580 590 600
WYKDDEEKEK KYMLPLDGVK LKDIEGGFMS RNHKFALFYP DGKNIYKDYK
610 620 630 640 650
QLELGCTNLD EIDAWKASFL RAGVYPEKQK AQEDESQQEM EDTSIDPQLE
660 670 680 690 700
RQVETIRNLV DSYMRIITKT IKDLVPKAVM HLIVNQTGEF MKDELLAHLY
710 720 730 740 750
QCGDTDALME ESQIEAQKRE EMLRMYHACK EALRIISEVN MSTLGDQPPP
760 770 780 790 800
LPMSDYRPHP SGPSPVPRPA PAPPGGRQAP MPPRGGPGAP PPPGMRPPPG
810 820 830
APGGGGGMYP PLIPTRPGPG GPPPNMAPPR
Length:830
Mass (Da):93,407
Last modified:May 27, 2002 - v3
Checksum:iFF681250E51AB8A5
GO
Isoform b (identifier: P39055-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     817-830: PGPGGPPPNMAPPR → VPTPSNGAPEIPARPQVPKRPF

Note: No experimental confirmation available.
Show »
Length:838
Mass (Da):94,421
Checksum:i78F89B6EA555B689
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti734R → P in AAB72228 (PubMed:9294229).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_001329817 – 830PGPGG…MAPPR → VPTPSNGAPEIPARPQVPKR PF in isoform b. CuratedAdd BLAST14

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L29031 mRNA. Translation: AAB72228.2.
Z79596 Genomic DNA. Translation: CAB01857.1.
Z79596 Genomic DNA. Translation: CAC42251.1.
PIRiT18860.
RefSeqiNP_001024331.1. NM_001029160.2. [P39055-1]
NP_001024332.1. NM_001029161.2. [P39055-2]
UniGeneiCel.19561.

Genome annotation databases

EnsemblMetazoaiC02C6.1a; C02C6.1a; WBGene00001130. [P39055-1]
GeneIDi181644.
KEGGicel:CELE_C02C6.1.
UCSCiC02C6.1b. c. elegans. [P39055-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L29031 mRNA. Translation: AAB72228.2.
Z79596 Genomic DNA. Translation: CAB01857.1.
Z79596 Genomic DNA. Translation: CAC42251.1.
PIRiT18860.
RefSeqiNP_001024331.1. NM_001029160.2. [P39055-1]
NP_001024332.1. NM_001029161.2. [P39055-2]
UniGeneiCel.19561.

3D structure databases

ProteinModelPortaliP39055.
SMRiP39055.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi46538. 4 interactors.
IntActiP39055. 20 interactors.
MINTiMINT-230275.
STRINGi6239.C02C6.1b.

Proteomic databases

PaxDbiP39055.
PeptideAtlasiP39055.
PRIDEiP39055.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaiC02C6.1a; C02C6.1a; WBGene00001130. [P39055-1]
GeneIDi181644.
KEGGicel:CELE_C02C6.1.
UCSCiC02C6.1b. c. elegans. [P39055-1]

Organism-specific databases

CTDi181644.
WormBaseiC02C6.1a; CE07833; WBGene00001130; dyn-1.
C02C6.1b; CE07832; WBGene00001130; dyn-1.

Phylogenomic databases

eggNOGiKOG0446. Eukaryota.
COG0699. LUCA.
GeneTreeiENSGT00760000119213.
HOGENOMiHOG000161069.
InParanoidiP39055.
KOiK01528.
OMAiLRECETH.
OrthoDBiEOG091G0EIQ.
PhylomeDBiP39055.

Enzyme and pathway databases

BRENDAi3.6.5.5. 1045.
ReactomeiR-CEL-432720. Lysosome Vesicle Biogenesis.
R-CEL-432722. Golgi Associated Vesicle Biogenesis.
R-CEL-437239. Recycling pathway of L1.
R-CEL-8856828. Clathrin-mediated endocytosis.

Miscellaneous databases

PROiP39055.

Gene expression databases

BgeeiWBGene00001130.
ExpressionAtlasiP39055. baseline and differential.

Family and domain databases

Gene3Di2.30.29.30. 1 hit.
3.40.50.300. 1 hit.
InterProiIPR000375. Dynamin_central.
IPR001401. Dynamin_GTPase.
IPR019762. Dynamin_GTPase_CS.
IPR022812. Dynamin_SF.
IPR030381. G_DYNAMIN_dom.
IPR003130. GED.
IPR020850. GED_dom.
IPR027417. P-loop_NTPase.
IPR011993. PH_dom-like.
IPR001849. PH_domain.
[Graphical view]
PANTHERiPTHR11566. PTHR11566. 1 hit.
PfamiPF01031. Dynamin_M. 1 hit.
PF00350. Dynamin_N. 1 hit.
PF02212. GED. 1 hit.
PF00169. PH. 1 hit.
[Graphical view]
PRINTSiPR00195. DYNAMIN.
SMARTiSM00053. DYNc. 1 hit.
SM00302. GED. 1 hit.
SM00233. PH. 1 hit.
[Graphical view]
SUPFAMiSSF50729. SSF50729. 1 hit.
SSF52540. SSF52540. 1 hit.
PROSITEiPS00410. G_DYNAMIN_1. 1 hit.
PS51718. G_DYNAMIN_2. 1 hit.
PS51388. GED. 1 hit.
PS50003. PH_DOMAIN. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiDYN1_CAEEL
AccessioniPrimary (citable) accession number: P39055
Secondary accession number(s): Q93176, Q95QY9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: May 27, 2002
Last modified: November 30, 2016
This is version 148 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.