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DNM3 dynamin 3 [ Homo sapiens (human) ]

Gene ID: 26052, updated on 13-Mar-2020

Summary

Official Symbol
DNM3provided by HGNC
Official Full Name
dynamin 3provided by HGNC
Primary source
HGNC:HGNC:29125
See related
Ensembl:ENSG00000197959 MIM:611445
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
Dyna III
Summary
This gene encodes a member of a family of guanosine triphosphate (GTP)-binding proteins that associate with microtubules and are involved in vesicular transport. The encoded protein functions in the development of megakaryocytes. Alternative splicing results in multiple transcript variants. [provided by RefSeq, May 2013]
Expression
Biased expression in brain (RPKM 10.0), adrenal (RPKM 2.5) and 8 other tissues See more
Orthologs

Genomic context

See DNM3 in Genome Data Viewer
Location:
1q24.3
Exon count:
31
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (171841495..172418466)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (171810618..172387606)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ribosomal protein S15 pseudogene 3 Neighboring gene ribosomal protein lateral stalk subunit P1 pseudogene 3 Neighboring gene DNM3 intronic transcript 1 Neighboring gene microRNA 199a-2 Neighboring gene microRNA 3120 Neighboring gene DNM3 opposite strand/antisense RNA Neighboring gene microRNA 214 Neighboring gene RNA, U6 small nuclear 157, pseudogene Neighboring gene uncharacterized LOC102724528 Neighboring gene chromosome 1 open reading frame 105 Neighboring gene Sharpr-MPRA regulatory region 5023 Neighboring gene phosphatidylinositol glycan anchor biosynthesis class C

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 Functions

What's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
A genome- and phenome-wide association study to identify genetic variants influencing platelet count and volume and their pleiotropic effects.
NHGRI GWA Catalog
A genome-wide meta-analysis identifies 22 loci associated with eight hematological parameters in the HaemGen consortium.
NHGRI GWA Catalog
Genetic Loci Associated with Circulating Levels of Very Long-Chain Saturated Fatty Acids.
NHGRI GWA Catalog
Genome-wide meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture.
NHGRI GWA Catalog
Genome-wide meta-analysis identifies 56 bone mineral density loci and reveals 14 loci associated with risk of fracture.
NHGRI GWA Catalog
Hundreds of variants clustered in genomic loci and biological pathways affect human height.
NHGRI GWA Catalog
Many sequence variants affecting diversity of adult human height.
NHGRI GWA Catalog
Meta-analysis identifies 13 new loci associated with waist-hip ratio and reveals sexual dimorphism in the genetic basis of fat distribution.
NHGRI GWA Catalog
Meta-analysis of genome-wide association studies of adult height in East Asians identifies 17 novel loci.
NHGRI GWA Catalog
New gene functions in megakaryopoiesis and platelet formation.
NHGRI GWA Catalog

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of DNM3 by shRNA significantly inhibits HIV-1 replication in CD4+ T-cells PubMed

Protein interactions

Protein Gene Interaction Pubs
Pr55(Gag) gag Dynamin-dependent endocytosis is required for intracellular accumulation of HIV-1 Gag in the presence of HLA-DR PubMed
gag HIV-1 Gag co-localizes with dynamin in primary T lymphocytes PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA0820, MGC70433

Gene Ontology Provided by GOA

Function Evidence Code Pubs
GTP binding IEA
Inferred from Electronic Annotation
more info
 
GTPase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
GTPase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
microtubule binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nitric-oxide synthase binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
structural constituent of postsynapse IEA
Inferred from Electronic Annotation
more info
 
type 1 metabotropic glutamate receptor binding IEA
Inferred from Electronic Annotation
more info
 
type 5 metabotropic glutamate receptor binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
endocytosis ISS
Inferred from Sequence or Structural Similarity
more info
 
filopodium assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
membrane fusion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mitochondrial fission IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of dendritic spine morphogenesis IEA
Inferred from Electronic Annotation
more info
 
organelle fission IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of filopodium assembly IEA
Inferred from Electronic Annotation
more info
 
positive regulation of synaptic vesicle recycling IEA
Inferred from Electronic Annotation
more info
 
postsynapse organization IEA
Inferred from Electronic Annotation
more info
 
postsynaptic neurotransmitter receptor internalization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
receptor internalization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of synapse structure or activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
synapse assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
synaptic vesicle budding from presynaptic endocytic zone membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
Golgi apparatus IEA
Inferred from Electronic Annotation
more info
 
apical tubulobulbar complex IEA
Inferred from Electronic Annotation
more info
 
axon IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
basal tubulobulbar complex IEA
Inferred from Electronic Annotation
more info
 
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytoplasmic vesicle IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
dendritic spine IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
dendritic spine ISS
Inferred from Sequence or Structural Similarity
more info
 
dendritic spine head IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
extracellular exosome HDA PubMed 
glutamatergic synapse IEA
Inferred from Electronic Annotation
more info
 
membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
microtubule IEA
Inferred from Electronic Annotation
more info
 
microtubule cytoskeleton IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mitochondrial membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
perinuclear region of cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
 
photoreceptor inner segment IEA
Inferred from Electronic Annotation
more info
 
plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
postsynaptic density IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
postsynaptic density ISS
Inferred from Sequence or Structural Similarity
more info
 
postsynaptic endocytic zone membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
postsynaptic membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
presynapse IEA
Inferred from Electronic Annotation
more info
 
synapse IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
synaptic cleft IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
dynamin-3
Names
T-dynamin
dynamin family member
dynamin, testicular
NP_001129599.1
NP_001265181.1
NP_001337133.1
NP_001337134.1
NP_001337135.1
NP_056384.2
XP_005245136.1
XP_016856465.1
XP_016856466.1
XP_016856467.1
XP_016856468.1
XP_016856469.1
XP_016856471.1
XP_016856472.1
XP_016856473.1
XP_016856474.1
XP_016856475.1
XP_016856476.1
XP_016856477.1
XP_016856478.1
XP_016856479.1
XP_016856480.1
XP_016856481.1

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.

mRNA and Protein(s)

  1. NM_001136127.3NP_001129599.1  dynamin-3 isoform b

    See identical proteins and their annotated locations for NP_001129599.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon, compared to variant 1. The encoded isoform (b) is shorter than isoform a.
    Source sequence(s)
    AB020627, AL035110, AL136712, BC037326, DC334207, Z97195
    Consensus CDS
    CCDS44276.1
    UniProtKB/Swiss-Prot
    Q9UQ16
    Related
    ENSP00000356705.1, ENST00000367731.5
    Conserved Domains (6) summary
    smart00053
    Location:6245
    DYNc; Dynamin, GTPase
    COG0699
    Location:79728
    CrfC; Replication fork clamp-binding protein CrfC (dynamin-like GTPase family) [Replication, recombination and repair]
    cd01256
    Location:514625
    PH_dynamin; Dynamin pleckstrin homology (PH) domain
    pfam01031
    Location:217502
    Dynamin_M; Dynamin central region
    pfam02212
    Location:647735
    GED; Dynamin GTPase effector domain
    cl22974
    Location:762822
    HpaP; Type III secretion protein (HpaP)
  2. NM_001278252.2NP_001265181.1  dynamin-3 isoform c

    See identical proteins and their annotated locations for NP_001265181.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks multiple 3' coding exons and contains an alternate 3' exon, resulting in a distinct 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (c) is shorter and has a distinct C-terminus, compared to isoform a.
    Source sequence(s)
    BC064546, DC334207
    Consensus CDS
    CCDS60356.1
    UniProtKB/Swiss-Prot
    Q9UQ16
    Related
    ENSP00000356707.2, ENST00000367733.6
    Conserved Domains (3) summary
    smart00053
    Location:6245
    DYNc; Dynamin, GTPase
    pfam01031
    Location:216501
    Dynamin_M; Dynamin central region
    cl17171
    Location:514553
    PH-like; Pleckstrin homology-like domain
  3. NM_001350204.2NP_001337133.1  dynamin-3 isoform d

    Status: REVIEWED

    Source sequence(s)
    AB020627, AL035110, AL136712, AL512843, BC037326, DC334207, Z97195
    Consensus CDS
    CCDS86032.1
    Related
    ENSP00000347457.5, ENST00000355305.9
    Conserved Domains (5) summary
    smart00053
    Location:6245
    DYNc; Dynamin, GTPase
    cd01256
    Location:526635
    PH_dynamin; Dynamin pleckstrin homology (PH) domain
    pfam01031
    Location:216501
    Dynamin_M; Dynamin central region
    pfam02212
    Location:657745
    GED; Dynamin GTPase effector domain
    cl26464
    Location:754841
    Atrophin-1; Atrophin-1 family
  4. NM_001350205.2NP_001337134.1  dynamin-3 isoform e

    Status: REVIEWED

    Source sequence(s)
    AL512843, BC064546, DC334207
    Conserved Domains (3) summary
    smart00053
    Location:6245
    DYNc; Dynamin, GTPase
    pfam01031
    Location:216501
    Dynamin_M; Dynamin central region
    cl17171
    Location:526563
    PH-like; Pleckstrin homology-like domain
  5. NM_001350206.2NP_001337135.1  dynamin-3 isoform f

    Status: REVIEWED

    Source sequence(s)
    AB020627, AL035110, AL512843, CA445187, DC334207
    Conserved Domains (5) summary
    smart00053
    Location:6245
    DYNc; Dynamin, GTPase
    cd01256
    Location:526635
    PH_dynamin; Dynamin pleckstrin homology (PH) domain
    pfam01031
    Location:216501
    Dynamin_M; Dynamin central region
    pfam02212
    Location:657745
    GED; Dynamin GTPase effector domain
    cl26464
    Location:754838
    Atrophin-1; Atrophin-1 family
  6. NM_015569.5NP_056384.2  dynamin-3 isoform a

    See identical proteins and their annotated locations for NP_056384.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
    Source sequence(s)
    AB020627, AL035110, AL136712, BC037326, DC334207, Z97195
    Consensus CDS
    CCDS53431.1
    UniProtKB/Swiss-Prot
    Q9UQ16
    Related
    ENSP00000486701.1, ENST00000627582.3
    Conserved Domains (6) summary
    smart00053
    Location:6245
    DYNc; Dynamin, GTPase
    COG0699
    Location:79732
    CrfC; Replication fork clamp-binding protein CrfC (dynamin-like GTPase family) [Replication, recombination and repair]
    cd01256
    Location:514625
    PH_dynamin; Dynamin pleckstrin homology (PH) domain
    pfam01031
    Location:217502
    Dynamin_M; Dynamin central region
    pfam02212
    Location:651739
    GED; Dynamin GTPase effector domain
    cl22974
    Location:766826
    HpaP; Type III secretion protein (HpaP)

RNA

  1. NR_146559.2 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AB020627, AL035110, AL136712, AL512843, BC037326, DC334207, Z97195

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    171841495..172418466
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017000979.1XP_016856468.1  dynamin-3 isoform X4

  2. XM_017000983.1XP_016856472.1  dynamin-3 isoform X8

  3. XM_017000984.1XP_016856473.1  dynamin-3 isoform X9

  4. XM_017000976.1XP_016856465.1  dynamin-3 isoform X1

  5. XM_017000977.1XP_016856466.1  dynamin-3 isoform X2

  6. XM_005245079.1XP_005245136.1  dynamin-3 isoform X6

    UniProtKB/Swiss-Prot
    Q9UQ16
    Conserved Domains (6) summary
    smart00053
    Location:6245
    DYNc; Dynamin, GTPase
    COG0699
    Location:79742
    CrfC; Replication fork clamp-binding protein CrfC (dynamin-like GTPase family) [Replication, recombination and repair]
    cd01256
    Location:526635
    PH_dynamin; Dynamin pleckstrin homology (PH) domain
    pfam01031
    Location:217502
    Dynamin_M; Dynamin central region
    pfam02212
    Location:661749
    GED; Dynamin GTPase effector domain
    cl22974
    Location:776836
    HpaP; Type III secretion protein (HpaP)
  7. XM_017000982.2XP_016856471.1  dynamin-3 isoform X7

  8. XM_017000978.1XP_016856467.1  dynamin-3 isoform X3

  9. XM_017000985.1XP_016856474.1  dynamin-3 isoform X10

  10. XM_017000991.1XP_016856480.1  dynamin-3 isoform X15

    Related
    ENSP00000429701.1, ENST00000520906.5
    Conserved Domains (3) summary
    smart00053
    Location:6245
    DYNc; Dynamin, GTPase
    COG0699
    Location:79500
    CrfC; Replication fork clamp-binding protein CrfC (dynamin-like GTPase family) [Replication, recombination and repair]
    pfam01031
    Location:217502
    Dynamin_M; Dynamin central region
  11. XM_017000989.1XP_016856478.1  dynamin-3 isoform X14

  12. XM_017000988.1XP_016856477.1  dynamin-3 isoform X13

  13. XM_017000990.2XP_016856479.1  dynamin-3 isoform X15

    Conserved Domains (3) summary
    smart00053
    Location:6245
    DYNc; Dynamin, GTPase
    COG0699
    Location:79500
    CrfC; Replication fork clamp-binding protein CrfC (dynamin-like GTPase family) [Replication, recombination and repair]
    pfam01031
    Location:217502
    Dynamin_M; Dynamin central region
  14. XM_017000992.1XP_016856481.1  dynamin-3 isoform X16

  15. XM_017000986.1XP_016856475.1  dynamin-3 isoform X11

  16. XM_017000980.1XP_016856469.1  dynamin-3 isoform X5

  17. XM_017000987.1XP_016856476.1  dynamin-3 isoform X12

    Conserved Domains (6) summary
    cd08771
    Location:2184
    DLP_1; Dynamin_like protein family includes dynamins and Mx proteins
    COG0699
    Location:2632
    CrfC; Replication fork clamp-binding protein CrfC (dynamin-like GTPase family) [Replication, recombination and repair]
    cd01256
    Location:416525
    PH_dynamin; Dynamin pleckstrin homology (PH) domain
    pfam01031
    Location:107392
    Dynamin_M; Dynamin central region
    pfam02212
    Location:551639
    GED; Dynamin GTPase effector domain
    cl22974
    Location:666726
    HpaP; Type III secretion protein (HpaP)

RNA

  1. XR_001737108.1 RNA Sequence

  2. XR_001737110.1 RNA Sequence

  3. XR_001737107.1 RNA Sequence

  4. XR_001737111.1 RNA Sequence

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