Detailed view for PF3D7_1037500

Basic information

TDR Targets ID: 1442
Plasmodium falciparum, dynamin-like protein
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 6.3718 | Length (AA): 709 | MW (Da): 81526 | Paralog Number: 1

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG3

Targets have been classified into druggability groups (DG) according to their druggability score in network driven prioritizations. DGs range from 1 to 5; the higher the group number, the higher the chance of the target to be druggable

Pfam domains

PF00350   Dynamin family
PF01031   Dynamin central region
PF02212   Dynamin GTPase effector domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0006898   receptor-mediated endocytosis  
GO:0005875   microtubule associated complex  
GO:0005525   GTP binding  
GO:0003924   GTPase activity  
GO:0003777   microtubule motor activity  
GO:0007017   microtubule-based process  

Metabolic Pathways

Endocytosis (KEGG)

Structural information

Modbase 3D models:

There are 6 models calculated for this protein. More info on these models, including the models themselves is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
1 310 2aka (B) 6 304 42.00 0 1 0.93 -1.57
2 311 1jwy (B) 2 307 42.00 0 1 0.94 -1.02
1 705 3snh (A) 6 746 25.00 0.0000000000055 1 1.13006 0.89
1 704 5a3f (A) 6 735 33.00 0 1 1.31125 0.22
1 704 4bej (C) 1 704 44.00 0 1 1.07825 1.05
2 349 4p4u (A) 47 660 33.00 0 1 0.942632 -0.94

Help me make sense of these data.

Target Beg: first modeled residue
Target End: last modeled residue
Template: template structure used for modelling (PDB accession and chain)
Template Beg: first template residue in target-template alignment
Template End: last template residue in target-template alignment
Identity: sequence identity
Evalue: E value for target-template hit
Model Score: GA341 score (>0.7 for reliable model)
MPQS: ModPipe Quality Score (>1.1 for reliable model)
zDope: zDope Score (negative for reliable model)

A more detailed description of these scores is available at the Modbase Model Evaluation Help Pages, and in the papers referenced therein.

PDB Structures:

No structure availble in the PDB for this protein

Expression

Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, merozoite. Otto TD PlasmoDB
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 32 hs, late schizont, Oocyst, Ring, Sporozoite. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, gametocyte, Female Gametocyte, Male Gametocyte. Otto TD PlasmoDB Lasonder E
Show/Hide expression data references
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.

Orthologs

Ortholog group members (OG5_126660)

Species Accession Gene Product
Arabidopsis thaliana AT4G33650   dynamin-related protein 3A
Arabidopsis thaliana AT2G14120   dynamin-related protein 3B
Babesia bovis BBOV_III010040   dynamin central region family protein
Babesia bovis BBOV_II002980   dynamin-like protein
Brugia malayi Bm1_31610   Dynamin central region family protein
Brugia malayi Bm1_12935   Dynamin
Brugia malayi Bm1_01485   Dynamin
Candida albicans CaO19.9505   GTP-binding protein/GTPase
Candida albicans CaO19.1949   GTP-binding protein/GTPase
Candida albicans CaO19.6987   dynamin-related protein
Caenorhabditis elegans CELE_T12E12.4   Protein DRP-1, isoform B
Caenorhabditis elegans CELE_C02C6.1   Protein DYN-1, isoform A
Cryptosporidium hominis Chro.20357   dynamin-related protein
Cryptosporidium hominis Chro.10069   dynactin 4 (p62)
Cryptosporidium parvum cgd2_3400   dynamin-related protein, putative
Cryptosporidium parvum cgd1_580   dynamin-like protein
Dictyostelium discoideum DDB_G0277851   dynamin B
Dictyostelium discoideum DDB_G0277849   dynamin like protein
Drosophila melanogaster Dmel_CG3210   Dynamin related protein 1
Drosophila melanogaster Dmel_CG18102   shibire
Echinococcus granulosus EgrG_000878000   dynamin 1
Echinococcus granulosus EgrG_000236900   dynamin 1 protein
Echinococcus granulosus EgrG_000105900   dynamin
Entamoeba histolytica EHI_052740   dynamin-like protein
Entamoeba histolytica EHI_013180   dynamin-1-like protein, putative
Echinococcus multilocularis EmuJ_000236900   dynamin 1 protein
Echinococcus multilocularis EmuJ_000105900   dynamin
Echinococcus multilocularis EmuJ_000878000   dynamin 1
Giardia lamblia GL50803_14373   Dynamin
Homo sapiens ENSG00000087470   dynamin 1-like
Homo sapiens ENSG00000197959   dynamin 3
Homo sapiens ENSG00000106976   dynamin 1
Homo sapiens ENSG00000079805   dynamin 2
Homo sapiens 101929451   dynamin-1-like
Leishmania braziliensis LbrM.29.2180   GTP-binding protein, putative
Leishmania donovani LdBPK_292310.1   dynamin-1-like protein
Leishmania infantum LinJ.29.2310   GTP-binding protein, putative
Leishmania major LmjF.29.2200   GTP-binding protein, putative
Leishmania mexicana LmxM.08_29.2200   GTP-binding protein, putative
Loa Loa (eye worm) LOAG_07384   DRP-1 protein
Loa Loa (eye worm) LOAG_02417   hypothetical protein
Mus musculus ENSMUSG00000026825   dynamin 1
Mus musculus ENSMUSG00000040265   dynamin 3
Mus musculus ENSMUSG00000022789   dynamin 1-like
Mus musculus ENSMUSG00000033335   dynamin 2
Neospora caninum NCLIV_038550   Strain CBS138 chromosome D complete sequence, related
Neospora caninum NCLIV_004300   dynamin-like protein, putative
Oryza sativa 4335633   Os04g0381000
Oryza sativa 4327743   Os01g0920400
Plasmodium berghei PBANKA_0520400   dynamin-like protein, putative
Plasmodium berghei PBANKA_0903600   dynamin-like protein, putative
Plasmodium falciparum PF3D7_1145400   dynamin-like protein
Plasmodium falciparum PF3D7_1037500   dynamin-like protein
Plasmodium knowlesi PKNH_0943300   dynamin-like protein, putative
Plasmodium knowlesi PKNH_0622000   dynamin-like protein, putative
Plasmodium vivax PVX_110885   dynamin protein, putative
Plasmodium vivax PVX_092875   dynamin-like protein, putative
Plasmodium yoelii PY07647   dynamin-like protein-related
Plasmodium yoelii PY04073   dynamin like protein-related
Plasmodium yoelii PY00714   dynamin-like protein
Saccharomyces cerevisiae YKR001C   dynamin-like GTPase VPS1
Saccharomyces cerevisiae YLL001W   dynamin-related GTPase DNM1
Schistosoma japonicum Sjp_0129180   Dynamin-1, putative
Schistosoma japonicum Sjp_0049970   Dynamin-1, putative
Schistosoma japonicum Sjp_0028450   Dynamin-1, putative
Schistosoma japonicum Sjp_0311750   expressed protein
Schistosoma japonicum Sjp_0074410   ko:K01528 dynamin GTPase [EC3.6.5.5], putative
Schistosoma japonicum Sjp_0215240   ko:K01528 dynamin GTPase [EC3.6.5.5], putative
Schistosoma japonicum Sjp_0309740   Dynamin-1-like protein, putative
Schistosoma japonicum Sjp_0024910   Dynamin-2, putative
Schistosoma mansoni Smp_067280   dynamin
Schistosoma mansoni Smp_129050   dynamin
Schistosoma mansoni Smp_044920   dynamin
Schmidtea mediterranea mk4.023292.00   Dynamin
Schmidtea mediterranea mk4.011112.02   Dynamin
Schmidtea mediterranea mk4.004546.00   Dynamin
Schmidtea mediterranea mk4.008689.00   Dynamin-related protein
Schmidtea mediterranea mk4.017250.01  
Schmidtea mediterranea mk4.017250.00  
Schmidtea mediterranea mk4.005438.00   Dynamin
Schmidtea mediterranea mk4.000333.08   Dynamin
Schmidtea mediterranea mk4.001213.00   Dynamin-1-like protein
Schmidtea mediterranea mk4.005438.01  
Schmidtea mediterranea mk4.022022.00  
Schmidtea mediterranea mk4.009223.01  
Schmidtea mediterranea mk4.002951.01   Dynamin-related protein
Schmidtea mediterranea mk4.002086.06   Dynamin-related protein
Schmidtea mediterranea mk4.013095.00   Dynamin
Schmidtea mediterranea mk4.005438.02  
Trypanosoma brucei gambiense Tbg972.3.5280   dynamin, putative,vacuolar sortin protein 1, putative
Trypanosoma brucei gambiense Tbg972.3.5320   dynamin, putative,vacuolar sortin protein 1, putative
Trypanosoma brucei Tb927.3.4760   dynamin-1-like protein
Trypanosoma brucei Tb927.3.4720   dynamin-1-like protein
Trypanosoma congolense TcIL3000_0_42670   dynamin-1-like protein
Trypanosoma cruzi TcCLB.508153.20   dynamin-1-like protein
Toxoplasma gondii TGME49_326100   dynamin gtpase
Toxoplasma gondii TGME49_321620   dynamin-related protein DRPB
Toxoplasma gondii TGME49_267800   dynamin-related protein DRPA
Theileria parva TP04_0295   dynamin, putative
Theileria parva TP02_0143   hypothetical protein
Trichomonas vaginalis TVAG_028010   dynamin, putative
Trichomonas vaginalis TVAG_350040   dynamin, putative
Trichomonas vaginalis TVAG_047650   mgm1, putative
Trichomonas vaginalis TVAG_436840   dynamin, putative
Trichomonas vaginalis TVAG_123140   interferon-induced GTP-binding protein mx, putative
Trichomonas vaginalis TVAG_298300   dynamin, putative
Trichomonas vaginalis TVAG_062360   dynamin, putative
Trichomonas vaginalis TVAG_074990   dynamin, putative

Essentiality

PF3D7_1037500 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.3.4760 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.3.4760 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.3.4760 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.3.4760 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Tb927.3.4720 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.3.4720 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.3.4720 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.3.4720 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_T12E12.4 Caenorhabditis elegans embryonic lethal wormbase
CELE_C02C6.1 Caenorhabditis elegans embryonic arrest wormbase
CELE_C02C6.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_C02C6.1 Caenorhabditis elegans larval arrest wormbase
CELE_C02C6.1 Caenorhabditis elegans larval lethal wormbase
CELE_C02C6.1 Caenorhabditis elegans sterile wormbase
PBANKA_0520400 Plasmodium berghei Slow plasmo
TGME49_267800 Toxoplasma gondii Probably essential sidik
TGME49_321620 Toxoplasma gondii Probably essential sidik
TGME49_326100 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • plasmo Functional Profiling of a Plasmodium Genome Reveals an Abundance of Essential Genes. Bushell, Ellen, et al. "Functional profiling of a Plasmodium genome reveals an abundance of essential genes." Cell 170.2 (2017): 260-272.
  • goodall The Essential Genome of Escherichia coli K-12 (Transposon directed high-throughput mutagenesis) Goodall, Emily CA, et al. "The essential genome of Escherichia coli K-12." mBio 9.1 (2018): e02096-17.
  • sidik A Genome-wide CRISPR Screen in Toxoplasma Identifies Essential Apicomplexan Genes. Sidik, Saima M., et al. "A genome-wide CRISPR screen in toxoplasma identifies essential apicomplexan genes." Cell 166.6 (2016): 1423-1435.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

Phenotypes and Validation (curated)

We have no manually annotated phenotypes for this target. What does this mean? / Care to help?

In TDR Targets, information about phenotypes that are caused by drugs, or by genetic manipulation of cells (e.g. gene knockouts or knockdowns) is manually curated from the literature. These descriptions help to describe the potential of the target for drug development. If no information is available for this gene or if the information is incomplete, this may mean that i) the papers containing this information either appeared after the curation effort for this organism was carried out or they were inadvertently missed by curators; or that ii) the curation effort for this organism has not yet started.

In any case, if you have information about papers containing relevant validation data for this target, please contact us.

Annotated validation

No validation data for this target

Associated compounds / Druggability

Druggability index (range: 0 to 1): 0.2

Known modulators for this target

No chemical compounds associated to this gene

Predicted associations

By orthology with druggable targets
Species Known druggable target Linked compounds Reference
Rattus norvegicus Dynamin-2 Compounds References
Rattus norvegicus Dynamin-1 Compounds References
Homo sapiens dynamin 2 Compounds References
Homo sapiens dynamin 1 Compounds References
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0154 0.3218 1
0.00578919 0.811199 0.5
0.0161 0.6819 1
0.0077 0.2765 0.5
0.00277886 0.811199 0.5
0.0157 0.6803 1
0.0156 0.3793 1
0.0136 0.3135 1
0.0156 0.3793 1
0.00146906 0.462911 0.5
0.007 0.8159 0.5
0.0036 0.9006 0.5
0.00578919 0.811199 0.5
0.0163 0.341 1
0.0187 0.8145 1
0.0089 0.8159 0.5
0.00277886 0.811199 0.5
0.0159 0.3931 1
0.0184 0.7751 1

Assayability

Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

No literature references available for this target.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier PF3D7_1037500 (Plasmodium falciparum), dynamin-like protein
Title for this comment
Comment