Detailed view for PF3D7_0820000

Basic information

TDR Targets ID: 981
Plasmodium falciparum, Snf2-related CBP activator, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 5.1166 | Length (AA): 2082 | MW (Da): 246748 | Paralog Number: 0

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

Druggability Group : DG2

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

PF00176   SNF2 family N-terminal domain
PF00271   Helicase conserved C-terminal domain
PF07529   HSA

Gene Ontology

Mouse over links to read term descriptions.
GO:0008026   ATP-dependent helicase activity  
GO:0005524   ATP binding  
GO:0004386   helicase activity  
GO:0003677   DNA binding  
GO:0003676   nucleic acid binding  

Metabolic Pathways

Purine metabolism (KEGG)

Structural information

Modbase 3D models:

There are 23 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
647 1134 1z6a (A) 9 903 23.00 0 1 0.27 -0.66
654 974 1z3i (X) 139 479 28.00 0 1 0.53 -0.89
1759 1919 1t5i (A) 262 426 17.00 0 0.87 0.21 -1.2
1774 2022 1z3i (X) 496 735 24.00 0 1 0.12 0.23
7 183 4uos (A) 1 174 16.00 0.26 0.07 0.273914 -0.69
35 278 4tql (A) 14 222 27.00 0.6 0.61 0.169195 0.72
301 412 3ult (A) 6 113 31.00 0.031 0.28 0.423794 -1.29
330 437 1ux6 (A) 821 924 36.00 0.72 0.03 0.214873 -0.57
655 949 1z63 (A) 437 717 34.00 0 1 0.486091 -0.21
655 954 3mwy (W) 368 667 40.00 0 1 0.443092 0.64
669 1213 1z3i (X) 159 719 19.00 0.0099 1 0.456668 0.38
1072 1399 4wat (A) 146 506 13.00 0.54 0.01 0.287441 -0.46
1544 1992 3mwy (W) 440 922 24.00 0 1 0.338058 0.81
1695 1920 1z5z (A) 663 884 28.00 0.0000003 0.99 0.362949 -0.22
20 189 4uos (A) 3 176 14.00 0.24 0.03 0.240565 -0.63
30 188 2ap3 (A) 21 194 21.00 0.56 0.75 0.24081 0.17
646 947 1z3i (X) 139 460 30.00 0 1 0.47193 -0.02
647 1030 1z63 (A) 437 800 29.00 0 1 0.435352 0.27
647 946 3mwy (W) 368 667 40.00 0 1 0.444956 0.64
1170 1381 4v3d (A) 499 716 18.00 0.5 0.08 0.229613 -0.53
1552 1964 3mwy (W) 459 922 24.00 0 1 0.306471 0.5
1668 1940 1z3i (X) 414 676 28.00 0 1 0.400311 -0.22
1694 1892 1z5z (A) 689 884 34.00 0.0000000097 1 0.392784 -0.23

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 80-100% percentile intra-erythrocytic - 16 hs, merozoite, sporozoite, early ring, early schizont, early trophozoite, late ring, late trophozoite. Otto TD PlasmoDB
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 32 hs, gametocyte, late schizont, Oocyst, Ring. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 24 hs, intra-erythrocytic - 40 hs, Female Gametocyte, Male Gametocyte. Otto TD Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 48 hs, Sporozoite. Otto TD Zanghi G
Show/Hide expression data references
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB

Orthologs

Ortholog group members (OG5_127568)

Species Accession Gene Product
Arabidopsis thaliana AT3G12810   photoperiod-independent early flowering 1 protein
Babesia bovis BBOV_IV011770   snf2-related chromatin remodeling factor SRCAP
Brugia malayi Bm1_20790   SNF2 family N-terminal domain containing protein
Candida albicans CaO19.1871   putative RNA helicase
Candida albicans CaO19.9427   putative RNA helicase
Caenorhabditis elegans CELE_Y111B2A.22   Protein SSL-1, isoform C
Cryptosporidium hominis Chro.80359   hypothetical protein
Cryptosporidium parvum cgd8_3080   Swr1p like SWI/SNF2 family ATpase with a HSA domain at the N-terminus probably involved in chromatin remodelling
Dictyostelium discoideum DDB_G0267638   CHR group protein
Drosophila melanogaster Dmel_CG9696   domino
Echinococcus granulosus EgrG_000211600   helicase
Echinococcus multilocularis EmuJ_000211600   helicase
Homo sapiens ENSG00000183495   E1A binding protein p400
Homo sapiens ENSG00000080603   Snf2-related CREBBP activator protein
Leishmania braziliensis LbrM.35.5440   helicase, putative
Leishmania donovani LdBPK_365420.1   SWI/SNF-related helicase, putative
Leishmania infantum LinJ.36.5420   helicase, putative
Leishmania major LmjF.36.5190   helicase, putative
Leishmania mexicana LmxM.36.5190   helicase, putative
Loa Loa (eye worm) LOAG_00640   SNF2 family domain-containing protein
Mus musculus ENSMUSG00000029505   E1A binding protein p400
Mus musculus ENSMUSG00000053877   Snf2-related CREBBP activator protein
Neospora caninum NCLIV_019390   SNF2 family N-terminal domain-containing protein, putative
Onchocerca volvulus OVOC7803  
Plasmodium berghei PBANKA_0710800   Snf2-related CBP activator, putative
Plasmodium falciparum PF3D7_0820000   Snf2-related CBP activator, putative
Plasmodium knowlesi PKNH_1313800   Snf2-related CBP activator, putative
Plasmodium vivax PVX_089365   helicase, putative
Plasmodium yoelii PY01180   DOMINO B-related
Saccharomyces cerevisiae YDR334W   Swr1p
Schistosoma japonicum Sjp_0034870   Helicase SRCAP, putative
Schistosoma japonicum Sjp_0100800   ko:K01509 adenosinetriphosphatase [EC3.6.1.3], putative
Schistosoma japonicum Sjp_0034860   expressed protein
Schistosoma japonicum Sjp_0130440   Helicase ssl-1, putative
Schistosoma mansoni Smp_128890.2   helicase
Schistosoma mansoni Smp_128890.1   helicase
Schmidtea mediterranea mk4.001748.01   Putative helicase
Schmidtea mediterranea mk4.000094.15   Helicase domino
Schmidtea mediterranea mk4.000094.14  
Trypanosoma brucei gambiense Tbg972.11.12020   SNF2 DNA repair protein, putative,ATP-dependent helicase, putative,SNF2 family helicase, putative
Trypanosoma brucei Tb927.11.10730   SWI/SNF-related helicase, putative
Trypanosoma congolense TcIL3000.11.11390   SWI/SNF-related helicase, putative
Trypanosoma cruzi TcCLB.506155.70   SWI/SNF-related helicase, putative
Toxoplasma gondii TGME49_280800   SWI2/SNF2 SRCAP/Ino80
Theileria parva TP01_1132   ATP-dependent helicase, putative

Essentiality

PF3D7_0820000 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.2500 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.2500 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.01.2500 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.2500 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y111B2A.22 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y111B2A.22 Caenorhabditis elegans larval arrest wormbase
CELE_Y111B2A.22 Caenorhabditis elegans slow growth wormbase
PBANKA_0710800 Plasmodium berghei Essential plasmo
TGME49_280800 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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): 0.5

Known modulators for this target

No chemical compounds associated to this gene

Predicted associations

By orthology with druggable targets
Non orthologous druggable targets
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model
No druggable targets predicted through repurposing network model

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.

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User comments

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Gene identifier PF3D7_0820000 (Plasmodium falciparum), Snf2-related CBP activator, putative
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