Detailed view for PF3D7_1351700

Basic information

TDR Targets ID: 176
Plasmodium falciparum, inner membrane complex protein 1f, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 9.1668 | Length (AA): 1318 | MW (Da): 151517 | Paralog Number: 0

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

Druggability Group : DG1

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

PF12314   Inner membrane complex protein

Gene Ontology

Mouse over links to read term descriptions.
No GO information for this protein.

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 11 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
1 186 4tql (A) 12 195 12.00 0.3 0 0.265623 -0.64
20 683 3s5m (A) 150 926 24.00 0.76 0.8 0.452194 1.12
34 186 2efr (A) 147 300 14.00 0.79 0 0.255585 -0.39
56 1106 3vuo (A) 53 1086 22.00 0.011 0.87 0.70682 1.38
400 516 3ult (A) 6 108 33.00 0.85 0.12 0.227171 -0.26
914 1192 4u0r (A) 175 496 15.00 0.21 0.07 0.296284 -0.35
1 159 4tql (A) 12 177 15.00 0.54 0.01 0.245437 -0.79
20 681 3s5m (A) 150 926 24.00 0.57 0.99 0.453976 1.17
133 437 2fds (A) 3 324 20.00 0.43 0.2 0.375111 -0.29
398 514 3ult (A) 6 108 33.00 0.75 0.13 0.213471 -0.12
905 1192 4u0r (A) 162 492 17.00 0.32 0.03 0.330213 -0.24

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 - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, merozoite, early schizont, late schizont. Otto TD PlasmoDB
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 16 hs, Sporozoite. Otto TD Zanghi G
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile sporozoite, early ring, Oocyst, Ring. PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, late trophozoite. Otto TD PlasmoDB
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile Female Gametocyte, Male Gametocyte. Lasonder E
Show/Hide expression data references
  • 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
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.

Orthologs

Ortholog group members (OG5_139161)

Species Accession Gene Product
Babesia bovis BBOV_I004150   membrane skeletal protein, putative
Cryptosporidium hominis Chro.50439   membrane skeletal protein
Cryptosporidium parvum cgd5_4080   articulin family protein
Neospora caninum NCLIV_007900   PV1H14125_P, related
Neospora caninum NCLIV_007240   hypothetical protein, conserved
Plasmodium berghei PBANKA_1364400   inner membrane complex protein 1f, putative
Plasmodium falciparum PF3D7_1351700   inner membrane complex protein 1f, putative
Plasmodium knowlesi PKNH_1249300   inner membrane complex protein 1f, putative
Plasmodium vivax PVX_083475   inner membrane complex protein 1f, putative
Plasmodium yoelii PY03838   ERYTHROCYTE MEMBRANE PROTEIN PFEMP3
Toxoplasma gondii TGME49_275670   alveolin domain containing intermediate filament IMC15
Toxoplasma gondii TGME49_253470   alveolin domain containing intermediate filament IMC13
Theileria parva TP02_0724   hypothetical protein

Essentiality

PF3D7_1351700 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
PBANKA_1364400 Plasmodium berghei Slow plasmo
TGME49_253470 Toxoplasma gondii Probably non-essential sidik
TGME49_275670 Toxoplasma gondii Probably non-essential sidik
TGME49_253470 Toxoplasma gondii Essentiality uncertain sidik
TGME49_275670 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource

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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Gene identifier PF3D7_1351700 (Plasmodium falciparum), inner membrane complex protein 1f, putative
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