pI: 7.9943 |
Length (AA): 510 |
MW (Da): 59786 |
Paralog Number:
0
Signal peptide: Y | GPI Anchor: N | Predicted trans-membrane segments: 5
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
Modbase 3D models:
There are 8 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 |
---|---|---|---|---|---|---|---|---|---|
294 | 342 | 1x4j (A) | 22 | 72 | 37.00 | 0.000033 | 1 | 0.54 | -0.28 |
272 | 361 | 4ayc (A) | 370 | 470 | 34.00 | 0.003 | 0.93 | 0.532971 | -0.75 |
294 | 342 | 1x4j (A) | 22 | 72 | 37.00 | 0.00025 | 1 | 0.536578 | -0.22 |
395 | 510 | 4uos (A) | 2 | 127 | 9.00 | 0.87 | 0 | 0.215351 | -0.05 |
399 | 505 | 3na7 (A) | 42 | 148 | 10.00 | 0.65 | 0.01 | 0.311704 | -0.28 |
285 | 340 | 2lxh (C) | 327 | 382 | 45.00 | 0.0000012 | 0.99 | 0.618904 | -0.01 |
286 | 357 | 3lrq (A) | 3 | 75 | 25.00 | 0.99 | 0.59 | 0.512876 | -1.01 |
292 | 342 | 4tkp (B) | 9 | 65 | 43.00 | 0.9 | 1 | 0.3221 | 0.87 |
Help me make sense of these data.
A more detailed description of these scores is available at the Modbase Model Evaluation Help Pages, and in the papers referenced therein.
PDB Structures:
Upregulation Percent | Ranking | Stage | Dataset |
---|---|---|---|
Upper 80-100% percentile | intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs. | Otto TD |
Upregulation Percent | Ranking | Stage | Dataset |
---|---|---|---|
Upper 60-80% percentile | intra-erythrocytic - 0 hs, gametocyte, early schizont, late schizont, Oocyst, Sporozoite, Female Gametocyte. | Otto TD PlasmoDB Zanghi G Lasonder E |
Upregulation Percent | Ranking | Stage | Dataset |
---|---|---|---|
Mid 40-60% percentile | intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, late trophozoite, Male Gametocyte. | Otto TD PlasmoDB Lasonder E |
Upregulation Percent | Ranking | Stage | Dataset |
---|---|---|---|
Lower 20-40% percentile | intra-erythrocytic - 8 hs, early trophozoite, Ring. | Otto TD PlasmoDB Zanghi G |
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. |
Ortholog group members (OG5_128080)
Species | Accession | Gene Product |
---|---|---|
Arabidopsis thaliana | AT1G65040 | HRD1-like protein |
Arabidopsis thaliana | AT3G16090 | HRD1-like protein |
Babesia bovis | BBOV_IV010180 | zinc finger, C3HC4 type domain containing protein |
Brugia malayi | Bm1_28085 | hypothetical protein |
Candida albicans | CaO19.8338 | similar to putative zinc finger C3H4 type |
Candida albicans | CaO19.719 | similar to putative zinc finger C3H4 type |
Caenorhabditis elegans | CELE_F55A11.3 | Protein SEL-11 |
Cryptosporidium hominis | Chro.80300 | hypothetical protein |
Cryptosporidium parvum | cgd8_2560 | HRD1 like membrane associated RING finger containing protein signal peptide plus 6 transmembrane domains |
Dictyostelium discoideum | DDB_G0287847 | hypothetical protein |
Drosophila melanogaster | Dmel_CG1937 | septin interacting protein 3 |
Echinococcus granulosus | EgrG_001189600 | E3 ubiquitin protein ligase synoviolin B |
Entamoeba histolytica | EHI_166440 | zinc finger domain containing protein |
Echinococcus multilocularis | EmuJ_001189600 | E3 ubiquitin protein ligase synoviolin B |
Homo sapiens | ENSG00000162298 | synovial apoptosis inhibitor 1, synoviolin |
Leishmania braziliensis | LbrM.15.1410 | hypothetical protein, conserved |
Leishmania donovani | LdBPK_151460.1 | ERAD-associated E3 ubiquitin-protein ligase HRD1, putative |
Leishmania infantum | LinJ.15.1460 | hypothetical protein, conserved |
Leishmania major | LmjF.15.1410 | hypothetical protein, conserved |
Leishmania mexicana | LmxM.15.1410 | hypothetical protein, conserved |
Loa Loa (eye worm) | LOAG_09127 | hypothetical protein |
Mus musculus | ensembl-mmu:ENSMUSG00000024807 | synovial apoptosis inhibitor 1, synoviolin |
Neospora caninum | NCLIV_019800 | hypothetical protein |
Oryza sativa | 4340826 | Os06g0301000 |
Onchocerca volvulus | OVOC7463 |
|
Plasmodium berghei | PBANKA_1020900 | ERAD-associated E3 ubiquitin-protein ligase HRD1, putative |
Plasmodium falciparum | PF3D7_1422500 | ERAD-associated E3 ubiquitin-protein ligase HRD1 |
Plasmodium knowlesi | PKNH_1335500 | ERAD-associated E3 ubiquitin-protein ligase HRD1, putative |
Plasmodium vivax | PVX_085355 | ERAD-associated E3 ubiquitin-protein ligase HRD1, putative |
Plasmodium yoelii | PY00025 | FLJ00221 protein |
Saccharomyces cerevisiae | YOL013C | E3 ubiquitin-protein ligase HRD1 |
Schistosoma japonicum | Sjp_0049530 | ko:K10601 E3 ubiquitin-protein ligase synoviolin, putative |
Schistosoma mansoni | Smp_157360 | synoviolin |
Schmidtea mediterranea | mk4.009937.01 | |
Schmidtea mediterranea | mk4.018973.00 | E3 ubiquitin-protein ligase hrd-1 |
Schmidtea mediterranea | mk4.016856.00 | E3 ubiquitin-protein ligase hrd-1 |
Trypanosoma brucei gambiense | Tbg972.9.2790 | hypothetical protein, conserved |
Trypanosoma brucei | Tb927.9.5260 | ERAD-associated E3 ubiquitin-protein ligase HRD1, putative |
Trypanosoma congolense | TcIL3000_9_1750 | ERAD-associated E3 ubiquitin-protein ligase HRD1, putative |
Trypanosoma cruzi | TcCLB.509945.10 | ERAD-associated E3 ubiquitin-protein ligase HRD1, putative |
Trypanosoma cruzi | TcCLB.508277.190 | ERAD-associated E3 ubiquitin-protein ligase HRD1, putative |
Toxoplasma gondii | TGME49_304460 | zinc finger, C3HC4 type (RING finger) domain-containing protein |
Theileria parva | TP01_0655 | hypothetical protein, conserved |
Trichomonas vaginalis | TVAG_474070 | synoviolin, putative |
Trichomonas vaginalis | TVAG_159290 | synoviolin, putative |
Gene/Ortholog | Organism | Phenotype | Source Study |
---|---|---|---|
Tb09.160.3780 | Trypanosoma brucei | no significant loss or gain of fitness in bloodstream forms (3 days) | alsford |
Tb09.160.3780 | Trypanosoma brucei | no significant loss or gain of fitness in bloodstream forms (6 days) | alsford |
Tb09.160.3780 | Trypanosoma brucei | no significant loss or gain of fitness in procyclic forms | alsford |
Tb09.160.3780 | Trypanosoma brucei | significant loss of fitness in differentiation of procyclic to bloodstream forms | alsford |
TGME49_304460 | Toxoplasma gondii | Probably essential | sidik |
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 |
blattner | Systematic mutagenesis of the E. coli (MG1655) genome | J Bacteriol 2004, 186:4921-4930 |
nmpdr | Genome-scale essentiality datasets from published studies (M. tuberculosis) | National Microbial Pathogen Data Resource |
shigen | Profiling of E. coli Chromosome (PEC) | National Institute of Genetics, Japan |
yeastgenome | Systematic deletion of yeast genes | Saccharomyces Genome Database |
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 |
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.
Druggability index (range: 0 to 1): 0.1