Detailed view for TP0353

Basic information

TDR Targets ID: 595792
Treponema pallidum, ribonuclease H (rnhA)
Source Database / ID:  KEGG  

pI: 6.6287 | Length (AA): 169 | MW (Da): 18193 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | 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

PF00075   RNase H

Gene Ontology

Mouse over links to read term descriptions.
GO:0004523   ribonuclease H activity  
GO:0003676   nucleic acid binding  

Metabolic Pathways

DNA replication (KEGG)

Structural information

Modbase 3D models:

There are 4 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
4 164 1ril (A) 2 147 41.00 0.0000009 1 1.36566 -0.1
7 166 4ly7 (A) 5 149 52.00 0.00000000015 1 1.53475 -0.85
9 158 2e4l (A) 9 143 49.00 0 1 1.46587 -1.05
9 158 1g15 (A) 7 141 57.00 0 1 1.45187 -0.91

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

No expression data available for this gene

Orthologs

Ortholog group members (OG5_127436)

Species Accession Gene Product
Brugia malayi Bm1_54150   RNase H family protein
Candida albicans CaO19.5564   one of three potential Ribonuclease H genes
Candida albicans CaO19.5563   one of three potential Ribonuclease H genes
Candida albicans CaO19.13057   one of three potential Ribonuclease H genes
Candida albicans CaO19.13009   one of three potential Ribonuclease H genes
Candida albicans CaO19.5614   one of three potential Ribonuclease H genes
Candida albicans CaO19.13010   one of three potential Ribonuclease H genes
Caenorhabditis elegans CELE_C04F12.9   Protein RNH-1.3
Dictyostelium discoideum DDB_G0294298   hypothetical protein
Drosophila melanogaster Dmel_CG8729   ribonuclease H1
Escherichia coli b0214   ribonuclease HI, degrades RNA of DNA-RNA hybrids
Giardia lamblia GL50803_34134   Ribonuclease H
Homo sapiens 246243   ribonuclease H1
Leishmania braziliensis LbrM.06.0270   ribonuclease H1, putative
Leishmania donovani LdBPK_060290.1   ribonuclease H1, putative
Leishmania infantum LinJ.06.0290   ribonuclease H1, putative
Leishmania major LmjF.06.0290   ribonuclease H1, putative
Leishmania mexicana LmxM.06.0290   ribonuclease H1, putative
Mus musculus ENSMUSG00000020630   ribonuclease H1
Neospora caninum NCLIV_012550   ribonuclease H, putative
Saccharomyces cerevisiae YMR234W   Rnh1p
Schmidtea mediterranea mk4.004004.02  
Schmidtea mediterranea mk4.000221.03  
Trypanosoma brucei gambiense Tbg972.7.5660   ribonuclease H1
Trypanosoma brucei Tb927.7.4930   ribonuclease H1
Trypanosoma congolense TcIL3000_7_4130   ribonuclease H1, putative
Trypanosoma cruzi TcCLB.506351.40   ribonuclease H1, putative
Trypanosoma cruzi TcCLB.505939.60   ribonuclease H1, putative
Toxoplasma gondii TGME49_220450   ribonuclease HI protein
Treponema pallidum TP0353   ribonuclease H (rnhA)
Trichomonas vaginalis TVAG_427300   ribonuclease H1, putative
Wolbachia endosymbiont of Brugia malayi Wbm0305   ribonuclease HI

Essentiality

TP0353 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.7.4930 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.7.4930 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.7.4930 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.7.4930 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_220450 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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

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
Homo sapiens ribonuclease H1 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
0.0198 0.672 1
0.1108 0.2531 1
0.0737 0.2631 0.5
0.0608 0.2571 0
0.058 0.2598 1
0.0314 0.2546 0.5
0.0785 0.2648 0.5
0.1058 0.2591 0.5
0.0737 0.2631 0.5
0.0384 0.2603 1
0.0684 0.2584 0.5
0.1202 0.2539 0.5
0.1062 0.2536 0.5
0.0546 0.2569 0.5
0.0308 0.2562 0.5
0.1242 0.2627 0.5
0.0473 0.2525 0.5
0.128 0.2552 1
0.2084 0.2655 1
0.0637 0.258 0.5
0.1502 0.2525 1
0.1071 0.2572 0.5
0.0314 0.2575 1
0.0241 0.2515 0
0.0384 0.2603 1
0.3881 0.2608 1
0.0136 0.264 0.5
0.0905 0.2629 1
0.0437 0.2605 1
0.0094 0.3006 0.5
0.0442 0.2609 0.5
0.0116 0.2527 0.5
0.0608 0.2571 0
0.0424 0.2538 1
0.0943 0.2594 1
0.0198 0.672 1
0.0937 0.2527 0.5
0.0711 0.2578 0.5
0.0934 0.2641 1
0.0209 0.2529 1
0.0617 0.2612 1
0.0469 0.2563 1
0.0469 0.2563 1
0.0223 0.2523 0.5
0.0455 0.2601 1
0.1204 0.2643 1
0.0424 0.2538 1
0.0645 0.261 1
0.0113 0.3372 0.5
0.0934 0.2641 1
0.051 0.2606 1
0.029 0.2535 1
0.1224 0.2639 1
0.0198 0.672 1
0.1016 0.2568 1
0.06 0.2555 0.5
0.0905 0.2629 1
0.0376 0.2573 1
0.0258 0.258 1
0.1516 0.2655 1
0.0512 0.2628 1
0.0473 0.2542 0.5
0.13 0.2599 0.5
0.1477 0.2647 1
0.0389 0.2602 1
0.0646 0.2612 0.5
0.0775 0.2629 1
0.0608 0.2571 0
0.0682 0.2552 0.5
0.0608 0.2571 0
0.0295 0.2591 1
0.0455 0.2601 1
0.128 0.2552 1
0.0714 0.2634 0.5
0.0957 0.2647 0.5
0.0473 0.2542 0.5
0.128 0.2552 1
0.0914 0.2508 0.5
0.0112 0.2563 0.5
0.1068 0.2568 0.5
0.0384 0.2603 1
0.0247 0.2531 0.5
0.0785 0.2648 0.5
0.007 0.2522 0.5
0.0203 0.2568 0.5
0.0198 0.672 1
0.0384 0.2603 1
0.1516 0.2655 1
0.0624 0.2627 1
0.0624 0.2627 1
0.051 0.2606 1
0.0384 0.2603 1
0.0366 0.264 0.5
0.0443 0.261 1
0.0937 0.2527 0.5
0.058 0.2527 0.5
0.0332 0.2563 0.5
0.0668 0.2637 1
0.0363 0.2586 1
0.0567 0.2611 1
0.0943 0.2594 1
0.014 0.254 0.5
0.1343 0.2601 0.5
0.1798 0.2619 0.5
0.0374 0.2575 1
0.0971 0.2528 0.5
0.0246 0.2577 1
0.0443 0.2644 0.5
0.0934 0.2641 1
0.007 0.2522 0.5
0.0593 0.2506 0.5
0.1016 0.2568 1
0.1477 0.2647 1
0.0761 0.2613 1
0.0305 0.2568 0.3295
0.0384 0.2603 1
0.127 0.2654 1
0.1186 0.2545 0.5
0.0521 0.2585 0.8819
0.1068 0.2568 0.5
0.0116 0.2517 0.5
0.0588 0.2511 1
0.0591 0.2531 0.5
0.0637 0.258 0.5
0.0365 0.2572 0.5
0.0253 0.2508 0
0.0327 0.2526 0.5
0.0533 0.2596 1
0.0719 0.2622 0.5
0.0742 0.2537 0.5
0.0637 0.258 0.5
0.0363 0.2548 0.5
0.0613 0.2587 1
0.0826 0.2617 0.5
0.0564 0.2606 1
0.043 0.2536 0.5
0.0264 0.2603 1
0.0637 0.2515 0.5
0.0849 0.2643 1
0.0364 0.2592 1
0.1345 0.2643 1
0.0617 0.2612 1
0.049 0.2526 0.5
0.043 0.2536 0.5
0.0737 0.2631 0.5
0.0376 0.2573 1
0.0753 0.2591 1
0.0261 0.2582 1
0.0687 0.259 1
0.0269 0.2508 0
0.0588 0.2511 1
0.1142 0.2626 1
0.0198 0.672 1
0.0223 0.2552 1
0.0327 0.2526 0.5
0.0546 0.2569 0.5
0.0473 0.2525 0.5
0.0646 0.2612 0.5
0.0755 0.2645 1
0.0987 0.2634 0.5
0.1046 0.2558 0.5
0.0327 0.2526 0.5
0.1053 0.2551 0.5
0.0136 0.264 0.5
0.0521 0.2585 0.8819
0.099 0.2616 1
0.0278 0.2609 0.5
0.0198 0.672 1
0.0501 0.2606 0.5
0.1016 0.2568 1
0.0229 0.2604 1
0.06 0.2555 0.5
0.0254 0.2512 0.5
0.4136 0.2605 1
0.0443 0.2617 0.5
0.0235 0.2568 0.5
0.1436 0.2655 1
0.0714 0.2634 0.5
0.128 0.2552 1
0.0235 0.2568 0.5
0.0575 0.264 0.5
0.1016 0.2568 1
0.0136 0.264 0.5
0.0269 0.2506 0.5
0.0637 0.2515 0.5
0.0637 0.2515 0.5
0.0443 0.2617 0.5
0.0223 0.2523 0.5
0.0929 0.2524 1
0.0477 0.2636 1
0.0077 0.6071 0.5
0.0377 0.2602 1
0.1065 0.2547 0.5
0.0613 0.2587 1
0.1212 0.2656 1
0.0532 0.2614 0.5
0.0737 0.2631 0.5
0.1097 0.2641 1
0.0206 0.2519 1
0.3539 0.2638 1
0.0203 0.2568 0.5
0.0327 0.2526 0.5
0.0742 0.2537 0.5
0.0546 0.2569 0.5
0.0532 0.2614 0.5
0.0443 0.261 1
0.0593 0.2506 0.5
0.1005 0.265 1
0.1242 0.2627 0.5
0.058 0.2527 0.5
0.1484 0.2571 0.5
0.0254 0.2512 0.5
0.0646 0.2612 0.5
0.087 0.2586 0.5
0.0328 0.2561 0.5
0.0654 0.2623 1
0.0753 0.2591 1
0.0929 0.2524 1
0.0447 0.2635 0.5
0.0718 0.2616 0.5
0.0547 0.2508 0.5
0.0905 0.2629 1
0.0374 0.2575 1
0.0247 0.2531 0.5
0.0575 0.264 0.5
0.0635 0.2573 0.5
0.0305 0.2568 0.3295
0.0849 0.2643 1
0.0232 0.2543 0.3308
0.0237 0.2523 1
0.0943 0.2594 1
0.0451 0.2536 0.5
0.1068 0.2568 0.5
0.1345 0.2643 1
0.1286 0.2616 0.5
0.0247 0.2531 0.5
0.1477 0.2647 1
0.0255 0.2597 0.5
0.0637 0.2515 0.5
0.1108 0.2531 1
0.0253 0.2508 0
0.1053 0.2551 0.5
0.033 0.2618 0.5
0.0221 0.2576 1
0.1269 0.2603 1
0.0467 0.2646 1
0.1016 0.2568 1
0.0076 0.2508 1
0.1225 0.2655 1
0.0899 0.2636 1
0.0113 0.257 0.5
0.0937 0.2527 0.5
0.0197 0.2546 1
0.2897 0.2591 1
0.1016 0.2568 1
0.0223 0.2552 1
0.0384 0.2603 1
0.0934 0.2641 1
0.1074 0.2629 0.5
0.0347 0.2571 0.5
0.0269 0.2506 0.5
0.0246 0.2577 1
0.0591 0.2531 0.5
0.0585 0.2616 0.5
0.0366 0.264 0.5
0.0463 0.2616 1
0.1104 0.2593 1
0.0382 0.2577 0.5
0.0425 0.2638 1
0.0796 0.2517 1
0.0637 0.258 0.5
0.0389 0.2602 1
0.0363 0.2626 0.5
0.0631 0.2541 0.5
0.0867 0.2643 0.5
0.1074 0.2629 0.5
0.0485 0.2548 1
0.0719 0.2622 0.5
0.0354 0.2541 0.5

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 TP0353 (Treponema pallidum), ribonuclease H (rnhA)
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