Detailed view for TP0683

Basic information

TDR Targets ID: 596056
Treponema pallidum, octaprenyl-diphosphate synthase
Source Database / ID:  KEGG  

pI: 9.7132 | Length (AA): 364 | MW (Da): 40170 | 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

PF00348   Polyprenyl synthetase

Gene Ontology

Mouse over links to read term descriptions.
GO:0008299   isoprenoid biosynthetic process  

Structural information

Modbase 3D models:

There are 5 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
12 373 1rqj (A) 22 319 26.00 0 1 0.970212 0.46
33 372 1wmw (A) 2 328 26.00 0 1 1.19986 -0.22
35 373 3oyr (B) 21 334 26.00 0 1 1.1792 -0.24
99 140 4kk2 (A) 67 111 40.00 0.66 0.04 0.402506 0.32
106 267 2azj (A) 61 215 30.00 0.0000014 0.58 0.562808 0.44

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_129071)

Species Accession Gene Product
Arabidopsis thaliana AT3G20160   geranylgeranyl pyrophosphate synthase 10
Arabidopsis thaliana AT1G49530   geranylgeranyl pyrophosphate synthase 6
Brugia malayi Bm1_07565   geranylgeranyl pyrophosphate synthetase
Candida albicans CaO19.6674   geranylgeranyl diphosphate synthase
Dictyostelium discoideum DDB_G0293588   geranylgeranyl diphosphate synthase 1
Drosophila melanogaster Dmel_CG8593   quemao
Echinococcus granulosus EgrG_000614600   geranylgeranyl pyrophosphate synthase
Echinococcus multilocularis EmuJ_000614600   geranylgeranyl pyrophosphate synthase
Homo sapiens ENSG00000152904   geranylgeranyl diphosphate synthase 1
Leishmania braziliensis LbrM.19.0530   polyprenyl synthase, putative
Leishmania donovani LdBPK_190210.1   polyprenyl synthase, putative
Leishmania infantum LinJ.19.0210   polyprenyl synthase, putative
Leishmania major LmjF.19.0220   polyprenyl synthase, putative
Leishmania mexicana LmxM.19.0220   polyprenyl synthase, putative
Loa Loa (eye worm) LOAG_10096   geranylgeranyl pyrophosphate synthetase
Mus musculus ENSMUSG00000021302   geranylgeranyl diphosphate synthase 1
Saccharomyces cerevisiae YPL069C   farnesyltranstransferase
Schistosoma japonicum Sjp_0306100   ko:K00787 dimethylallyltranstransferase [EC2.5.1.1], putative
Schistosoma japonicum Sjp_0093830   Geranylgeranyl pyrophosphate synthetase, putative
Schistosoma mansoni Smp_134230   geranylgeranyl pyrophosphate synthase
Schmidtea mediterranea mk4.004783.01   Geranylgeranyl pyrophosphate synthase
Schmidtea mediterranea mk4.004783.03  
Schmidtea mediterranea mk4.004783.02  
Schmidtea mediterranea mk4.009336.00  
Schmidtea mediterranea mk4.004219.00  
Trypanosoma congolense TcIL3000_10_12710   Hydroxyneurosporene synthase (CrtC)/Polyprenyl synthetase, putative
Trypanosoma cruzi TcCLB.511289.80   polyprenyl synthase, putative
Trypanosoma cruzi TcCLB.506211.150   polyprenyl synthase, putative
Treponema pallidum TP0683   octaprenyl-diphosphate synthase

Essentiality

No essentiality data collected for this gene and/or its orthologs.

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 geranylgeranyl diphosphate synthase 1 Compounds References
Saccharomyces cerevisiae farnesyltranstransferase Compounds References
By sequence similarity to non orthologous druggable targets
Species Target Length Identity Alignment span Linked Drugs Reference
Trypanosoma cruzi solanesyl-diphosphate synthase, putative 173 aa 26.1% 161 aa Compounds References
Trypanosoma cruzi solanesyl-diphosphate synthase, putative 292 aa 27.9% 237 aa Compounds References
Trypanosoma cruzi solanesyl-diphosphate synthase 363 aa 25.5% 325 aa Compounds References
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0686 0.3604 0.5
0.0159 1 0.5
0.0635 1 0.5
0.0808 0.584 1
0.0412 0.3303 0.5
0.1109 0.3611 1
0.13 0.4795 1
0.0127 0.294 1
0.0959 0.4523 0.5
0.0754 0.5002 1
0.0787 0.3024 0.5
0.0604 0.7019 0.5
0.0516 0.4461 1
0.0407 1 1
0.6394 0.2695 0.2694
0.0742 0.2827 1
0.6394 0.2695 0.2694
0.0295 1 1
0.0205 0.5635 0.5
0.1737 0.3345 1
0.0523 0.7672 1
0.0665 0.8098 0.5
0.1109 0.3611 1
0.0608 0.4108 0.5
0.0592 0.5411 1
0.0311 0.2638 0
0.0127 0.294 1
0.0787 0.3024 0.5
0.0959 0.4523 0.5
0.059 0.3682 0.5
0.0582 0.3585 1
0.0605 0.3985 0.5
0.0127 0.5 0.5
0.0582 0.3585 1
0.074 0.8859 0.5
0.0094 0.2984 0.5
0.0711 0.3503 0.5
0.0619 0.2573 1
0.0226 1 0.5
0.0362 0.2913 0.5
0.0898 0.3717 1
0.0665 0.3099 0.5
0.0903 0.2776 0.5
0.0255 0.2805 1
0.51 0.3584 1
0.075 0.2966 1
0.0948 0.3679 1
0.1547 0.3367 1
0.149 0.3321 0.331
0.0582 0.3585 1
0.0245 1 1
0.0727 0.2691 1
0.0608 0.4108 0.5
0.055 0.6421 1
0.1948 0.2756 1
0.0263 0.2855 0.5
0.055 0.6421 1
0.0127 0.5 0.5
0.0169 0.5 0.5
0.0386 1 1
0.0634 0.711 0.5
0.1341 0.3355 0.5
0.0836993 1 1
0.0255 0.5 0.5
0.0536 0.576 1
0.176 0.9932 1
0.1547 0.3367 1
0.0665 0.3099 0.5
0.1547 0.3367 1
0.0727 0.2691 1
0.1027 0.5439 1
0.0727 0.2691 1
0.0746 1 0.5
0.1392 0.3606 1
0.059 0.3682 0.5
0.0787 0.3024 0.5
0.0903 0.2776 0.5
0.0348 0.3757 1
0.0199 0.5322 0.5
0.5559 0.2745 0.2745
0.0223 0.5658 0.5
0.0742 0.2827 1
0.0536 0.576 1
0.0506 1 0.5
0.0619 0.2573 1
0.0407 1 1
0.0523 0.7672 1
0.0821 0.3415 0.5
0.0604 0.7019 0.5
0.0826 0.4955 1
0.0754 0.5002 1
0.0494 1 0.5
0.0255 0.5 0.5
0.0136 1 0.5
0.0615 0.3945 0.5
0.0526 1 1
0.0194 0.6401 0.2755
0.0685 0.3563 1
0.0787 0.3024 0.5
0.0536 0.576 1
0.1547 0.3367 1
0.149 0.3321 0.331
0.0635 0.7344 0.5
0.0245 1 1
0.0531 0.4126 0.5
0.0488 1 1
0.0898 0.3717 1
0.0787 0.3024 0.5
0.0190923 1 0.5
0.0251 1 0.5
0.0456 0.4028 0.5
0.0255 0.5 0.5
0.0454 0.509 1
0.0413096 0.288375 0.5
0.0551 0.632 0.5
0.0413096 0.288375 0.5
0.126 0.3587 1
0.0427 1 1
0.0159 1 0.5
0.0356 1 1
0.0239 1 0.5
0.0134076 0.303295 1
0.0338 0.2675 1
0.0354 0.3062 1
0.0375 0.3435 0.5
0.0609 0.3453 0.5
0.0709 0.2719 1
0.0094 0.3186 1
0.0587 0.4207 0.5
0.0674 0.3519 0.5
0.2159 0.3432 1
0.6394 0.2695 0.2694
0.0959 0.4523 0.5
0.0354 0.361 1
0.0619 0.2573 1
0.5433 0.3597 1
0.0181 0.3462 0.5
0.0787 0.3024 0.5
0.0401 0.2614 0.5
0.0947 1 0.5
0.149 0.3321 0.331
0.0205 0.5635 0.5
0.0787 0.3024 0.5
0.0235 0.3674 0.5
0.1277 0.2969 1
0.0959 0.4523 0.5
1.1622 0.3868 1
0.0644 0.3571 0.5
0.0742 0.2827 1
1.1622 0.3868 1
0.139 0.3613 1
1.1622 0.3868 1
0.0424 1 1
0.0151 1 0.5
0.1093 1 1
0.0239 0.3052 0.6663
0.0754 0.5002 1
0.0742 0.2827 1
0.0317 0.4069 0.5
0.149 0.3321 0.331
1.0703 0.4146 1
0.0194 0.6401 0.2755
0.0437 1 1
0.0742 0.2827 1
0.06 1 0.5
0.51 0.3584 1
0.0285 0.4545 1
0.1341 0.3355 0.5
0.0959 0.4523 0.5
0.0362 0.2913 0.5
0.5887 0.414 1
0.0823 0.3232 1
0.062 0.3826 0.5
0.0611 0.3929 1
0.0787 0.3024 0.5
0.0591 1 1
0.0407 1 1
0.0354 0.3062 1
0.0354 0.361 1
0.0619 0.2573 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.

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Gene identifier TP0683 (Treponema pallidum), octaprenyl-diphosphate synthase
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