Detailed view for Rv1326c

Basic information

TDR Targets ID: 6142
Mycobacterium tuberculosis, 1,4-alpha-glucan branching enzyme GlgB (glycogen branching enzyme)
Source Database / ID:  Tuberculist 

pI: 5.5454 | Length (AA): 731 | MW (Da): 81729 | 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

PF00128   Alpha amylase, catalytic domain
PF02806   Alpha amylase, C-terminal all-beta domain
PF02922   Carbohydrate-binding module 48 (Isoamylase N-terminal domain)

Gene Ontology

Mouse over links to read term descriptions.
GO:0004553   hydrolase activity, hydrolyzing O-glycosyl compounds  
GO:0003844   1,4-alpha-glucan branching enzyme activity  
GO:0043169   cation binding  
GO:0003824   catalytic activity  
GO:0005978   glycogen biosynthetic process  
GO:0005975   carbohydrate metabolic process  

Structural information

Modbase 3D models:

There is 1 model calculated for this protein. More info on this model, including the model itself is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
10 731 3k1d (A) 10 731 99.99 0 1 2.20149 -1.24

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:

PDB tag
  • 3K1D:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile Dormant phase. murphy
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Dormant phase. hasan
Show/Hide expression data references
  • murphy Identification of gene targets against dormant phase Mycobacterium tuberculosis infections.
  • hasan Prioritizing genomic drug targets in pathogens: application to Mycobacterium tuberculosis.

Orthologs

Ortholog group members (OG5_127579)

Species Accession Gene Product
Arabidopsis thaliana AT2G36390   1,4-alpha-glucan branching enzyme 2-1
Arabidopsis thaliana AT5G03650   1,4-alpha-glucan branching enzyme
Brugia malayi Bm1_02775   1,4-alpha-glucan branching enzyme
Candida albicans CaO19.13067   likely glycogen branching enzyme
Candida albicans CaO19.5622   likely glycogen branching enzyme
Caenorhabditis elegans CELE_T04A8.7   Protein T04A8.7, isoform B
Cryptosporidium hominis Chro.60381   1,4-alpha-glucan branching enzyme
Cryptosporidium parvum cgd6_3280   glycogen branching enzyme (1,4-alpha-glucan branching enzyme)
Chlamydia trachomatis CT_866   1,4-alpha-glucan branching enzyme
Dictyostelium discoideum DDB_G0274105   1,4-alpha-glucan branching enzyme
Drosophila melanogaster Dmel_CG33138   1,4-Alpha-Glucan Branching Enzyme
Escherichia coli b3432   1,4-alpha-glucan branching enzyme
Echinococcus granulosus EgrG_000239850   glucan 14 alpha branching enzyme 1
Entamoeba histolytica EHI_106090   1,4-alpha-glucan branching enzyme, putative
Entamoeba histolytica EHI_038160   1,4-alpha-glucan branching enzyme, putative
Echinococcus multilocularis EmuJ_000239850   glucan (1,4 alpha), branching enzyme 1
Giardia lamblia GL50803_15823   1,4-alpha-glucan branching enzyme
Homo sapiens ENSG00000114480   glucan (1,4-alpha-), branching enzyme 1
Loa Loa (eye worm) LOAG_06995   hypothetical protein
Mus musculus ENSMUSG00000022707   glucan (1,4-alpha-), branching enzyme 1
Mycobacterium tuberculosis Rv1326c   1,4-alpha-glucan branching enzyme GlgB (glycogen branching enzyme)
Mycobacterium ulcerans MUL_3936   glycogen branching protein
Neospora caninum NCLIV_058980   1,4-alpha-glucan branching enzyme, putative
Neospora caninum NCLIV_004200   hypothetical protein
Oryza sativa 4329532   Os02g0528200
Oryza sativa 4342117   Os06g0726400
Saccharomyces cerevisiae YEL011W   1,4-alpha-glucan branching enzyme
Schistosoma japonicum Sjp_0065120   ko:K00700 1,4-alpha-glucan branching enzyme [EC2.4.1.18], putative
Schistosoma mansoni Smp_094880   starch branching enzyme II
Schmidtea mediterranea mk4.001372.07   1,4-alpha-glucan-branching enzyme
Schmidtea mediterranea mk4.001372.05  
Schmidtea mediterranea mk4.001372.06  
Schmidtea mediterranea mk4.001372.08   1,4-alpha-glucan-branching enzyme
Schmidtea mediterranea mk4.011524.03   1,4-alpha-glucan-branching enzyme
Schmidtea mediterranea mk4.005975.02   1,4-alpha-glucan-branching enzyme
Toxoplasma gondii TGME49_209960   glycosyltransferase
Toxoplasma gondii TGME49_316520   1,4-alpha-glucan-branching enzyme
Trichomonas vaginalis TVAG_453180   amylase, putative
Trichomonas vaginalis TVAG_276310   starch branching enzyme II, putative

Essentiality

Rv1326c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu1349 this record Mycobacterium tuberculosis essential nmpdr
b3432 Escherichia coli non-essential goodall
CELE_T04A8.7 Caenorhabditis elegans embryonic lethal wormbase
CELE_T04A8.7 Caenorhabditis elegans slow growth wormbase
TGME49_316520 Toxoplasma gondii Essentiality uncertain sidik
TGME49_209960 Toxoplasma gondii Essentiality uncertain sidik
TGME49_316520 Toxoplasma gondii Probably non-essential sidik
TGME49_209960 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs

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): 0.3

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

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0364 0.4199 1
0.0366 0.2605 0.5
0.0057 0.3408 0.5
0.0097 0.3881 1
0.0314 0.3687 1
0.0255 0.2699 1
0.0288 0.3758 1
0.0315 0.3953 1
0.0105 0.2881 1
0.0364 0.4199 1
0.0105 0.2983 0.4351
0.0371 0.3991 1
0.0105 0.2881 1
0.027 0.3584 1
0.0049 0.3789 1
0.0366 0.4149 1
0.0049 0.3789 1
0.0442 0.4398 1
0.0272 0.2947 1

Assayability

Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

1 literature reference was collected for this gene.

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Gene identifier Rv1326c (Mycobacterium tuberculosis), 1,4-alpha-glucan branching enzyme GlgB (glycogen branching enzyme)
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