Detailed view for Rv1018c

Basic information

TDR Targets ID: 6147
Mycobacterium tuberculosis, Probable UDP-N-acetylglucosamine pyrophosphorylase GlmU
Source Database / ID:  Tuberculist 

pI: 5.9757 | Length (AA): 495 | MW (Da): 51584 | 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

PF00132   Bacterial transferase hexapeptide (six repeats)
PF12804   MobA-like NTP transferase domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0019134   glucosamine-1-phosphate N-acetyltransferase activity  
GO:0006048   UDP-N-acetylglucosamine biosynthetic process  
GO:0005737   cytoplasm  
GO:0016740   transferase activity  
GO:0003977   UDP-N-acetylglucosamine diphosphorylase activity  
GO:0003824   catalytic activity  
GO:0000287   magnesium ion binding  
GO:0009252   peptidoglycan biosynthetic process  
GO:0009103   lipopolysaccharide biosynthetic process  
GO:0008299   isoprenoid biosynthetic process  
GO:0000902   cell morphogenesis  

Structural information

Modbase 3D models:

There are 3 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
6 480 4g3q (A) 6 480 99.99 0 1 2.1586 -1.11
363 449 4n6b (D) 158 248 37.00 0 1 0.673458 -1.17
403 451 3f1x (A) 249 297 33.00 0.61 0.94 0.57679 -0.78

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
  • 1KGQ:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 1KGT:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 1TDT:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 2QKX:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 2TDT:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3D8V:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3D98:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3DJ4:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3DK5:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3FOQ:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3SPT:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3ST8:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3TDT:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 4G3P:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 4G3Q:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 4G3S:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 4G87:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 4HCQ:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 4K6R:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 6GE9:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile Dormant phase. hasan
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Dormant phase. murphy
Show/Hide expression data references
  • hasan Prioritizing genomic drug targets in pathogens: application to Mycobacterium tuberculosis.
  • murphy Identification of gene targets against dormant phase Mycobacterium tuberculosis infections.

Orthologs

Ortholog group members (OG5_131193)

Species Accession Gene Product
Escherichia coli b3730   fused N-acetyl glucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyl transferase
Mycobacterium leprae ML0249c   Probable UDP-N-acetylglucosamine pyrophosphorylase GlmU
Mycobacterium tuberculosis Rv1018c   Probable UDP-N-acetylglucosamine pyrophosphorylase GlmU
Mycobacterium ulcerans MUL_4637   bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase
Wolbachia endosymbiont of Brugia malayi Wbm0088   N-acetylglucosamine-1-phosphate uridyltransferase

Essentiality

Rv1018c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu1034 this record Mycobacterium tuberculosis essential nmpdr
b3730 Escherichia coli essential goodall
Show/Hide essentiality data references
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • 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

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): 0.2

Known modulators for this target

Compound Source Reference
ChEMBL23 References
ChEMBL23 References
ChEMBL23 References
ChEMBL23 References
ChEMBL23 References
ChEMBL23 References
ChEMBL23 References
ChEMBL23 References
ChEMBL23 References
ChEMBL23 References
ChEMBL23 References

Predicted associations

By orthology with druggable targets
Species Known druggable target Linked compounds Reference
Escherichia coli fused N-acetyl glucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyl transferase Compounds References
Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4) Bifunctional protein GlmU 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
0.0619 0.8193 0.9947
0.3617 1 1
0.0611 0.4013 1
0.2232 1 1
0.4914 1 1
0.1225 0.5482 0.6679
0.2304 1 1
0.0584 0.3975 1
0.0632 0.4011 1
0.7369 1 1
0.2292 1 1
0.0641 0.3925 1
0.0673 0.816 1
0.0617 0.4237 1
0.0684 0.3914 1
0.7369 1 1
0.4244 1 1
0.0638 0.2748 0.6841
0.1716 1 1
0.1243 0.6684 1
0.2321 1 1
0.0557 0.5032 1
0.3412 1 1
0.3023 1 1
0.4833 1 1
0.4245 0.4222 1
0.0587 0.3923 1
0.0684 0.8176 1
0.0532 0.5629 1
0.2259 1 1
0.7628 1 1
0.5466 1 1
0.0684 0.3914 1
1.3552 0.3259 1
0.2263 0.7614 1
0.4245 0.4222 1
0.0617 0.3833 1
0.4245 0.4222 1
0.0684 0.4185 1
0.6052 0.5456 1
0.0684 1 0.5
0.0581 0.7024 1
0.0607 0.2743 0.9055
0.027 0.4776 1
0.3716 1 1
0.1116 1 1
0.4555 0.5529 1
0.1243 1 1
0.0684 0.6253 1
0.1243 1 1
0.0684 0.39 1
0.0596 1 1
0.6625 0.3037 1
0.58 1 1
1.09664 1 1
0.6625 0.6098 1
0.1149 0.349 1
0.675 1 1
0.6596 1 1
0.4555 0.5529 1
0.4245 0.4222 1
0.6258 0.3602 1
0.0613 0.3903 1
0.0684 0.693 1
0.0549 0.2978 0.2968
0.4421 1 1
0.7181 0.4838 1
0.8854 1 1
0.173 1 1
0.3552 1 1
0.1105 1 1
0.6427 1 1
0.4245 0.4222 1
0.0684 0.6795 1
0.4245 0.4222 1
0.8173 0.4271 1
0.0684 1 1
1.5575 1 1
0.0607 0.2743 0.9055
0.0684 1 1
0.0585 0.366 1
0.58 1 1
0.0641 0.3925 1
1.1748 0.2608 1
0.0684 0.4185 1
0.0684 1 1
0.6385 1 1
0.5673 1 1
0.173 1 1
0.0638 0.2748 0.6841
0.4472 1 1
0.6052 0.5456 1
0.112 1 1
0.479 1 1
0.061 0.4095 1
0.4245 0.4222 1
0.4555 0.5529 1
0.0684 1 1
0.4612 1 1
0.4245 0.4222 1
0.4472 1 1
0.0559 1 1
0.8244 1 1
0.1243 1 1
0.0596 0.5998 1
0.234 1 1
0.4555 0.5529 1
0.0578 1 1
0.7369 1 1
0.4335 1 1
0.0684 0.3914 1
0.0684 0.3865 1
0.1081 1 1
0.1114 0.9661 1
0.2952 1 1
0.0617 0.4093 1
0.6992 0.8257 1
0.1485 0.3758 1
0.1692 1 1
0.4245 0.4222 1
0.4245 0.4222 1
0.1039 0.8288 1
0.0635 0.4236 1
0.0552 0.3158 1
0.6573 0.6324 1
0.8244 1 1
0.0567 1 1
0.3489 1 1
0.1705 1 1
0.6624 1 1
0.0598 0.3825 1
0.8244 1 1
0.0669 0.4224 1
0.2851 1 1
0.2944 1 1
0.2377 1 1
0.4245 0.4222 1
0.2272 1 1
0.0684 1 1
0.0686 0.8156 1
0.4555 0.5529 1
0.7881 1 1
0.2259 1 1
0.194256 1 1
0.0578 0.911 1
0.0582 0.6928 1
0.3601 1 1
0.0684 1 1
0.7319 0.3735 1
0.058 0.8164 1
0.0584 0.3315 1
0.0684 0.3839 1
0.3099 1 1
0.4245 0.4222 1
0.1149 0.349 1
0.675 1 1
0.2457 1 1
0.3709 0.3097 1
0.0684 1 1
0.8244 1 1
0.0665 0.4318 1
0.3585 1 1
0.2894 1 1
0.0684 1 1
1.1748 0.2608 1
0.1938 1 1
0.1733 1 1
0.0672 0.4318 1
0.3535 1 1
0.3457 1 1
1.213 0.5309 1
0.06 0.6516 1
0.0401 0.41 1
0.6992 0.8257 1
0.0684 0.305 0.5
0.066 0.2556 1
0.1243 0.9038 1
0.0607 0.5106 1
0.3122 1 1
0.6945 1 1
0.0663 0.6172 1
0.0579 0.795 1
0.0208 0.4087 1
0.7689 1 1
0.0684 0.8189 1
0.8244 1 1
0.4555 0.5529 1
0.4245 0.4222 1
0.1182 0.6219 1
0.4555 0.5529 1
0.3884 1 1
0.2377 1 1
0.6992 0.8257 1
0.7881 1 1
0.708 0.5714 1
0.363 1 1
0.0641 0.3919 1
0.2961 1 1
0.7313 1 1
0.0408 0.3354 1
0.1036 1 1
0.1149 0.349 1
0.06 0.3939 1
0.0684 1 1
0.0684 0.3597 1
1.3552 0.3259 1
0.0549 0.2978 0.2968
0.1145 1 1
1.3476 1 1
0.3603 1 1
0.4245 0.4222 1
0.341 1 1
0.6945 1 1
0.0531 0.6528 1
0.4555 0.5529 1
0.0395346 0.529875 1
0.6579 1 1
0.0642 0.5267 1
0.0486 0.6007 1
0.7267 1 1
0.0551 0.2981 0.3164
0.0549 1 1
0.0684 0.8194 0.9947
0.4749 1 1
0.0684 0.6627 1
0.4245 0.4222 1
0.0684 0.6795 1
0.039068 0.673188 1
1.1748 0.2608 1
0.2898 1 1
1.1748 0.2608 1
0.6624 1 1
0.115 1 1
0.0596 1 1
0.054 0.3006 1
0.0651 0.4224 1
0.1681 1 1
0.0599 1 1
0.5013 1 1
0.6596 1 1
0.4822 1 1
0.0631 0.4315 1
0.0212 0.8161 1
0.049 0.3879 0.6982
0.0596768 0.678998 0.928935
0.0684 1 1
0.6992 1 1
0.7267 1 1
0.0607 0.2743 0.9055
0.0277 0.3081 1
0.0684 1 1
0.0486 0.6007 1
0.0684 0.39 1
0.0684 1 1
0.0596 0.8166 1
1.1748 0.2608 1
0.4245 0.4222 1
0.0686 0.8156 1
0.0684 0.3914 1
0.4555 0.5529 1
0.194886 1 1
0.2952 1 1
0.7369 1 1
0.8244 1 1
0.0564 0.8893 1
0.1182 0.6219 1
0.066 0.2556 1
0.0684 1 1
0.0565 0.3926 1
0.0548 0.3529 1
0.4749 1 1
0.0684 0.6627 1
0.0410377 0.283496 0
0.4245 0.4222 1
0.0564 0.8339 1
0.4555 0.5529 1
0.5673 1 1
0.0555 0.3484 1
0.0684 0.6795 1
0.0684 1 1
0.0902 0.9468 1
0.3036 1 1
0.0397272 1 1
0.0581 0.3825 1
0.4245 0.4222 1
0.1733 1 1
0.0684 1 1
0.2991 1 1
0.0673 0.816 1
0.0588 0.8166 1
0.0547 0.3095 0.3081
0.0556 0.3931 1
0.0684 0.7872 1
0.8586 0.4271 1
0.0609 0.4119 1
0.0552 0.4435 1
0.4555 0.5529 1
0.0637 0.6704 1
0.8244 1 1
0.2991 1 1
0.4555 0.5529 1
0.3872 1 1
0.1243 0.6684 1
0.0845 0.3548 0.3585
0.3019 1 1
0.0684 0.8197 1
0.0902 0.3589 0.3583
0.3573 1 1

Assayability

Assay information

  • ChEMBL
  • PUBCHEM_BIOASSAY: Inhibitors of Mycobacterial Glucosamine-1-phosphate acetyl transferase (GlmU). Secondary screen. (Class of assay: confirmatory)

Reagent availability

No reagent availability information for this target.

Bibliographic References

No literature references available for this target.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

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Gene identifier Rv1018c (Mycobacterium tuberculosis), Probable UDP-N-acetylglucosamine pyrophosphorylase GlmU
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