TB Genome Annotation Portal

Rv0858c (dapC)

• Current annotations:
  • TBCAP: (community-based annotations - see table at bottom of page)
  • TBDB: aminotransferase
  • REFSEQ: aminotransferase
  • PATRIC: putative aminotransferase
  • TUBERCULIST: Probable N-succinyldiaminopimelate aminotransferase DapC (DAP-at)
  • NCBI: Probable N-succinyldiaminopimelate aminotransferase DapC (DAP-at)
  • updated information (H37Rv4):
    • gene name: dapC?
    • function: might be mis-annotated (Rv1178 is probably the real DapC)
    • reference:
• Type: Not Target
• Start: 953727
• End: 954920
• Operon:


• Trans-membrane region:
  
• Role: IV.H - Miscellaneous transferases
• GO terms:
  • GO:0030170 - pyridoxal phosphate binding (Uniprot)
  • GO:0016740 - transferase activity (Uniprot)
  • GO:0009089 - lysine biosynthetic process via diaminopimelate (Uniprot)
  • GO:0009085 - lysine biosynthetic process (Uniprot)
  • GO:0009058 - biosynthetic process (Uniprot)
  • GO:0009016 - succinyldiaminopimelate transaminase activity (Uniprot)
  • GO:0008652 - cellular amino acid biosynthetic process (Uniprot)
  • GO:0008483 - transaminase activity (Uniprot)
  • GO:0005737 - cytoplasm (Uniprot)
  • GO:0005618 - cell wall (Uniprot)
  • GO:0005515 - protein binding (Uniprot)
  • GO:0003824 - catalytic activity (Uniprot)
• Reaction(s) (based on iSM810 metabolic model):
  • GLU[c] + SAOPIM[c] <=> AKG[c] + SDAPIM[c]
• Gene Expression Profile (Transcriptional Responses to Drugs; Boshoff et al, 2004)
• Gene Modules extracted from cluster analysis of 249 transcriptomic datasets using ICA
• Orthologs among selected mycobacteria
• Protein structure: 2o0r
• Search for Homologs in PDB
• Top 10 Homologs in PDB (as of Nov 2020):
  

  PDB	aa ident	species	PDB title
  2O0R	100%	Mycobacterium tuberculosis	The three-dimensional structure of N-Succinyldiaminopimelate aminotransferase from Mycobacterium tuberculosis
  1V2F	41%	Thermus thermophilus	Crystal Structure of T.th HB8 Glutamine Aminotransferase complex with 3-phenylpropionate
  1V2E	41%	Thermus thermophilus	Crystal Structure of T.th HB8 Glutamine Aminotransferase complex with a-keto-g-methylthiobutyrate
  1V2D	41%	Thermus thermophilus	Crystal Structure of T.th HB8 Glutamine Aminotransferase
  1U08	38%	Escherichia coli	Crystal Structure and Reactivity of YbdL from Escherichia coli Identify a Methionine Aminotransferase Function.
  5VER	36%	Mus musculus	MOUSE KYNURENINE AMINOTRANSFERASE III, RE-REFINEMENT OF THE PDB STRUCTURE 3E2Z
  5VEQ	36%	Mus musculus	MOUSE KYNURENINE AMINOTRANSFERASE III, RE-REFINEMENT OF THE PDB STRUCTURE 3E2Y
  5VEP	36%	Mus musculus	MOUSE KYNURENINE AMINOTRANSFERASE III, RE-REFINEMENT OF THE PDB STRUCTURE 3E2F
  3E2Z	36%	Mus musculus	Crystal structure of mouse kynurenine aminotransferase III in complex with kynurenine
  3E2Z	36%	Mus musculus	Crystal structure of mouse kynurenine aminotransferase III in complex with kynurenine

• Links to additional information on dapC:
  • TBDB (updated)
  • Phyre2 structure prediction, model: final.casp.pdb (from Mao et al, 2013)
  • UniProt
  • AlphaFold model
  • Vulnerability = 1.142 (from Jeremy Rock's lab)
  • KEGG - nucleotide and amino acid sequences of gene
  • Mycobrowser
  • PATRIC
  • BioCyc
  • Systems Biology

Amino Acid Sequence

MTVSRLRPYATTVFAEMSALATRIGAVNLGQGFPDEDGPPKMLQAAQDAIAGGVNQYPPGPGSAPLRRAIAAQRRRHFGVDYDPETEVLVTVGATEAIAA
AVLGLVEPGSEVLLIEPFYDSYSPVVAMAGAHRVTVPLVPDGRGFALDADALRRAVTPRTRALIINSPHNPTGAVLSATELAAIAEIAVAANLVVITDEV
YEHLVFDHARHLPLAGFDGMAERTITISSAAKMFNCTGWKIGWACGPAELIAGVRAAKQYLSYVGGAPFQPAVALALDTEDAWVAALRNSLRARRDRLAA
GLTEIGFAVHDSYGTYFLCADPRPLGYDDSTEFCAALPEKVGVAAIPMSAFCDPAAGQASQQADVWNHLVRFTFCKRDDTLDEAIRRLSVLAERPAT

Additional Information

*** misannotation: DapC should be Rv1178 instead of Rv0858c ***