TB Genome Annotation Portal

Rv3465 (rmlC)

• Current annotations:
  • TBCAP: (community-based annotations - see table at bottom of page)
  • TBDB: dTDP-4-dehydrorhamnose 35-epimerase
  • REFSEQ: dTDP-4-dehydrorhamnose 35-epimerase RmlC
  • PATRIC: dTDP-4-dehydrorhamnose 35-epimerase (EC 5.1.3.13)
  • TUBERCULIST: dTDP-4-dehydrorhamnose 35-epimerase RmlC (dTDP-4-keto-6-deoxyglucose 35-epimerase) (dTDP-L-rhamnose synthetase) (thymidine diphospho-4-keto-rhamnose 35-epimerase)
  • NCBI: dTDP-4-dehydrorhamnose 3,5-epimerase RmlC (dTDP-4-keto-6-deoxyglucose 3,5-epimerase) (dTDP-L-rhamnose synthetase) (thymidine diphospho-4-keto-rhamnose 3,5-epimerase)
  • updated information (H37Rv4):
    • gene name: rmlC
    • function:
    • reference:
• Type: Not Target
• Start: 3882834
• End: 3883442
• Operon:


• Trans-membrane region:
  
• Role: I.C.3 - Sugar nucleotides
• GO terms:
  • GO:0045226 - extracellular polysaccharide biosynthetic process (Uniprot)
  • GO:0040007 - growth (Uniprot)
  • GO:0019305 - dTDP-rhamnose biosynthetic process (Uniprot)
  • GO:0016853 - isomerase activity (Uniprot)
  • GO:0008830 - dTDP-4-dehydrorhamnose 3,5-epimerase activity (Uniprot)
  • GO:0005515 - protein binding (Uniprot)
• Reaction(s) (based on iSM810 metabolic model):
  • DTDP4DH6DGLC[c] -> DTDP4DH6DMAN[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: 1pm7, 1upi, 2ixc
• Search for Homologs in PDB
• Top 10 Homologs in PDB (as of Nov 2020):
  

  PDB	aa ident	species	PDB title
  2IXC	100%	MYCOBACTERIUM TUBERCULOSIS	RmlC M. tuberculosis with dTDP-rhamnose
  1UPI	100%	MYCOBACTERIUM TUBERCULOSIS	Mycobacterium tuberculosis rmlC epimerase (Rv3465)
  1PM7	100%	Mycobacterium tuberculosis	RmlC (dTDP-6-DEOXY-D-XYLO-4-HEXULOSE 3,5-EPIMERASE)STRUCTURE FROM MYCOBACTERIUM TUBERCULOSIS AND INHIBITOR DESIGN. THE APO STRUCTURE.
  2C0Z	48%	STREPTOMYCES NIVEUS NCIMB 11891	The 1.6 A resolution crystal structure of NovW: a 4-keto-6-deoxy sugar epimerase from the novobiocin biosynthetic gene cluster of Streptomyces spheroides
  4HN0	46%	Streptomyces bikiniensis	Crystal Structure of ChmJ, a 3'-monoepimerase apoenzyme from Streptomyces bikiniensis
  4HMZ	46%	Streptomyces bikiniensis	Crystal Structure of ChmJ, a 3'-monoepimerase from Streptomyces bikiniensis in complex with dTDP-quinovose
  4HN1	45%	Streptomyces bikiniensis	Crystal Structure of H60N/Y130F double mutant of ChmJ, a 3'-monoepimerase from Streptomyces bikiniensis in complex with dTDP
  1EPZ	43%	Methanothermobacter thermautotrophicus	CRYSTAL STRUCTURE OF DTDP-6-DEOXY-D-XYLO-4-HEXULOASE 3,5-EPIMERASE FROM METHANOBACTERIUM THERMOAUTOTROPHICUM WITH BOUND LIGAND.
  1EP0	43%	Methanothermobacter thermautotrophicus	HIGH RESOLUTION CRYSTAL STRUCTURE OF DTDP-6-DEOXY-D-XYLO-4-HEXULOSE 3,5-EPIMERASE FROM METHANOBACTERIUM THERMOAUTOTROPHICUM
  1WA4	42%	AMYCOLATOPSIS ORIENTALIS	Crystal structure of the M131F L135A EvaD double mutant

• Links to additional information on rmlC:
  • TBDB (updated)
  • Phyre2 structure prediction, model: final.casp.pdb (from Mao et al, 2013)
  • UniProt
  • AlphaFold model
  • Vulnerability = -0.988 (from Jeremy Rock's lab)
  • KEGG - nucleotide and amino acid sequences of gene
  • Mycobrowser
  • PATRIC
  • BioCyc
  • Systems Biology

Amino Acid Sequence

MKARELDVPGAWEITPTIHVDSRGLFFEWLTDHGFRAFAGHSLDVRQVNCSVSSAGVLRGLHFAQLPPSQAKYVTCVSGSVFDVVVDIREGSPTFGRWDS
VLLDDQDRRTIYVSEGLAHGFLALQDNSTVMYLCSAEYNPQREHTICATDPTLAVDWPLVDGAAPSLSDRDAAAPSFEDVRASGLLPRWEQTQRFIGEMR
GT

Additional Information