Letunic et al. (2017) Nucleic Acids Res doi: 10.1093/nar/gkx922
Letunic et al. (2020) Nucleic Acids Res doi: 10.1093/nar/gkaa937

• HOME
• SETUP
• FAQ
• ABOUT
• GLOSSARY
• WHAT'S NEW
• FEEDBACK

LysM Lysin motif

SMART accession number:	SM00257
Description:	-
Interpro abstract (IPR018392):	The LysM (lysin motif) domain is a small globular domain, approximately 40 amino acids long. It is a widespread protein module involved in binding peptidoglycan in bacteria and chitin in eukaryotes. The domain was originally identified in enzymes that degrade bacterial cell walls [ (PUBMED:1352512) ], but proteins involved in many other biological functions also contain this domain. It has been reported that the LysM domain functions as a signal for specific plant-bacteria recognition in bacterial pathogenesis [ (PUBMED:15120137) ]. Many of these enzymes are modular and are composed of catalytic units linked to one or several repeats of LysM domains. LysM domains are found in bacteria and eukaryotes [ (PUBMED:10369758) ].
Family alignment:	View or CHROMA formatHMM/Web logoCLUSTALW formatMSF formatFASTA formatPIR format

There are 136958 LysM domains in 89509 proteins in SMART's nrdb database.

Click on the following links for more information.

• Evolution (species in which this domain is found)

• Taxonomic distribution of proteins containing LysM domain.

  This tree includes only several representative species. The complete taxonomic breakdown of all proteins with LysM domain is also avaliable.

  Click on the protein counts, or double click on taxonomic names to display all proteins containing LysM domain in the selected taxonomic class.

• Metabolism (metabolic pathways involving proteins which contain this domain)

• Click the image to view the interactive version of the map in iPath

  % proteins involved KEGG pathway ID Description 50.00 map00550 Peptidoglycan biosynthesis 27.85 map00530 Aminosugars metabolism 4.43 map00240 Pyrimidine metabolism 4.43 map00230 Purine metabolism 3.16 map00760 Nicotinate and nicotinamide metabolism 2.53 map00780 Biotin metabolism 2.53 map00310 Lysine degradation 2.53 map02010 ABC transporters - General 0.63 map00511 N-Glycan degradation 0.63 map00562 Inositol phosphate metabolism 0.63 map00632 Benzoate degradation via CoA ligation 0.63 map01032 Glycan structures - degradation This information is based on mapping of SMART genomic protein database to KEGG orthologous groups. Percentage points are related to the number of proteins with LysM domain which could be assigned to a KEGG orthologous group, and not all proteins containing LysM domain. Please note that proteins can be included in multiple pathways, ie. the numbers above will not always add up to 100%.

• Structure (3D structures containing this domain)

• 3D Structures of LysM domains in PDB

  PDB code	Main view	Title
  1e0g		LYSM Domain from E.coli MLTD
  1y7m		Crystal Structure of the B. subtilis YkuD protein at 2 A resolution
  2djp		The solution structure of the LysM domain of human hypothetical protein SB145
  2l9y		Solution structure of the MoCVNH-LysM module from the rice blast fungus Magnaporthe oryzae protein (MGG_03307)
  2mkx		2MKX
  2mpw		2MPW
  2mtz		2MTZ
  3zqd		B. subtilis L,D-transpeptidase
  4a1i		ykud from B.subtilis
  4a1j		Ykud L,D-transpeptidase from b.subtilis
  4a1k		Ykud L,D-transpeptidase
  4a52		NMR structure of the imipenem-acylated L,D-transpeptidase from Bacillus subtilis
  4b8v		Cladosporium fulvum LysM effector Ecp6 in complex with a beta-1,4- linked N-acetyl-D-glucosamine tetramer
  4b9h		Cladosporium fulvum LysM effector Ecp6 in complex with a beta-1,4- linked N-acetyl-D-glucosamine tetramer: I3C heavy atom derivative
  4pxv		4PXV
  4s3j		4S3J
  4s3k		4S3K
  4uz2		4UZ2
  4uz3		4UZ3
  4xcm		4XCM
  5bum		5BUM
  5c8o		5C8O
  5c8p		5C8P
  5c8q		5C8Q
  5fim		5FIM
  5jce		5JCE

• Links (links to other resources describing this domain)

• INTERPRO	IPR018392

Send comments to Ivica Letunic