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Family
Accession number
Description
Faimily comment
Interpro Accession
Abstract
Clan summary
Number of members
Clan members
QuickGO
Literature References
Database References
Alignment
Curation
HMM build information
HMM build commands
Family Interactions

Pfam | PF01476 | LysM domain

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Family
LysM
Accession number
PF01476
Description
LysM domain
Faimily comment
The LysM (lysin motif) domain is about 40 residues long. It is found in a variety of enzymes involved in bacterial cell wall degradation [1]. This domain may have a general peptidoglycan binding function. The structure of this domain is known [2].
Interpro Accession
Abstract
This domain is about 40 residues long and is found in a varietyof enzymes involved in bacterial cell wall degradation PUBMED:1352512 . Thisdomain may have a general peptidoglycan binding function.
Clan summary
LysM-like domainLysM(CL0187)The LysM domain (Pfam:PF01476) is thought to be a general peptidoglycan-binding module. Although originally described in bacterial proteins, it has been also found in some eukaryotic sequences. It takes up a beta-alpha-alpha-beta conformation, with the beta strands forming an antiparallel beta sheet and the two alpha helices packing on one side of this sheet [1].
Number of members
2
Clan members
OapA; Phage_tail_X
QuickGO
process:cell wall macromolecule catabolic processGO:0016998
Literature References
TitleModular design of the Enterococcus hirae muramidase-2 and Streptococcus faecalis autolysin.
Publication AuthorJoris B, Englebert S, Chu CP, Kariyama R, Daneo-Moore L, Shockman GD, Ghuysen JM;
JournalFEMS Microbiol Lett 1992;70:257-264.
PubMed ID1352512
 
TitleThe structure of a LysM domain from E. coli membrane-bound lytic murein transglycosylase D (MltD).
Publication AuthorBateman A, Bycroft M;
JournalJ Mol Biol 2000;299:1113-1119.
PubMed ID10843862
 
Database References
SCOP1e0g
Alignment
Seed alignmentFull alignmentNCBI alignmentMeta sequence alignment
1589681117043959
Curation
Source of seed membersPrevious IDsType definitionAuthor of entryNumber in seedNumber in fullAverage Domain LengthAverage IdentityAverage CoverageModel LengthFamily Version
Bateman APG_binding_2; DomainBateman A158968144.3 aa29.00 %9.91 %4413
HMM build information
SequenceDomain
Gathering cutoff:20.911.8
Trusted cutoff:20.911.8
Noise cutoff:20.811.7
HMM build commands
Build methodhmmbuild -o /dev/null HMM SEED
Search methodhmmsearch -Z 9421015 -E 1000 HMM pfamseq