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294  structures 8729  species 8  interactions 54873  sequences 1130  architectures

Clan: LysM (CL0187)

Summary

LysM-like domain Add an annotation

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].

This clan contains 7 families and the total number of domains in the clan is 54873. The clan was built by M Fenech.

Literature references

  1. Bateman A, Bycroft M; , J Mol Biol 2000;299:1113-1119.: The structure of a LysM domain from E. coli membrane-bound lytic murein transglycosylase D (MltD). PUBMED:10843862 EPMC:10843862

Members

This clan contains the following 7 member families:

gp37_C LysM OapA Phage-Gp8 Phage_gp53 Phage_tail_X T4_gp9_10

External database links

Domain organisation

Below is a listing of the unique domain organisations or architectures from this clan. More...

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Alignments

The table below shows the number of occurrences of each domain throughout the sequence database. More...

Pfam family Num. domains Alignment
LysM (PF01476) 52751 (96.1%) View
OapA (PF04225) 940 (1.7%) View
Phage_tail_X (PF05489) 758 (1.4%) View
Phage_gp53 (PF11246) 129 (0.2%) View
T4_gp9_10 (PF07880) 127 (0.2%) View
Phage-Gp8 (PF09215) 86 (0.2%) View
gp37_C (PF12604) 82 (0.1%) View
Total: 7 Total: 54873 Clan alignment
 

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Family relationships

This diagram shows the relationships between members of this clan. More...

Species distribution

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This tree shows the occurrence of the domains in this clan across different species. More...

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Interactions

There are 8 interactions for this clan. More...

Interacting families
A B
CVNH LysM
gp37_C gp37_C
LysM LysM
YkuD
OapA Peptidase_M23
Phage-Gp8 Phage-Gp8
T4_gp9_10 T4_gp9_10
YkuD LysM

Structures

For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the MSD group, to allow us to map Pfam domains onto UniProt three-dimensional structures. The table below shows the mapping between the Pfam families in this clan, the corresponding UniProt entries, and the region of the three-dimensional structures that are available for that sequence.

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