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97  structures 3210  species 5  interactions 11656  sequences 125  architectures

Clan: YkuD (CL0508)


L,D-transpeptidase catalytic domain Add an annotation

This superfamily incldues the L,D-transpeptidase catalytic domain.

This clan contains 2 families and the total number of domains in the clan is 11656. The clan was built by A Bateman.


This clan contains the following 2 member families:

YkuD YkuD_2

External database links

Domain organisation

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

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

Pfam family Num. domains Alignment
YkuD (PF03734) 11018 (94.5%) View
YkuD_2 (PF13645) 638 (5.5%) View
Total: 2 Total: 11656 Clan alignment

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Family relationships

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

Species distribution

Tree controls


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



There are 5 interactions for this clan. More...

Interacting families
LysM YkuD
PG_binding_4 YkuD
YkuD LysM


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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