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91  structures 20284  species 16  interactions 38771  sequences 231  architectures

Clan: DNA_ligase (CL0078)


DNA/RNA ligase superfamily Add an annotation

This superfamily contains both ATP-dependent and NAD dependent DNA ligase enzymes. The family also includes mRNA capping enzymes. The members of this clan were shown to be related by sequence in [1].

This clan contains 4 families and the total number of domains in the clan is 38771. The clan was built by A Bateman.

Literature references

  1. Aravind L, Koonin EV; , J Mol Biol 1999;287:1023-1040.: Gleaning non-trivial structural, functional and evolutionary information about proteins by iterative database searches. PUBMED:10222208 EPMC:10222208


This clan contains the following 4 member families:

DNA_ligase_A_M DNA_ligase_aden mRNA_cap_enzyme RNA_ligase

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
DNA_ligase_aden (PF01653) 23009 (59.3%) View
DNA_ligase_A_M (PF01068) 13590 (35.1%) View
RNA_ligase (PF09414) 1188 (3.1%) View
mRNA_cap_enzyme (PF01331) 984 (2.5%) View
Total: 4 Total: 38771 Clan alignment

Please note: Clan alignments can be very large and can cause problems for some browsers. Read the note above before viewing.

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 16 interactions for this clan. More...

Interacting families
DNA_ligase_A_C DNA_ligase_A_M
DNA_ligase_A_M DNA_ligase_A_C
DNA_ligase_A_N DNA_ligase_A_M
DNA_ligase_aden DNA_ligase_aden
DNA_ligase_OB_2 DNA_ligase_A_M
mRNA_cap_C mRNA_cap_enzyme
mRNA_cap_enzyme mRNA_cap_C
mRNA_triPase mRNA_cap_enzyme
RNA_ligase RNA_ligase


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.

Loading structure mapping...