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51  structures 8406  species 11  interactions 34869  sequences 161  architectures

Clan: l-integrase_N (CL0469)


lambda integrase N-terminal domain Add an annotation

This superfamily is characterised by families having 4-5 helices in a bundle of two orthogonally packed alpha-hairpins that are involved in interactions with DNA and proteins.

This clan contains 7 families and the total number of domains in the clan is 34869. The clan was built by P Coggill.


This clan contains the following 7 member families:

Flp_N Phage_int_SAM_1 Phage_int_SAM_2 Phage_int_SAM_3 Phage_int_SAM_4 Phage_int_SAM_5 Phage_int_SAM_6

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
Phage_int_SAM_1 (PF02899) 17629 (50.6%) View
Phage_int_SAM_3 (PF14659) 6739 (19.3%) View
Phage_int_SAM_5 (PF13102) 5680 (16.3%) View
Phage_int_SAM_4 (PF13495) 4382 (12.6%) View
Phage_int_SAM_2 (PF12834) 373 (1.1%) View
Phage_int_SAM_6 (PF18644) 63 (0.2%) View
Flp_N (PF03930) 3 (0.0%) View
Total: 7 Total: 34869 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 11 interactions for this clan. More...

Interacting families
Arm-DNA-bind_1 Phage_int_SAM_1
Flp_C Flp_N
Flp_N Flp_C
Phage_int_SAM_1 Arm-DNA-bind_1
Phage_int_SAM_3 Phage_int_SAM_3
Phage_int_SAM_4 Phage_int_SAM_4
Phage_integrase Phage_int_SAM_4


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...