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191  structures 4674  species 0  interactions 12354  sequences 168  architectures

Clan: Rep (CL0169)


Rep-like domain Add an annotation

This clan includes replication proteins for viruses and plasmids. This domain is known to bind DNA. The members of this clan have three motifs. The central HXH is conserved in most families in the clan.

This clan contains 15 families and the total number of domains in the clan is 12354. The clan was built by A Bateman.


This clan contains the following 15 member families:

DUF1424 Gemini_AL1 Mob_Pre MobA_MobL MobL Phage_GPA PPV_E1_DBD PV_NSP1 Relaxase Rep_1 Rep_2 Rep_N T_Ag_DNA_bind TrwC Viral_Rep

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
Relaxase (PF03432) 4617 (37.4%) View
TrwC (PF08751) 1977 (16.0%) View
MobA_MobL (PF03389) 1925 (15.6%) View
Mob_Pre (PF01076) 1172 (9.5%) View
Gemini_AL1 (PF00799) 571 (4.6%) View
Viral_Rep (PF02407) 459 (3.7%) View
Phage_GPA (PF05840) 452 (3.7%) View
MobL (PF18555) 347 (2.8%) View
PPV_E1_DBD (PF20450) 268 (2.2%) View
Rep_1 (PF01446) 258 (2.1%) View
Rep_2 (PF01719) 174 (1.4%) View
T_Ag_DNA_bind (PF02217) 94 (0.8%) View
DUF1424 (PF07232) 26 (0.2%) View
Rep_N (PF08724) 11 (0.1%) View
PV_NSP1 (PF12433) 3 (0.0%) View
Total: 15 Total: 12354 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...



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...