Summary: Replicase family
Replicase family Provide feedback
This is a family of bacterial plasmid DNA replication initiator proteins. Pfam: PF01051 is a similar family. These RepA proteins exist as monomers and dimers in equilibrium: monomers bind directly to repeated DNA sequences and thus activate replication; dimers repress repA transcription by binding an inversely repeated DNA operator. Dimer dissociation can occur spontaneously or be mediated by Hsp70 chaperones.
Giraldo R, Diaz-Orejas R; , Proc Natl Acad Sci U S A 2001;98:4938-4943.: Similarities between the DNA replication initiators of Gram-negative bacteria plasmids (RepA) and eukaryotes (Orc4p)/archaea (Cdc6p). PUBMED:11296251 EPMC:11296251
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR004322
This is a family of bacterial plasmid DNA replication initiator proteins. These RepA proteins exist as monomers and dimers in equilibrium: monomers bind directly to repeated DNA sequences and thus activate replication; dimers repress repA transcription by binding an inversely repeated DNA operator. Dimer dissociation can occur spontaneously or may be mediated by Hsp70 chaperones. A similar RepA family of proteins found mainly in Escherichia coli is involved in plasmid replication (see INTERPRO).
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This example describes an architecture with one
Gladomain, followed by two consecutive
EGFdomains, and finally a single
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This clan includes the small subunit of 2 and eukaryotic DNA primase, and primase-helicase proteins from bacteriophages and plasmids. All known cellular life forms use primases to synthesis a short RNA primer which is extended during DNA replication by a polymerase. Bacterial DNA primase adopts a different fold to archaeal and eukaryotic primases and belongs to a different superfamily.
The clan contains the following 4 members:DNA_primase_S Herpes_UL52 Replicase VirE_N
We make a range of alignments for each Pfam-A family:
- the curated alignment from which the HMM for the family is built
- the alignment generated by searching the sequence database using the HMM
- Representative Proteomes (RPs) at 15%, 35%, 55% and 75% co-membership thresholds
- alignment generated by searching the NCBI sequence database using the family HMM
- alignment generated by searching the metagenomics sequence database using the family HMM
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Curation and family details
|Seed source:||Pfam-B_2424 (release 6.4)|
|Number in seed:||15|
|Number in full:||361|
|Average length of the domain:||124.40 aa|
|Average identity of full alignment:||36 %|
|Average coverage of the sequence by the domain:||38.95 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||12|
|Download:||download the raw HMM for this family|
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