Protein Family Models

A family of uncharacterised proteins found by clustering human gut metagenomic sequences [1]. This family appears related to the N-terminal domain of phage integrases. [1]. 20532204. Expansion of the protein repertoire in newly explored environments: human gut microbiome specific protein families. Ellrott K, Jaroszewski L, Weizhong L, Wooley J, Godzik, A. PLoS Computational Biology, 2010 (from Pfam)

Date:

2024-10-16

Date:

2024-08-14

Members of this family cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment. The catalytic site residues in CRE recombinase (Swiss:P06956) are Arg-173, His-289, Arg-292 and Tyr-324. [1]. 9082984. Flexibility in DNA recombination: structure of the lambda integrase catalytic core. Kwon HJ, Tirumalai R, Landy A, Ellenberger T;. Science 1997;276:126-131. [2]. 9288963. Structure of Cre recombinase complexed with DNA in a site-specific recombination synapse. Guo F, Gopaul DN, van Duyne GD;. Nature 1997;389:40-46. (from Pfam)

Date:

2024-10-16

Proteins of this family are site-specific tyrosine recombinases in Archaea. The recent study (PMID: 36383678) reported that they were the key components of archaeal integrons and were involved in cross-domain gene transfer.

Gene:

xerA

Date:

2023-11-21

Date:

2020-10-26

site-specific tyrosine recombinase acts by catalyzing the cutting and rejoining of recombining DNA molecules

Date:

2023-02-23

The phage integrase family describes a number of recombinases with tyrosine active sites that transiently bind covalently to DNA. Many are associated with mobile DNA elements, including phage, transposons, and phase variation loci. This model represents XerD, one of two closely related chromosomal proteins along with XerC (TIGR02224). XerC and XerD are site-specific recombinases which help resolve chromosome dimers to monomers for cell division after DNA replication. In species with a large chromosome and with homologs of XerD on other replicons, the chomosomal copy was preferred for building this model. This model does not detect all XerD, as some apparent XerD examples score below the trusted and noise cutoff scores. XerC and XerD interact with cell division protein FtsK.

Gene:

xerD

Date:

2023-07-15