rocR
168
transcriptional activator of arginine utilization operons
locus
BSU_40350
Molecular weight
52.01 kDa
pI
6.08
function
transcriptional activator of arginine utilization operons
product
transcriptional activator
essential
no
synonyms
rocR
Outlinks
Genomic Context
Categories containing this gene/protein
List of homologs in different organisms, belongs to COG3829 (Galperin et al., 2021)
This gene is a member of the following regulons
Gene
Coordinates
4,145,747 → 4,147,132
Phenotypes of a mutant
''rocR'' is unable to use arginine as the sole nitrogen source, indicating that RocR is a positive regulator of arginine catabolism. [pubmed|8113162]
The protein
Catalyzed reaction/ biological activity
has ATPase activity: ATP + H2O --> ADP + H+ + phosphate [pubmed|37343703]
transcription activation at [protein|1118A21CC581B0470EC6E7C178F2523CDCA70F93|sigL]-dependent promoters of [gene|69838717DC6BB27864D88C282BF5BC7CC558BFD7|rocABC], [gene|617FE9E40E8822D58B0446128585CB6CA05A50C6|rocDEF], and [gene|56CBEBCFEF5CFB4A0175498338C7AF2F45EAA3E3|rocG] [pubmed|37343703]
Protein family
[protein|1118A21CC581B0470EC6E7C178F2523CDCA70F93| Sigma-54] interacting transcription activator
[wiki|Transcription factors activating transcription at SigL-dependent promoters]
[wiki|Domains]
N-terminal [wiki|PAS domain] (aa 10-125) for effector (ornithine) binding [pubmed|37343703]
central [wiki|Sigma-54 factor interaction domain] and AAA+ ATPase domain (aa 143-372) [pubmed|37343703]
2x nucleotid-binding domain (171–178),(233–242)
HTH motif (434–453)
[wiki|Cofactors]
ornithine is required for ATPase activity and RocR-dependent transcription activation [pubmed|37343703]
Structure
[PDB|1OJL] (from Salmonella typhimurium, corresponds to aa 143 ... 454, 41% identity) [pubmed|16005641]
[AF|P38022]
Effectors of protein activity
ornithine is required for ATPase activity and RocR-dependent transcription activation [pubmed|37343703]
ATP binding and hydrolysis are required for the formation of the transcriptionally active hexamers [pubmed|37343703]
Expression and Regulation
Operons
genes
[gene|BEE6F16D6A5BBC7FED9E8EB5FA6A94BBF932BBDA|rocR]
description
[pubmed|22383849]
regulation
autoregulation by [protein|BEE6F16D6A5BBC7FED9E8EB5FA6A94BBF932BBDA|rocR] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids= 7540694 PubMed]
regulatory mechanism
[protein|BEE6F16D6A5BBC7FED9E8EB5FA6A94BBF932BBDA|rocR]: autorepression, [Pubmed|2548995], in [regulon|protein:BEE6F16D6A5BBC7FED9E8EB5FA6A94BBF932BBDA|rocR regulon]
[protein|D267AF38B0CF107042326E9B8F3DD3C9C85840E4|lexA]: autorepression, in [regulon|protein:D267AF38B0CF107042326E9B8F3DD3C9C85840E4|lexA regulon]
sigma factors
[protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|sigA]: sigma factor, [PubMed|7540694], in [regulon|protein:360F48D576DE950DF79C1A2677B7A35A8D8CC30C|sigA regulon]
Biological materials
Mutant
GP2312 (Δ[gene|BEE6F16D6A5BBC7FED9E8EB5FA6A94BBF932BBDA|rocR]::''tet'', available in [wiki|Jörg Stülke]'s lab)
QB5533 (aphA3), from [wiki|Michel Debarbouille], available in [wiki|Jörg Stülke]'s lab
1A911 ( ''rocR''::''kan''), [Pubmed|16585774], available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A911&Search=1A911 BGSC]
BKE40350 (Δ[gene|BEE6F16D6A5BBC7FED9E8EB5FA6A94BBF932BBDA|rocR]::''erm'', available in the BGSC, in [wiki|Fabian Commichau]'s, and in [wiki|Jörg Stülke]'s lab) [pubmed|28189581]
BKE40350 (Δ[gene|BEE6F16D6A5BBC7FED9E8EB5FA6A94BBF932BBDA|rocR]::erm trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKE40350 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CACTGTATGAACCTCCCTCA, downstream forward: _UP4_CAATATCGGCTGAAGAAATT
BKK40350 (Δ[gene|BEE6F16D6A5BBC7FED9E8EB5FA6A94BBF932BBDA|rocR]::kan trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKK40350 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CACTGTATGAACCTCCCTCA, downstream forward: _UP4_CAATATCGGCTGAAGAAATT
Expression vectors
pGP3855: IPTG inducible expression, purification in ''E. coli'' with N-terminal His-tag, in [wiki|pWH844], available in [wiki|Jörg Stülke]'s lab [Pubmed|37343703]
pGP3856 (N-terminal 6xHis-SUMO-tag, purification from E. coli, in pET-SUMO), available in [wiki|Jörg Stülke]'s lab
FLAG-tag construct
GP4091 ''rocR-3xFLAG spc'' (based on [wiki|pGP1331]), available in [wiki|Jörg Stülke]'s lab
labs
[wiki|Michel Debarbouille], Pasteur Institute, Paris, France [http://www.pasteur.fr/ip/easysite/go/03b-00000m-0ob/recherche/departements-scientifiques/microbiologie/unites-et-groupes/unite-de-biologie-des-bacteries-pathogenes-a-gram-positif/les-membres-de-l-equipe Homepage]
References
Reviews
Original Publications
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Time of last update: 2024-12-30 20:13:10
Author of last update: Jstuelk