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InterPro: IPR005471 Transcriptional regulator IclR, N-terminal

Protein matches Help

UniProtKB

Matches:

4519 proteins

Overview:	sorted by AC,	sorted by name,	of known structure,	proteins with splice variants
Detailed:	sorted by AC,	sorted by name,	of known structure	proteins with splice variants
Table:	For all matching proteins,	of known structure
Architectures
Accession List
Matches in BioMart

Accession

IPR005471 Transcript_reg_IclR_N

Secondary

IPR000285

Type

Domain

Signatures Help

Database	ID	Name	Proteins
Pfam	PF09339	HTH_IclR	4493
PROSITE profile	PS51077	HTH_ICLR	4325
SMART	SM00346	HTH_ICLR	3595
Signatures in BioMart

InterPro Relationships Help

Found in

IPR012794 Beta-ketoadipate transcriptional regulator, PcaR/PcaU/PobR

GO Term annotation Help

Process

GO:0006355 regulation of transcription, DNA-dependent

Function

GO:0003677 DNA binding

InterPro annotation

Entry Details in BioMart

Abstract

The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these subfamilies, called 'iclR', groups several proteins including:

gylR, a possible activator protein for the gylABX glycerol operon in Streptomyces.

iclR, the repressor of the acetate operon (also known as glyoxylate bypass operon) in Escherichia coli and Salmonella typhimurium.

These proteins have a Helix-Turn-Helix motif at the N terminus that is similar to that of other DNA-binding proteins [1].

Structural links Help

PDB - click here

SCOP: a.4.5.33 , d.110.2.2

CATH: 1.10.10.10 , 1.20.5.640 , 3.30.450.40

Database links Help

PROSITE doc: PDOC00807

Pfam Clan: CL0123.14

AC	CL0123.14
ID	HTH
DE	Helix-turn-helix clan
PF00046	IPR001356	Homeobox
PF00126	IPR000847	HTH transcriptional regulator, LysR
PF00165	IPR000005	Helix-turn-helix, AraC type
PF00196	IPR000792	Transcription regulator LuxR, C-terminal
PF00325	IPR001808	HTH transcriptional regulator, Crp
PF00356	IPR000843	HTH transcriptional regulator, LacI
PF00376	IPR000551	HTH transcriptional regulator, MerR
PF00392	IPR000524	HTH transcriptional regulator, GntR
PF00440	IPR001647	Transcriptional regulator, TetR-like, DNA-binding, bacterial/archaeal
PF00486	IPR001867	Signal transduction response regulator, C-terminal
PF01022	IPR001845	HTH transcriptional regulator, ArsR
PF01047	IPR000835	HTH transcriptional regulator, MarR
PF01316	IPR020900	Arginine repressor, DNA-binding domain
PF01325	IPR001367	Iron dependent repressor
PF01371	IPR000831	Trp repressor
PF01381	IPR001387	Helix-turn-helix type 3
PF01418	IPR000281	Helix-turn-helix protein RpiR
PF01475	IPR002481	Ferric-uptake regulator
PF01527	IPR002514	Transposase IS3/IS911
PF01638	IPR002577	Helix-turn-helix, HxlR type
PF01726	IPR006199	LexA, DNA-binding domain
PF01978	IPR002831	Transcriptional regulator TrmB
PF02001	IPR002852	Uncharacterised protein family UPF0251
PF02002	IPR002853	Transcription factor TFIIE, alpha subunit
PF02082	IPR000944	Transcriptional regulator, Rrf2
PF02295	IPR000607	Double-stranded RNA-specific adenosine deaminase (DRADA)
PF02319	IPR003316	Transcription factor E2F/dimerisation partner (TDP)
PF02796	IPR006120	Resolvase, helix-turn-helix domain
PF02954	IPR002197	Helix-turn-helix, Fis-type
PF03444	IPR005104	Protein of unknown function DUF293, archaea
PF03551	IPR005149	Transcriptional regulator PadR N-terminal-like
PF03811	IPR003220	Insertion element protein
PF03965	IPR005650	Penicillinase repressor
PF04218	IPR006695	Centromere protein Cenp-B, DNA-binding domain 1
PF04297	IPR007394	Putative helix-turn-helix protein, YlxM/p13-like
PF04545	IPR007630	RNA polymerase sigma-70 region 4
PF04552	IPR007634	RNA polymerase sigma factor 54, DNA-binding
PF04703	IPR006793	FaeA-like protein
PF04967	IPR007050	Bacterio-opsin activator, HTH
PF05043	IPR007737	M trans-acting positive regulator
PF05225	IPR007889	Helix-turn-helix, Psq
PF05269	IPR007933	Bacteriophage CII
PF05331	IPR007995	Protein of unknown function DUF742
PF05584	IPR008848	Plasmid regulator, Sulfolobaceae
PF05732	IPR008813	Firmicute plasmid replication
PF05920	IPR008422	Mating-type protein, fungi
PF05930	IPR010260	Prophage CP4-57 regulatory
PF06056	IPR010332	ATPase terminase subunit, putative
PF06163	IPR010382	Protein of unknown function DUF977, bacterial
PF06530	IPR010534	Phage antitermination Q-like
PF06971	IPR009718	Rex DNA-binding, C-terminal
PF07022	IPR010744	Bacteriophage CI repressor
PF07106	IPR010776	Tat binding protein 1-interacting
PF07453	IPR010896	Nuclease-associated modular DNA-binding 1
PF07638	IPR011517	RNA polymerase sigma-70 ECF-like
PF07750	IPR011681	GcrA cell cycle regulator
PF07825	IPR012884	Excisionase-like
PF07848	IPR012906	PaaX-like, N-terminal
PF07900	IPR012872	Protein of unknown function DUF1670
PF08100	IPR012967	Plant methyltransferase dimerisation
PF08220	IPR001034	HTH transcriptional regulator, DeoR N-terminal
PF08221	IPR013197	RNA polymerase III subunit RPC82-related, helix-turn-helix
PF08222	IPR013198	GTP-sensing helix-turn-helix, CodY, C-terminal
PF08279	IPR013196	Helix-turn-helix, type 11
PF08280	IPR013199	Helix-turn-helix Mga, DNA-binding trans-acting positive regulator
PF08281	IPR013249	RNA polymerase sigma factor 70, region 4 type 2
PF08299	IPR013159	Chromosomal replication initiator, DnaA C-terminal
PF08461	IPR013668	Ribonuclease R winged-helix domain
PF08914	IPR015010	Rap1 Myb
PF09202	IPR015285	RIO2 kinase, winged helix, N-terminal
PF09339	IPR005471	Transcriptional regulator IclR, N-terminal

Taxonomic coverage Help

Overlapping InterPro entries Help

IPR005471

Numbers of overlapping proteins

Average numbers of overlapping amino acids

Example proteins Help

P0ACN4 HTH-type transcriptional repressor allR

More proteins

Example Proteins Key

InterPro entry accession number/name and structure databases		Colour code
IPR005471	Transcriptional regulator IclR, N-terminal
IPR014757	Transcriptional regulator IclR, C-terminal
	SWISS-MODEL
	PDB Chain
	ModBase
	SCOP Domain
	CATH Domain

Publications Open in usermanual
1.	Reverchon S, Nasser W, Robert-Baudouy J. Characterization of kdgR, a gene of Erwinia chrysanthemi that regulates pectin degradation. Mol. Microbiol. 5 2203-16 1991 [PubMed: 1840643] http://dx.doi.org/10.1111/j.1365-2958.1991.tb02150.x

Additional Reading Open in usermanual
	Molina-Henares AJ, Krell T, Eugenia Guazzaroni M, Segura A, Ramos JL. Members of the IclR family of bacterial transcriptional regulators function as activators and/or repressors. FEMS Microbiol. Rev. 30 2006 157-86 [PubMed: 16472303] http://dx.doi.org/10.1111/j.1574-6976.2005.00008.x
	Zhang RG, Kim Y, Skarina T, Beasley S, Laskowski R, Arrowsmith C, Edwards A, Joachimiak A, Savchenko A. Crystal structure of Thermotoga maritima 0065, a member of the IclR transcriptional factor family. J. Biol. Chem. 277 2002 19183-90 [PubMed: 11877432] http://dx.doi.org/10.1074/jbc.M112171200
	Walker JR, Altamentova S, Ezersky A, Lorca G, Skarina T, Kudritska M, Ball LJ, Bochkarev A, Savchenko A. Structural and biochemical study of effector molecule recognition by the E.coli glyoxylate and allantoin utilization regulatory protein AllR. J. Mol. Biol. 358 2006 810-28 [PubMed: 16546208] http://dx.doi.org/10.1016/j.jmb.2006.02.034
	Lorca GL, Ezersky A, Lunin VV, Walker JR, Altamentova S, Evdokimova E, Vedadi M, Bochkarev A, Savchenko A. Glyoxylate and pyruvate are antagonistic effectors of the Escherichia coli IclR transcriptional regulator. J. Biol. Chem. 282 2007 16476-91 [PubMed: 17426033] http://dx.doi.org/10.1074/jbc.M610838200

InterPro 23.1