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InterPro: IPR001387 Helix-turn-helix type 3

Protein matches Help

UniProtKB

Matches:

27064 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

IPR001387 HTH_3

Type

Domain

Signatures Help

Database	ID	Name	Proteins
Pfam	PF01381	HTH_3	23735
PROSITE profile	PS50943	HTH_CROC1	25134
SMART	SM00530	HTH_XRE	25641
Signatures in BioMart

InterPro Relationships Help

Parent

IPR010982 Lambda repressor-like, DNA-binding

Found in

IPR013430 Addiction module antidote protein, HigA
IPR013435 Mobile mystery protein A
IPR016429 Bifunctional transcriptional regulator NadR
IPR016472 Transcriptional regulator, MJ0621, predicted
IPR016759 RapGH repressor
IPR017158 Transcriptional regulator, CBS domain-containing, predicted
IPR017271 HTH transcriptional regulator, MJ1545, predicted
IPR017507 Transcriptional regulator, HipB-like
IPR020886 HTH transcriptional regulator, cro/C1-type DNA-binding domain-containing

GO Term annotation Help

Function

GO:0043565 sequence-specific DNA binding

InterPro annotation

Entry Details in BioMart

Abstract

This is large family of DNA binding helix-turn helix proteins that include a bacterial plasmid copy control protein, bacterial methylases, various bacteriophage transcription control proteins and a vegetative specific protein from Dictyostelium discoideum (Slime mould).

Structural links Help

PDB - click here

SCOP: a.35.1.11 , a.35.1.12 , a.35.1.13 , a.35.1.2 , a.35.1.3 , a.35.1.8

CATH: 1.10.260.40

Database links Help

PROSITE doc: PDOC50943

PANDIT: PF01381

Blocks: IPB001387

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

IPR001387

Numbers of overlapping proteins

Average numbers of overlapping amino acids

Example proteins Help

O14467 Multiprotein-bridging factor 1

O60869 Endothelial differentiation-related factor 1

P06533 HTH-type transcriptional regulator sinR

Q9JMG1 Endothelial differentiation-related factor 1

Q9LV58 Multiprotein-bridging factor 1c

More proteins

Example Proteins Key

InterPro entry accession number/name and structure databases		Colour code
IPR010981	SinR repressor/SinI anti-repressor, dimerisation
IPR001387	Helix-turn-helix type 3
IPR010982	Lambda repressor-like, DNA-binding
IPR013729	Multiprotein bridging factor 1, N-terminal
	SWISS-MODEL
	PDB Chain
	ModBase
	CATH Domain
	SCOP Domain

Publications Help

Additional Reading Open in usermanual
	Watkins D, Hsiao C, Woods KK, Koudelka GB, Williams LD. P22 c2 repressor-operator complex: mechanisms of direct and indirect readout. Biochemistry 47 2008 2325-38 [PubMed: 18237194] http://dx.doi.org/10.1021/bi701826f
	McGeehan JE, Streeter SD, Papapanagiotou I, Fox GC, Kneale GG. High-resolution crystal structure of the restriction-modification controller protein C.AhdI from Aeromonas hydrophila. J. Mol. Biol. 346 2005 689-701 [PubMed: 15713456] http://dx.doi.org/10.1016/j.jmb.2004.12.025
	Higgins LJ, Yan F, Liu P, Liu HW, Drennan CL. Structural insight into antibiotic fosfomycin biosynthesis by a mononuclear iron enzyme. Nature 437 2005 838-44 [PubMed: 16015285] http://dx.doi.org/10.1038/nature03924
	Kabe Y, Goto M, Shima D, Imai T, Wada T, Morohashi K, Shirakawa M, Hirose S, Handa H. The role of human MBF1 as a transcriptional coactivator. J. Biol. Chem. 274 1999 34196-202 [PubMed: 10567391] http://dx.doi.org/10.1074/jbc.274.48.34196
	Steinmetzer K, Behlke J, Brantl S, Lorenz M. CopR binds and bends its target DNA: a footprinting and fluorescence resonance energy transfer study. Nucleic Acids Res. 30 2002 2052-60 [PubMed: 11972345] http://dx.doi.org/10.1093/nar/30.9.2052
	Shi K, Brown CK, Gu ZY, Kozlowicz BK, Dunny GM, Ohlendorf DH, Earhart CA. Structure of peptide sex pheromone receptor PrgX and PrgX/pheromone complexes and regulation of conjugation in Enterococcus faecalis. Proc. Natl. Acad. Sci. U.S.A. 102 2005 18596-601 [PubMed: 16339309] http://dx.doi.org/10.1073/pnas.0506163102
	Takemaru K, Li FQ, Ueda H, Hirose S. Multiprotein bridging factor 1 (MBF1) is an evolutionarily conserved transcriptional coactivator that connects a regulatory factor and TATA element-binding protein. Proc. Natl. Acad. Sci. U.S.A. 94 1997 7251-6 [PubMed: 9207077] http://dx.doi.org/10.1073/pnas.94.14.7251
	Rumpel S, Becker S, Zweckstetter M. High-resolution structure determination of the CylR2 homodimer using paramagnetic relaxation enhancement and structure-based prediction of molecular alignment. J. Biomol. NMR 40 2008 1-13 [PubMed: 18026911] http://dx.doi.org/10.1007/s10858-007-9204-4
	Aggarwal AK, Rodgers DW, Drottar M, Ptashne M, Harrison SC. Recognition of a DNA operator by the repressor of phage 434: a view at high resolution. Science 242 1988 899-907 [PubMed: 3187531] http://www.sciencemag.org/cgi/content/abstract/242/4880/899
	Lewis RJ, Brannigan JA, Offen WA, Smith I, Wilkinson AJ. An evolutionary link between sporulation and prophage induction in the structure of a repressor:anti-repressor complex. J. Mol. Biol. 283 1998 907-12 [PubMed: 9799632] http://dx.doi.org/10.1006/jmbi.1998.2163

InterPro 23.1