PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Araha.42148s0002.1.p

Organism

Arabidopsis halleri

Taxonomic ID

81970

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis

Family

HB-other

Protein Properties

Length: 266aa MW: 30243.9 Da PI: 6.5064

Description

HB-other family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Araha.42148s0002.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	20.7	7.3e-07	199	226	28	55
HHHHHHHHHCTS-HHHHHHHHHHHHHHH CS Homeobox 28 eereeLAkklgLterqVkvWFqNrRake 55 +e+ LA+++gL+++q+ +WF N+R ++ Araha.42148s0002.1.p 199 SEKVALAESTGLDQKQINNWFINQRKRH 226 67789********************885 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM01255	7.6E-23	131	175	IPR005540	KNOX1
Pfam	PF03790	1.3E-22	132	173	IPR005540	KNOX1
SMART	SM00389	0.0048	132	233	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	7.3E-16	171	232	IPR009057	Homeodomain-like
Pfam	PF05920	1.6E-9	198	225	IPR008422	Homeobox KN domain
CDD	cd00086	5.77E-8	198	230	No hit	No description
PROSITE profile	PS50071	9.701	198	229	IPR001356	Homeobox domain
SuperFamily	SSF46689	6.84E-10	199	241	IPR009057	Homeodomain-like
PROSITE pattern	PS00027	0	204	227	IPR017970	Homeobox, conserved site

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0001708	Biological Process	cell fate specification
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0010051	Biological Process	xylem and phloem pattern formation
GO:0010089	Biological Process	xylem development
GO:0005634	Cellular Component	nucleus
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 266 aa Download sequence Send to blast
MEEFQHENSS TPQRVSFLYS PISSSNNNNN NNNNNNNNNN NSSNYGPGYN NTNNNNHHHQ 60 HMLFPHMSSL LPQNTENCFR SDHDQPNNNN PSVKSEASSS RINHYSMLMR AIHNTQEANN 120 NTNNDNVSDV EAMKAKIIAH PHYSTLLQAY LDCQKIGAPP EVVDRITAAR QDFEARQQRP 180 TPSVSASSRD PELDQFMESE KVALAESTGL DQKQINNWFI NQRKRHWKPS EDMQFMVMDG 240 LQHPHHAALY MDGHYMGDGP YRLGP*

Functional Description ? help Back to Top
Source	Description
UniProt	May play a role in meristem function, and may be involved in maintaining cells in an undifferentiated, meristematic state, and its expression disappears at the same time the shoot apex undergoes the transition from vegetative to reproductive development (PubMed:11934861). Positive regulator of LATERAL ORGAN BOUNDARIES (LOB) (PubMed:11934861). Probably binds to the DNA sequence 5'-TGAC-3' (PubMed:11934861). Able to traffic from the L1 to the L2/L3 layers of the meristem, presumably through plasmodesmata (PubMed:12900451). {ECO:0000269\|PubMed:11934861, ECO:0000269\|PubMed:12900451, ECO:0000269\|PubMed:7866029}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Araha.42148s0002.1.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Negatively regulated by ASYMMETRIC LEAVES1 (AS1) and ASYMMETRIC LEAVES2 (AS2).

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AF482995	0.0	AF482995.1 Arabidopsis thaliana RLD homeodomain protein KNAT1/BP mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010455229.1	1e-109	PREDICTED: homeobox protein knotted-1-like 1 isoform X1
Refseq	XP_010455230.1	1e-109	PREDICTED: homeobox protein knotted-1-like 1 isoform X2
Swissprot	P46639	1e-100	KNAT1_ARATH; Homeobox protein knotted-1-like 1
TrEMBL	D7M8A9	1e-102	D7M8A9_ARALL; Uncharacterized protein
TrEMBL	F8SLZ9	1e-102	F8SLZ9_ARALY; Knox-like protein 1
STRING	XP_010455229.1	1e-109	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6566	23	35

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G08150.1	6e-91	KNOTTED-like from Arabidopsis thaliana

Link Out ? help Back to Top
Phytozome	Araha.42148s0002.1.p

Publications ? help Back to Top
dela Paz JS, et al. Chromosome fragile sites in Arabidopsis harbor matrix attachment regions that may be associated with ancestral chromosome rearrangement events. PLoS Genet., 2012. 8(12): p. e1003136 [PMID:23284301] Liu C, et al. Phosphatidylserine synthase 1 is required for inflorescence meristem and organ development in Arabidopsis. J Integr Plant Biol, 2013. 55(8): p. 682-95 [PMID:23931744] Liu B, et al. NEVERSHED and INFLORESCENCE DEFICIENT IN ABSCISSION are differentially required for cell expansion and cell separation during floral organ abscission in Arabidopsis thaliana. J. Exp. Bot., 2013. 64(17): p. 5345-57 [PMID:23963677] Simonini S,Kater MM Class I BASIC PENTACYSTEINE factors regulate HOMEOBOX genes involved in meristem size maintenance. J. Exp. Bot., 2014. 65(6): p. 1455-65 [PMID:24482368] Scofield S,Dewitte W,Murray JA STM sustains stem cell function in the Arabidopsis shoot apical meristem and controls KNOX gene expression independently of the transcriptional repressor AS1. Plant Signal Behav, 2018. [PMID:24776954] Lee JE,Lampugnani ER,Bacic A,Golz JF SEUSS and SEUSS-LIKE 2 coordinate auxin distribution and KNOXI activity during embryogenesis. Plant J., 2014. 80(1): p. 122-35 [PMID:25060324] Rast-Somssich MI, et al. Alternate wiring of a KNOXI genetic network underlies differences in leaf development of A. thaliana and C. hirsuta. Genes Dev., 2015. 29(22): p. 2391-404 [PMID:26588991] Duplat-Bermúdez L,Ruiz-Medrano R,Landsman D,Mariño-Ramírez L,Xoconostle-Cázares B Transcriptomic analysis of Arabidopsis overexpressing flowering locus T driven by a meristem-specific promoter that induces early flowering. Gene, 2016. 587(2): p. 120-31 [PMID:27154816] Li Z, et al. Transcription factors AS1 and AS2 interact with LHP1 to repress KNOX genes in Arabidopsis. J Integr Plant Biol, 2016. 58(12): p. 959-970 [PMID:27273574] Lozano-Sotomayor P, et al. Altered expression of the bZIP transcription factor DRINK ME affects growth and reproductive development in Arabidopsis thaliana. Plant J., 2016. 88(3): p. 437-451 [PMID:27402171] Frangedakis E,Saint-Marcoux D,Moody LA,Rabbinowitsch E,Langdale JA Nonreciprocal complementation of KNOX gene function in land plants. New Phytol., 2017. 216(2): p. 591-604 [PMID:27886385] Woerlen N, et al. Repression of BLADE-ON-PETIOLE genes by KNOX homeodomain protein BREVIPEDICELLUS is essential for differentiation of secondary xylem in Arabidopsis root. Planta, 2017. 245(6): p. 1079-1090 [PMID:28204875] Douglas SJ,Li B,Kliebenstein DJ,Nambara E,Riggs CD A novel Filamentous Flower mutant suppresses brevipedicellus developmental defects and modulates glucosinolate and auxin levels. PLoS ONE, 2017. 12(5): p. e0177045 [PMID:28493925] Wang X, et al. Overexpressed BRH1, a RING finger gene, alters rosette leaf shape in Arabidopsis thaliana. Sci China Life Sci, 2018. 61(1): p. 79-87 [PMID:28887625] Simonini S,Stephenson P,Østergaard L A molecular framework controlling style morphology in Brassicaceae. Development, 2018. [PMID:29440299] Felipo-Benavent A, et al. Regulation of xylem fiber differentiation by gibberellins through DELLA-KNAT1 interaction. Development, 2019. [PMID:30389856]