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.27810s0005.2.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

YABBY

Protein Properties

Length: 239aa MW: 26165.7 Da PI: 8.524

Description

YABBY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Araha.27810s0005.2.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	YABBY	278.2	9.4e-86	17	199	2	170
YABBY 2 dvfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaaeshldeslkee........lleelkveeenl 82 d+fssseq+Cyv+C+fC+t+lavsvP +slfk+vtvrCGhC++llsv++++++ ll+++s+l++s+ ++ llee+++ ++n+ Araha.27810s0005.2.p 17 DHFSSSEQLCYVHCSFCDTVLAVSVPPSSLFKTVTVRCGHCSNLLSVTVSMRALLLPSVSNLGHSFLPPppppsppnLLEEMRSGGQNI 105 89***************************************************************9999************** PP YABBY 83 ksnvekeesastsvssekl.......senedeevprvppvirPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahfP 164 ++n++++++ +++++e+l ++ +e+pr pp++rPPekrqrvPsaynrfikeeiqrika+nPdishreafsaaaknWahfP Araha.27810s0005.2.p 106 NMNMMMSHHGAAHHPNESLvmptrngRVDHVQEMPR-PPANRPPEKRQRVPSAYNRFIKEEIQRIKAGNPDISHREAFSAAAKNWAHFP 193 *************9999999999999*9.788********************************************* PP YABBY 165 kihfgl 170 +ihfgl Araha.27810s0005.2.p 194 HIHFGL 199 **97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04690	3.6E-68	21	199	IPR006780	YABBY protein
SuperFamily	SSF47095	5.11E-8	142	192	IPR009071	High mobility group box domain
Gene3D	G3DSA:1.10.30.10	8.6E-5	147	193	IPR009071	High mobility group box domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009944	Biological Process	polarity specification of adaxial/abaxial axis
GO:0010154	Biological Process	fruit development
GO:0010158	Biological Process	abaxial cell fate specification
GO:1902183	Biological Process	regulation of shoot apical meristem development
GO:2000024	Biological Process	regulation of leaf development

Sequence ? help Back to Top
Protein Sequence Length: 239 aa Download sequence Send to blast
MSSMSMSSSS APAFPPDHFS SSEQLCYVHC SFCDTVLAVS VPPSSLFKTV TVRCGHCSNL 60 LSVTVSMRAL LLPSVSNLGH SFLPPPPPPS PPNLLEEMRS GGQNINMNMM MSHHGAAHHP 120 NESLVMPTRN GRVDHVQEMP RPPANRPPEK RQRVPSAYNR FIKEEIQRIK AGNPDISHRE 180 AFSAAAKNWA HFPHIHFGLM ADHPPTKKAN VRQQEGEDSM MGREGFYGST ANVGVTHN*

Functional Description ? help Back to Top
Source	Description
UniProt	Involved in the abaxial cell fate determination during embryogenesis and organogenesis. Regulates the initiation of embryonic shoot apical meristem (SAM) development (PubMed:10457020, PubMed:12417699, PubMed:19837869). Contributes to the repression of KNOX genes (STM, KNAT1/BP and KNAT2) to avoid ectopic meristems. Binds DNA without sequence specificity (PubMed:10457020, PubMed:12417699). {ECO:0000269\|PubMed:10457020, ECO:0000269\|PubMed:12417699, ECO:0000269\|PubMed:19837869}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Araha.27810s0005.2.p

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	AF136540	0.0	AF136540.1 Arabidopsis thaliana YABBY3 (YABBY3) mRNA, complete cds.
GenBank	AY037186	0.0	AY037186.1 Arabidopsis thaliana AT4g00180/F6N15_22 mRNA, complete cds.
GenBank	BT002662	0.0	BT002662.1 Arabidopsis thaliana At4g00180/F6N15_22 gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_020879069.1	1e-158	axial regulator YABBY 3 isoform X2
Swissprot	Q9XFB1	1e-145	YAB3_ARATH; Axial regulator YABBY 3
TrEMBL	D7M5S0	1e-157	D7M5S0_ARALL; Uncharacterized protein
STRING	fgenesh2_kg.6__3684__AT4G00180.1	1e-158	(Arabidopsis lyrata)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G00180.1	1e-137	YABBY family protein

Link Out ? help Back to Top
Phytozome	Araha.27810s0005.2.p

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Yadav RK, et al. Plant stem cell maintenance involves direct transcriptional repression of differentiation program. Mol. Syst. Biol., 2013. 9: p. 654 [PMID:23549482]