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

Cagra.1261s0010.2.p

Organism

Capsella grandiflora

Taxonomic ID

264402

Taxonomic Lineage

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

Family

YABBY

Protein Properties

Length: 177aa MW: 19556.1 Da PI: 10.369

Description

YABBY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cagra.1261s0010.2.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	YABBY	165.7	3.3e-51	2	135	53	170
YABBY 53 asqllaaeshldeslkee.......lleelkveeenlksnvekeesa.stsvssekl........senedeevprvppvirPPekrqrvP 126 ++ ll+++s++++s+ + llee+++ ++n+++n+++++++ +++++e+l +++ +e+pr+pp++rPPekrqrvP Cagra.1261s0010.2.p 2 RALLLPSVSNIGHSFISPtpppppnLLEEMRSGGQNINMNMIMSHHHgGAHHPNESLamgtrngrVDHHLQEMPRPPPANRPPEKRQRVP 91 5678999999999998777889999*************99887652678889888999999988999***************** PP YABBY 127 saynrfikeeiqrikasnPdishreafsaaaknWahfPkihfgl 170 saynrfikeeiqrika+nPdishreafsaaaknWahfP+ihfgl Cagra.1261s0010.2.p 92 SAYNRFIKEEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGL 135 ****************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04690	4.5E-40	49	135	IPR006780	YABBY protein
SuperFamily	SSF47095	4.06E-8	80	128	IPR009071	High mobility group box domain
Gene3D	G3DSA:1.10.30.10	5.2E-5	83	129	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: 177 aa Download sequence Send to blast
MRALLLPSVS NIGHSFISPT PPPPPNLLEE MRSGGQNINM NMIMSHHHGG AHHPNESLAM 60 GTRNGRVDHH LQEMPRPPPA NRPPEKRQRV PSAYNRFIKE EIQRIKAGNP DISHREAFSA 120 AAKNWAHFPH IHFGLMADHP PTKKANVRQQ EGEDVMMGSS REGFYGSAAN VGVTHN*

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	Cagra.1261s0010.2.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	1e-174	AF136540.1 Arabidopsis thaliana YABBY3 (YABBY3) mRNA, complete cds.
GenBank	AK316696	1e-174	AK316696.1 Arabidopsis thaliana AT4G00180 mRNA, complete cds, clone: RAFL06-81-K07.
GenBank	AY037186	1e-174	AY037186.1 Arabidopsis thaliana AT4g00180/F6N15_22 mRNA, complete cds.
GenBank	BT002662	1e-174	BT002662.1 Arabidopsis thaliana At4g00180/F6N15_22 gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006288552.1	1e-128	axial regulator YABBY 3 isoform X2
Swissprot	Q9XFB1	5e-94	YAB3_ARATH; Axial regulator YABBY 3
TrEMBL	R0H942	1e-127	R0H942_9BRAS; Uncharacterized protein
STRING	XP_006288552.1	1e-127	(Capsella rubella)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G00180.2	1e-96	YABBY family protein

Link Out ? help Back to Top
Phytozome	Cagra.1261s0010.2.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]