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

Itr_sc001766.1_g00011.1

Organism

Ipomoea trifida

Taxonomic ID

35884

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea

Family

YABBY

Protein Properties

Length: 234aa MW: 25774.2 Da PI: 7.6996

Description

YABBY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Itr_sc001766.1_g00011.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	YABBY	228.3	1.9e-70	18	190	4	169
YABBY 4 fssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaae.shldeslkee...lleelkveeenlksn 85 ss+q+Cyv+Cn C+t+lavsvP tslfk+vtvrCGhCt+ll vn++ + + +hl+ + ++ +l+e +++ n+ ++ Itr_sc001766.1_g00011.1 18 PPSSDQLCYVHCNICDTVLAVSVPCTSLFKTVTVRCGHCTNLLPVNMRGLILPSPPNhHHLHSFFSPShntILDEISNSNPNFLMM 103 5789**************************************999998876665505555555554667888888888888888 PP YABBY 86 vekeesastsvssekl..senedeevprvpp.virPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahfPkihf 168 ++++++a +s + + l +e+p++pp ++rPPekrqrvPsaynrfikeeiqrika+nPdi+hreafsaaaknWahfP+i Itr_sc001766.1_g00011.1 104 NVHHQAAAASSAEFVLppRAAGFDELPHPPPlINRPPEKRQRVPSAYNRFIKEEIQRIKAGNPDITHREAFSAAAKNWAHFPHIQL 189 888888888888888865566679999999**************************************************87 PP YABBY 169 g 169 g Itr_sc001766.1_g00011.1 190 G 190 6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04690	7.2E-69	20	190	IPR006780	YABBY protein
SuperFamily	SSF47095	4.97E-8	132	185	IPR009071	High mobility group box domain
Gene3D	G3DSA:1.10.30.10	1.8E-4	140	184	IPR009071	High mobility group box domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0007275	Biological Process	multicellular organism development

Sequence ? help Back to Top
Protein Sequence Length: 234 aa Download sequence Send to blast
MSFSSSSSSS LDHRSHLPPS SDQLCYVHCN ICDTVLAVSV PCTSLFKTVT VRCGHCTNLL 60 PVNMRGLILP SPPNHHHLHS FFSPSHNTIL DEISNSNPNF LMMNVHHQAA AASSAEFVLP 120 PRAAGFDELP HPPPLINRPP EKRQRVPSAY NRFIKEEIQR IKAGNPDITH REAFSAAAKN 180 WAHFPHIQLG IMPDHQATVK KSNVRPQDGE DVLIKDGLFA SADVGISPYG ISPY

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:10323860, PubMed:10331982, PubMed:10457020, PubMed:11812777, PubMed:12417699, PubMed:9878633, Ref.3, Ref.6, PubMed:19837869). Required during flower formation and development, particularly for the patterning of floral organs. Positive regulator of class B (AP3 and PI) activity in whorls 2 and 3. Negative regulator of class B activity in whorl 1 and of SUP activity in whorl 3. Interacts with class A proteins (AP1, AP2 and LUG) to repress class C (AG) activity in whorls 1 and 2. Contributes to the repression of KNOX genes (STM, KNAT1/BP and KNAT2) to avoid ectopic meristems. Binds DNA without sequence specificity. In vitro, can compete and displace the AP1 protein binding to DNA containing CArG box (PubMed:10323860, PubMed:10331982, PubMed:10457020, PubMed:11812777, PubMed:12417699, PubMed:9878633, Ref.3, Ref.6). {ECO:0000269\|PubMed:10323860, ECO:0000269\|PubMed:10331982, ECO:0000269\|PubMed:10457020, ECO:0000269\|PubMed:11812777, ECO:0000269\|PubMed:12417699, ECO:0000269\|PubMed:19837869, ECO:0000269\|PubMed:9878633, ECO:0000269\|Ref.3, ECO:0000269\|Ref.6}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019171376.1	1e-147	PREDICTED: protein YABBY 4-like
Refseq	XP_019171377.1	1e-147	PREDICTED: protein YABBY 4-like
Swissprot	O22152	2e-71	YAB1_ARATH; Axial regulator YABBY 1
TrEMBL	A0A1R3K548	1e-109	A0A1R3K548_COCAP; YABBY protein
STRING	EOY24425	1e-109	(Theobroma cacao)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA381	24	163

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G00180.1	3e-67	YABBY family protein

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] Lian H,Li X,Liu Z,He Y HYL1 is required for establishment of stamen architecture with four microsporangia in Arabidopsis. J. Exp. Bot., 2013. 64(11): p. 3397-410 [PMID:23918970] Tameshige T, et al. Pattern dynamics in adaxial-abaxial specific gene expression are modulated by a plastid retrograde signal during Arabidopsis thaliana leaf development. PLoS Genet., 2013. 9(7): p. e1003655 [PMID:23935517] Boter M, et al. FILAMENTOUS FLOWER Is a Direct Target of JAZ3 and Modulates Responses to Jasmonate. Plant Cell, 2015. 27(11): p. 3160-74 [PMID:26530088] 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] Tanaka W,Toriba T,Hirano HY Three TOB1-related YABBY genes are required to maintain proper function of the spikelet and branch meristems in rice. New Phytol., 2017. 215(2): p. 825-839 [PMID:28556940] Silverblatt-Buser EW,Frick MA,Rabeler C,Kaplinsky NJ Genetic Interactions Between BOB1 and Multiple 26S Proteasome Subunits Suggest a Role for Proteostasis in Regulating Arabidopsis Development. G3 (Bethesda), 2018. 8(4): p. 1379-1390 [PMID:29487187]