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

AHYPO_013742-RA

Organism

Amaranthus hypochondriacus

Taxonomic ID

28502

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Amaranthaceae; Amaranthus

Family

TCP

Protein Properties

Length: 321aa MW: 34806.1 Da PI: 6.8312

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AHYPO_013742-RA	genome	BYU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	110.9	1.9e-34	24	173	2	89
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt.............................. 65 +g kdrhsk+ T++g+RdRRvRlsa++a++f+d+qd+LG+d++sk+++WL+++ak++i++l+++ AHYPO_013742-RA 24 TGLKDRHSKVFTAKGPRDRRVRLSAHTAIQFYDVQDRLGYDRPSKAVDWLIKKAKASIDKLAELppwdplatarggsehvqgstdydvgdhtgs 117 6779************************************************************999999999998888888888888887776 PP TCP 66 .............ssssasec...eaesssssasnsssg................k 89 s ++++c ++ s+++s ++++ + AHYPO_013742-RA 118 ssfyvpqcvddsqSIGDSMKCffpTNTSQENSINFQNYPhqdlclslhtlqdpgnG 173 66666666655554444455565555555555555555566666665443322221 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	2.9E-30	25	95	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	31.244	26	84	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 321 aa Download sequence Send to blast
MGVKSDSTRG EIVQVQGGHI IRATGLKDRH SKVFTAKGPR DRRVRLSAHT AIQFYDVQDR 60 LGYDRPSKAV DWLIKKAKAS IDKLAELPPW DPLATARGGS EHVQGSTDYD VGDHTGSSSF 120 YVPQCVDDSQ SIGDSMKCFF PTNTSQENSI NFQNYPHQDL CLSLHTLQDP GNGNPNSQHD 180 HTHDSNHDPS MLHGSGSSLG FDGDMGRFTR LLGWAGTGEE RGGVMFNNPT LAPQSGLLLG 240 QQQGLSSSYS QRGTLQSNNY AHLVRVFGDQ HHNNHQEISG IGHGQDGLMG FYVPNQIHGG 300 PYSLSNKASS SSLSPDSSQH *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	1e-22	31	84	1	54	Putative transcription factor PCF6
5zkt_B	1e-22	31	84	1	54	Putative transcription factor PCF6
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Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor playing a pivotal role in the control of morphogenesis of shoot organs by negatively regulating the expression of boundary-specific genes such as CUC genes, probably through the induction of miRNA (e.g. miR164) (PubMed:12931144, PubMed:17307931). Required during early steps of embryogenesis (PubMed:15634699). Participates in ovule develpment (PubMed:25378179). Activates LOX2 expression by binding to the 5'-GGACCA-3' motif found in its promoter (PubMed:18816164). {ECO:0000269\|PubMed:12931144, ECO:0000269\|PubMed:15634699, ECO:0000269\|PubMed:17307931, ECO:0000269\|PubMed:18816164, ECO:0000269\|PubMed:25378179}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by the miRNA miR-JAW/miR319 (PubMed:12931144, PubMed:18816164). {ECO:0000269\|PubMed:12931144, ECO:0000269\|PubMed:18816164}.

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010689747.1	1e-122	PREDICTED: transcription factor TCP4
Swissprot	Q8LPR5	5e-63	TCP4_ARATH; Transcription factor TCP4
TrEMBL	A0A0K9QJY5	1e-107	A0A0K9QJY5_SPIOL; Uncharacterized protein
STRING	XP_010689747.1	1e-121	(Beta vulgaris)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G15030.3	3e-63	TCP family protein

Link Out ? help Back to Top
Phytozome	AHYPO_013742-RA

Publications ? help Back to Top
Schommer C, et al. Control of jasmonate biosynthesis and senescence by miR319 targets. PLoS Biol., 2008. 6(9): p. e230 [PMID:18816164] Ju Y, et al. Arabidopsis JINGUBANG Is a Negative Regulator of Pollen Germination That Prevents Pollination in Moist Environments. Plant Cell, 2016. 28(9): p. 2131-2146 [PMID:27468890] Challa KR,Aggarwal P,Nath U Activation of YUCCA5 by the Transcription Factor TCP4 Integrates Developmental and Environmental Signals to Promote Hypocotyl Elongation in Arabidopsis. Plant Cell, 2016. 28(9): p. 2117-2130 [PMID:27597774] Alvarez JP,Furumizu C,Efroni I,Eshed Y,Bowman JL Active suppression of a leaf meristem orchestrates determinate leaf growth. Elife, 2017. [PMID:27710768] Li J, et al. RABBIT EARS regulates the transcription of TCP4 during petal development in Arabidopsis. J. Exp. Bot., 2016. 67(22): p. 6473-6480 [PMID:27838638] Sun X, et al. Activation of secondary cell wall biosynthesis by miR319-targeted TCP4 transcription factor. Plant Biotechnol. J., 2017. 15(10): p. 1284-1294 [PMID:28233945] Kubota A, et al. TCP4-dependent induction of CONSTANS transcription requires GIGANTEA in photoperiodic flowering in Arabidopsis. PLoS Genet., 2017. 13(6): p. e1006856 [PMID:28628608] Koyama T,Sato F,Ohme-Takagi M Roles of miR319 and TCP Transcription Factors in Leaf Development. Plant Physiol., 2017. 175(2): p. 874-885 [PMID:28842549] Bresso EG,Chorostecki U,Rodriguez RE,Palatnik JF,Schommer C Spatial Control of Gene Expression by miR319-Regulated TCP Transcription Factors in Leaf Development. Plant Physiol., 2018. 176(2): p. 1694-1708 [PMID:29133375] Vadde BVL,Challa KR,Nath U The TCP4 transcription factor regulates trichome cell differentiation by directly activating GLABROUS INFLORESCENCE STEMS in Arabidopsis thaliana. Plant J., 2018. 93(2): p. 259-269 [PMID:29165850] Challa KR,Rath M,Nath U The CIN-TCP transcription factors promote commitment to differentiation in Arabidopsis leaf pavement cells via both auxin-dependent and independent pathways. PLoS Genet., 2019. 15(2): p. e1007988 [PMID:30742619]