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

Gh_D05G3332

Organism

Gossypium hirsutum

Taxonomic ID

3635

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

TCP

Protein Properties

Length: 401aa MW: 43856.1 Da PI: 6.7323

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_D05G3332	genome	NAU-NBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	117.2	2.1e-36	36	155	2	112
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt...........ssssasec.eaesssssasnsss 87 +g+kdrhsk++T++g+RdRRvRlsa++a++f+d+qd+LG+d++sk+++WL+++ak ai+el+++ + ++ ++e+ + s++++++ Gh_D05G3332 36 TGRKDRHSKVCTAKGPRDRRVRLSAHTAIQFYDVQDRLGYDRPSKAVDWLIKKAKSAIDELAELppwnpldatisT----KKPnNQEDLNTSTATNNE 129 79**************************************************************998888754431....122223333333333333 PP TCP 88 g.....kaaksaa.kskksqksaasalnlak 112 + a ++++ ++++ nl++ Gh_D05G3332 130 FhienlA-----AgSGSQCVQQHEMGDNLNN 155 2333220.....2233333333333333333 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	3.4E-33	36	140	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	34.187	38	96	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 401 aa Download sequence Send to blast
MGENHHQAAA TSSRLRIKHA GGEIVEVQGG HIVRSTGRKD RHSKVCTAKG PRDRRVRLSA 60 HTAIQFYDVQ DRLGYDRPSK AVDWLIKKAK SAIDELAELP PWNPLDATIS TKKPNNQEDL 120 NTSTATNNEF HIENLAAGSG SQCVQQHEMG DNLNNNSGFL PASLVSDEIA DTMKSFFPLG 180 ASSETPPSSS LQFQDYPPDL LSRTSSHSQD LRLSLQSFPE PILLHHHEHH AAATAQAHHS 240 ESVLFSGTTP LAGFDGSNAG WEHHQQQQPV EIGRFQRLFA WNSSGGDAGG GNGGGFIFGT 300 PSQQSLPLTF GQNSQFFSQR GPLQSSNTPL VRAWIDQPID EHHHHHQIPQ NIHQQAALSS 360 MGFTTSGVYS GFRVPSRIQG QEEEHDNIAN KLSSASSDSH H

Sequence ? help Back to Top

Protein Sequence Length: 401 aa Download sequence Send to blast

MGENHHQAAA TSSRLRIKHA GGEIVEVQGG HIVRSTGRKD RHSKVCTAKG PRDRRVRLSA  60
HTAIQFYDVQ DRLGYDRPSK AVDWLIKKAK SAIDELAELP PWNPLDATIS TKKPNNQEDL  120
NTSTATNNEF HIENLAAGSG SQCVQQHEMG DNLNNNSGFL PASLVSDEIA DTMKSFFPLG  180
ASSETPPSSS LQFQDYPPDL LSRTSSHSQD LRLSLQSFPE PILLHHHEHH AAATAQAHHS  240
ESVLFSGTTP LAGFDGSNAG WEHHQQQQPV EIGRFQRLFA WNSSGGDAGG GNGGGFIFGT  300
PSQQSLPLTF GQNSQFFSQR GPLQSSNTPL VRAWIDQPID EHHHHHQIPQ NIHQQAALSS  360
MGFTTSGVYS GFRVPSRIQG QEEEHDNIAN KLSSASSDSH H

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	7e-21	43	96	1	54	Putative transcription factor PCF6
5zkt_B	7e-21	43	96	1	54	Putative transcription factor PCF6
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Ghi.756	1e-100	boll\| leaf\| ovule

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed in cotyledons during embryogenesis. Expressed during ovule development (PubMed:25378179). {ECO:0000269\|PubMed:25378179}.
Uniprot	TISSUE SPECIFICITY: Expressed in cotyledons, particularly in the vascular region, in leaves, roots, buds, flowers and immature siliques. {ECO:0000269\|PubMed:17307931}.

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016685274.1	0.0	PREDICTED: transcription factor TCP4-like isoform X1
Swissprot	Q8LPR5	1e-113	TCP4_ARATH; Transcription factor TCP4
TrEMBL	A0A1U8JAL7	0.0	A0A1U8JAL7_GOSHI; transcription factor TCP4-like isoform X1
STRING	Gorai.009G373000.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2408	27	71

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G15030.3	1e-108	TCP family protein

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]