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

KHN27924.1

Organism

Glycine soja

Taxonomic ID

3848

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja

Family

TCP

Protein Properties

Length: 343aa MW: 37160.7 Da PI: 6.5755

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KHN27924.1	genome	TCUHK	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	113.5	2.9e-35	22	123	2	95
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt......ssssaseceaesssssasnsssg...... 88 +g+kdrhsk++T++g+RdRRvRlsa++a++f+d+qd+LG+d++sk+++WL+++ak ai++l ++ + +a++ +++++n+++g KHN27924.1 22 TGRKDRHSKVYTAKGPRDRRVRLSAHTAIEFYDVQDRLGYDRPSKAVDWLIKKAKNAIDKLGELppwhptP------NTAADAENNNNNNNAGssdmai 114 79**************************************************************5543221......2222222222222222234454 PP TCP 89 ..kaaksaa 95 ++++s+ KHN27924.1 115 aaEQSESSG 123 442222222 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	8.1E-33	22	127	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	32.537	24	82	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 343 aa Download sequence Send to blast
MGMKSTGGEI VQVQGGHIVR STGRKDRHSK VYTAKGPRDR RVRLSAHTAI EFYDVQDRLG 60 YDRPSKAVDW LIKKAKNAID KLGELPPWHP TPNTAADAEN NNNNNNAGSS DMAIAAEQSE 120 SSGYNFQLQR QLGEDHDNHH SAFIPSPIDT DAIAFFPTTT ATSSINFQTY PPDIISRTNN 180 STEDLGLSLH SFQDPGLIHG QTQAGANQTQ TPSNDQSLFS GSTQVGFEAN YPRIVTWNSD 240 ASIDMNRTGF MVNSPALLGQ GGSAAFSQRG TLQSSFSPSL RPWSEIPMAS SEHHKSQPIQ 300 QASIFGSRFL SDALPGFCIP ARIQGEDGVG PDKPSSSSPN SHH

Sequence ? help Back to Top

Protein Sequence Length: 343 aa Download sequence Send to blast

MGMKSTGGEI VQVQGGHIVR STGRKDRHSK VYTAKGPRDR RVRLSAHTAI EFYDVQDRLG  60
YDRPSKAVDW LIKKAKNAID KLGELPPWHP TPNTAADAEN NNNNNNAGSS DMAIAAEQSE  120
SSGYNFQLQR QLGEDHDNHH SAFIPSPIDT DAIAFFPTTT ATSSINFQTY PPDIISRTNN  180
STEDLGLSLH SFQDPGLIHG QTQAGANQTQ TPSNDQSLFS GSTQVGFEAN YPRIVTWNSD  240
ASIDMNRTGF MVNSPALLGQ GGSAAFSQRG TLQSSFSPSL RPWSEIPMAS SEHHKSQPIQ  300
QASIFGSRFL SDALPGFCIP ARIQGEDGVG PDKPSSSSPN SHH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	4e-22	29	82	1	54	Putative transcription factor PCF6
5zkt_B	4e-22	29	82	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	KHN27924.1

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AP015040	0.0	AP015040.1 Vigna angularis var. angularis DNA, chromosome 7, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_028195347.1	0.0	transcription factor TCP4-like
Swissprot	Q8LPR5	8e-69	TCP4_ARATH; Transcription factor TCP4
TrEMBL	A0A445HTB4	0.0	A0A445HTB4_GLYSO; Transcription factor TCP4
STRING	GLYMA12G33640.1	0.0	(Glycine max)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1163	34	105

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G15030.3	4e-68	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] Qi X, et al. Identification of a novel salt tolerance gene in wild soybean by whole-genome sequencing. Nat Commun, 2014. 5: p. 4340 [PMID:25004933] 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]