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

MDP0000243495

Organism

Malus domestica

Taxonomic ID

3750

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Maleae; Malus

Family

TCP

Protein Properties

Length: 598aa MW: 65728.9 Da PI: 7.0607

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
MDP0000243495	genome	GDR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	106.4	4.6e-33	210	312	1	89
TCP 1 aagkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt.....................ssssasecea 75 a+g+kdrhsk++T++g+RdRRvRl a++a++f+d+qd+LG+d++sk+++WL+++ak+ai+el ++ + MDP0000243495 210 ATGRKDRHSKVCTAKGPRDRRVRLAAHTAIQFYDVQDRLGYDRPSKAVDWLIKKAKAAIDELDELpswnphststtasvpgmethnP--------- 296 589**************************************************************5544443333333333222220......... PP TCP 76 esssssasnsssg..............k 89 + + MDP0000243495 297 ------------TttgihcfagvdaigS 312 ............1223334444444431 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	3.8E-29	211	282	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	33.273	213	271	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 598 aa Download sequence Send to blast
MHQTNERLIM SILFGTYIRL LGEPEAAEAE AASGLRGEVA AQASGDPSSK EKPLAKRGLF 60 VKENHKGLTL DPQRNHDHHY LHQNPILNFT HLVQREEETQ QNHHQAFNFP YFQQDPQTQH 120 QHQHFFGETQ QLQLQEQQQA PKKRSFTSSS STLGEQGIEH ARSKMGDSHH LHHHQATTSS 180 RLGIRPPSSG AGVVSTDIVE VVRGSHIVRA TGRKDRHSKV CTAKGPRDRR VRLAAHTAIQ 240 FYDVQDRLGY DRPSKAVDWL IKKAKAAIDE LDELPSWNPH STSTTASVPG METHNPTTTG 300 IHCFAGVDAI GSANQRTTMV GSGVSEQQIV QNPNSNSTFL PPSLDSDAIA DTIKSFFPTG 360 ASAIAAAAEA PSSTIQFHQN YPPDLLSRTS SQSQDLRLSL QSFQDPILLH QHHAQTHQNE 420 QSLFSGSQNP LGFDGSSAAW AEHHHNQQQQ EMNRFQRMVA WNSGGGDSGD NGGGSSSSGG 480 FTFNSLLPTQ QSGTSSLQQQ QPSLFGQSQF FFQRGPLQSS NSPSIRAWMM DQQNQQSISH 540 DHHHQISQSI HHQPSFSGMG FTSGGGFSGF HIPARIHGEE EHDGISDKPS SASSNSRH

Sequence ? help Back to Top

Protein Sequence Length: 598 aa Download sequence Send to blast

MHQTNERLIM SILFGTYIRL LGEPEAAEAE AASGLRGEVA AQASGDPSSK EKPLAKRGLF  60
VKENHKGLTL DPQRNHDHHY LHQNPILNFT HLVQREEETQ QNHHQAFNFP YFQQDPQTQH  120
QHQHFFGETQ QLQLQEQQQA PKKRSFTSSS STLGEQGIEH ARSKMGDSHH LHHHQATTSS  180
RLGIRPPSSG AGVVSTDIVE VVRGSHIVRA TGRKDRHSKV CTAKGPRDRR VRLAAHTAIQ  240
FYDVQDRLGY DRPSKAVDWL IKKAKAAIDE LDELPSWNPH STSTTASVPG METHNPTTTG  300
IHCFAGVDAI GSANQRTTMV GSGVSEQQIV QNPNSNSTFL PPSLDSDAIA DTIKSFFPTG  360
ASAIAAAAEA PSSTIQFHQN YPPDLLSRTS SQSQDLRLSL QSFQDPILLH QHHAQTHQNE  420
QSLFSGSQNP LGFDGSSAAW AEHHHNQQQQ EMNRFQRMVA WNSGGGDSGD NGGGSSSSGG  480
FTFNSLLPTQ QSGTSSLQQQ QPSLFGQSQF FFQRGPLQSS NSPSIRAWMM DQQNQQSISH  540
DHHHQISQSI HHQPSFSGMG FTSGGGFSGF HIPARIHGEE EHDGISDKPS SASSNSRH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	4e-20	218	271	1	54	Putative transcription factor PCF6
5zkt_B	4e-20	218	271	1	54	Putative transcription factor PCF6
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Mdo.148	0.0	bud\| fruit\| leaf

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}.

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	AB531021	0.0	AB531021.1 Malus x domestica MdTCP4A mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_008386233.1	0.0	transcription factor TCP4 isoform X1
Swissprot	Q8LPR5	1e-104	TCP4_ARATH; Transcription factor TCP4
TrEMBL	A0A498IJB9	0.0	A0A498IJB9_MALDO; Uncharacterized protein
STRING	XP_008386233.1	0.0	(Malus domestica)

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	2e-66	TCP family protein

Link Out ? help Back to Top
Phytozome	MDP0000243495

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]