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

Cla008534

Organism

Citrullus lanatus

Taxonomic ID

3654

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Citrullus

Family

AP2

Protein Properties

Length: 597aa MW: 65720.4 Da PI: 6.8541

Description

AP2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cla008534	genome	ICuGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	35.4	2.6e-11	195	251	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrd.pseng..kr.krfslgkfgtaeeAakaaiaarkkleg 55 s y+GV++++++gr++A+++d + ++ k + g ++ +e+Aa+a++ a++k++g Cla008534 195 SIYRGVTRHRWTGRYEAHLWDnSCR-RegQSrKGRQ-GGYDKEEKAARAYDLAALKYWG 251 57*****************5444.2455536655.779999************98 PP
2	AP2	46.9	6.7e-15	296	345	3	55
AP2 3 ykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 y+GV+++++ grW A+I + +k +lg+f t+eeAa+a++ a+ k++g Cla008534 296 YRGVTRHHQHGRWQARIGRVAG---NKDLYLGTFSTEEEAAEAYDIAAIKFRG 345 9*************988532...5**********************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF00847	1.0E-8	195	251	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	8.5E-15	195	261	IPR016177	DNA-binding domain
CDD	cd00018	7.50E-20	195	261	No hit	No description
SMART	SM00380	3.2E-23	196	265	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	17.504	196	259	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	3.8E-12	196	260	IPR001471	AP2/ERF domain
PRINTS	PR00367	2.8E-6	197	208	IPR001471	AP2/ERF domain
CDD	cd00018	2.12E-24	294	355	No hit	No description
SuperFamily	SSF54171	6.02E-18	294	355	IPR016177	DNA-binding domain
SMART	SM00380	8.6E-33	295	359	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	3.5E-18	295	354	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	19.375	295	353	IPR001471	AP2/ERF domain
Pfam	PF00847	1.6E-9	296	345	IPR001471	AP2/ERF domain
PRINTS	PR00367	2.8E-6	335	355	IPR001471	AP2/ERF domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0000723	Biological Process	telomere maintenance
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0007389	Biological Process	pattern specification process
GO:0010073	Biological Process	meristem maintenance
GO:0010449	Biological Process	root meristem growth
GO:0019827	Biological Process	stem cell population maintenance
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 597 aa Download sequence Send to blast
MGSMNSNNWL SFPLSPTNPS LPPHLQTTTH SHHFSLGNLE NDHNMDIPFQ THHEWNLISN 60 QSGGEVPKIA DFLGVSKAEN ETDLIGFNEI HHQSNDTDYL FPITRLVSVH QQQQQQPTAP 120 PPHINLDSST NFDLQDNSNC LQSLTLSMGS GKPSTCEQTT STPDNSTSNN NNNNNNTTLD 180 VTPRRTLDTF GQRTSIYRGV TRHRWTGRYE AHLWDNSCRR EGQSRKGRQG GYDKEEKAAR 240 AYDLAALKYW GTSTTTNFPI SNYEKEVEEM KHMTRQEFVA AIRRKSSGFS RGASMYRGVT 300 RHHQHGRWQA RIGRVAGNKD LYLGTFSTEE EAAEAYDIAA IKFRGLNAVT NFDMSRYDVK 360 SILESNTLPI GGGAAKRLKE AQAMESSRKR DEMIALGSSS SSSSCFQYGT SSSSTNNSSH 420 YPNLLQQPNL NMDHHLQTQP LLSLQNHHDI SHYTHHHSSS FHHPSSSYIH HSSDHSAYPN 480 NNSHPFYGGG YLHNHPALLH GMINMGGGGG GGGGGASSLD TNNNTNTLNH FENNTSGGGY 540 LGNAFGMGST SNSSGAAAEE YALVKVDYDM PNSGGYGGWT GDSVQGSNAG VFSMWND

Sequence ? help Back to Top

Protein Sequence Length: 597 aa Download sequence Send to blast

MGSMNSNNWL SFPLSPTNPS LPPHLQTTTH SHHFSLGNLE NDHNMDIPFQ THHEWNLISN  60
QSGGEVPKIA DFLGVSKAEN ETDLIGFNEI HHQSNDTDYL FPITRLVSVH QQQQQQPTAP  120
PPHINLDSST NFDLQDNSNC LQSLTLSMGS GKPSTCEQTT STPDNSTSNN NNNNNNTTLD  180
VTPRRTLDTF GQRTSIYRGV TRHRWTGRYE AHLWDNSCRR EGQSRKGRQG GYDKEEKAAR  240
AYDLAALKYW GTSTTTNFPI SNYEKEVEEM KHMTRQEFVA AIRRKSSGFS RGASMYRGVT  300
RHHQHGRWQA RIGRVAGNKD LYLGTFSTEE EAAEAYDIAA IKFRGLNAVT NFDMSRYDVK  360
SILESNTLPI GGGAAKRLKE AQAMESSRKR DEMIALGSSS SSSSCFQYGT SSSSTNNSSH  420
YPNLLQQPNL NMDHHLQTQP LLSLQNHHDI SHYTHHHSSS FHHPSSSYIH HSSDHSAYPN  480
NNSHPFYGGG YLHNHPALLH GMINMGGGGG GGGGGASSLD TNNNTNTLNH FENNTSGGGY  540
LGNAFGMGST SNSSGAAAEE YALVKVDYDM PNSGGYGGWT GDSVQGSNAG VFSMWND

Functional Description ? help Back to Top
Source	Description
UniProt	Probably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). Master regulator of basal/root fate. Essential for root quiescent center (QC) and columella specification, stem cell activity, as well as for establishment of the stem cell niche during embryogenesis. Modulates the root polar auxin transport by regulating the distribution of PIN genes. Essential role in respecifying pattern and polarity in damaged roots. Direct target of the transcriptional corepressor TPL. Expression levels and patterns regulated post-transcriptionally by root meristem growth factors (RGFs). {ECO:0000250, ECO:0000269\|PubMed:15454085, ECO:0000269\|PubMed:15635403, ECO:0000269\|PubMed:16424342, ECO:0000269\|PubMed:20190735}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin accumulation. {ECO:0000269\|PubMed:15454085}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	LN681842	0.0	LN681842.1 Cucumis melo genomic scaffold, anchoredscaffold00022.
GenBank	LN713259	0.0	LN713259.1 Cucumis melo genomic chromosome, chr_5.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011653587.1	0.0	PREDICTED: AP2-like ethylene-responsive transcription factor PLT2
Swissprot	Q5YGP7	0.0	PLET2_ARATH; AP2-like ethylene-responsive transcription factor PLT2
TrEMBL	A0A0A0KX09	0.0	A0A0A0KX09_CUCSA; Uncharacterized protein
STRING	XP_004142127.1	0.0	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF4942	31	52

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G51190.1	0.0	AP2 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] Lee DK,Sieburth LE The bps signal: embryonic arrest from an auxin-independent mechanism in bypass triple mutants. Plant Signal Behav, 2012. 7(6): p. 698-700 [PMID:22580686] Hong LW,Yan DW,Liu WC,Chen HG,Lu YT TIME FOR COFFEE controls root meristem size by changes in auxin accumulation in Arabidopsis. J. Exp. Bot., 2014. 65(1): p. 275-86 [PMID:24277277] Tian H,Jia Y,Niu T,Yu Q,Ding Z The key players of the primary root growth and development also function in lateral roots in Arabidopsis. Plant Cell Rep., 2014. 33(5): p. 745-53 [PMID:24504658] Zhao Q, et al. Sulfur nutrient availability regulates root elongation by affecting root indole-3-acetic acid levels and the stem cell niche. J Integr Plant Biol, 2014. 56(12): p. 1151-63 [PMID:24831283] Huang JB, et al. ROP3 GTPase contributes to polar auxin transport and auxin responses and is important for embryogenesis and seedling growth in Arabidopsis. Plant Cell, 2014. 26(9): p. 3501-18 [PMID:25217509] Yang S, et al. The Arabidopsis SWI2/SNF2 Chromatin Remodeling ATPase BRAHMA Targets Directly to PINs and Is Required for Root Stem Cell Niche Maintenance. Plant Cell, 2015. 27(6): p. 1670-80 [PMID:25991732] Jia Y, et al. The Arabidopsis thaliana elongator complex subunit 2 epigenetically affects root development. J. Exp. Bot., 2015. 66(15): p. 4631-42 [PMID:25998905] Zhang M, et al. A tetratricopeptide repeat domain-containing protein SSR1 located in mitochondria is involved in root development and auxin polar transport in Arabidopsis. Plant J., 2015. 83(4): p. 582-99 [PMID:26072661] Shinohara H,Mori A,Yasue N,Sumida K,Matsubayashi Y Identification of three LRR-RKs involved in perception of root meristem growth factor in Arabidopsis. Proc. Natl. Acad. Sci. U.S.A., 2016. 113(14): p. 3897-902 [PMID:27001831] Ou Y, et al. RGF1 INSENSITIVE 1 to 5, a group of LRR receptor-like kinases, are essential for the perception of root meristem growth factor 1 in Arabidopsis thaliana. Cell Res., 2016. 26(6): p. 686-98 [PMID:27229312] Santuari L, et al. The PLETHORA Gene Regulatory Network Guides Growth and Cell Differentiation in Arabidopsis Roots. Plant Cell, 2016. 28(12): p. 2937-2951 [PMID:27920338] Promchuea S,Zhu Y,Chen Z,Zhang J,Gong Z ARF2 coordinates with PLETHORAs and PINs to orchestrate ABA-mediated root meristem activity in Arabidopsis . J Integr Plant Biol, 2017. 59(1): p. 30-43 [PMID:28074634] Du Y,Scheres B PLETHORA transcription factors orchestrate de novo organ patterning during Arabidopsis lateral root outgrowth. Proc. Natl. Acad. Sci. U.S.A., 2017. 114(44): p. 11709-11714 [PMID:29078398] Bustillo-Avendaño E, et al. Regulation of Hormonal Control, Cell Reprogramming, and Patterning during De Novo Root Organogenesis. Plant Physiol., 2018. 176(2): p. 1709-1727 [PMID:29233938]