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

MDP0000188698

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

AP2

Protein Properties

Length: 588aa MW: 65300.5 Da PI: 6.8677

Description

AP2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
MDP0000188698	genome	GDR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	47	6.5e-15	313	362	3	55
AP2 3 ykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 y+GV+++++ grW A+I + +k +lg+f t+eeAa+a++ a+ k++g MDP0000188698 313 YRGVTRHHQHGRWQARIGRVAG---NKDLYLGTFSTEEEAAEAYDIAAIKFRG 362 9*************988532...5**********************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51032	14.605	214	276	IPR001471	AP2/ERF domain
SMART	SM00380	2.2E-15	214	282	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	7.2E-10	215	277	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	6.08E-11	216	278	IPR016177	DNA-binding domain
CDD	cd00018	2.60E-14	217	278	No hit	No description
Pfam	PF00847	3.2E-4	218	268	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	7.19E-18	311	371	IPR016177	DNA-binding domain
CDD	cd00018	2.95E-24	311	370	No hit	No description
PROSITE profile	PS51032	19.375	312	370	IPR001471	AP2/ERF domain
SMART	SM00380	1.6E-32	312	376	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	4.5E-18	312	370	IPR001471	AP2/ERF domain
Pfam	PF00847	1.6E-9	313	362	IPR001471	AP2/ERF domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
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: 588 aa Download sequence Send to blast
MGSMNSNNWL SFPLSPTNSS LPSELHPSHS HQFSLGLVNE TMDNPFQNQE WNMINTQGSD 60 EAPKVADFLG VSKSENHSDL VAFNDIQAND SVSDYLFPIN NIVTVQNTVV DNSSNFDFQE 120 KSNSLQSLTL SMGSGKGSST CETGTDNTSI TTVEATPRRT LDTFGQRTSI YRGVTRRSRY 180 SGHSLLDFVS RAHIKAHFYP FSTLISNLRI SDNAFLGTRH RWTGRYEAHL WDNSCRREGQ 240 SRKGRQGGYD KEDKAARAYD LAALKYWGTS TTTNFPISNY EKEVEEMKNM TRQEFVAAIR 300 RKSSGFSRGA SMYRGVTRHH QHGRWQARIG RVAGNKDLYL GTFSTEEEAA EAYDIAAIKF 360 RGLNAVTNFD MNRYDVKSIL ESNTLPIGGG AAKRLKEAQA LESSRKREEM MALGSTFHYA 420 AAGAASPSTS AVRNLQAYSL LQPQSTFDQN VQQSQPLLTL QNHDISQYTH HHDPSSYQNY 480 IQTQLQLHQT QQQYQPTQQF YNSYGLQSTH PALLQGLMDM GSSSVMDHNT GSSSGSYSAG 540 EYLGNNGXGL ATNSTANNGV GSAEELALVK VDYDMPNGGG YGYFYNVE

Sequence ? help Back to Top

Protein Sequence Length: 588 aa Download sequence Send to blast

MGSMNSNNWL SFPLSPTNSS LPSELHPSHS HQFSLGLVNE TMDNPFQNQE WNMINTQGSD  60
EAPKVADFLG VSKSENHSDL VAFNDIQAND SVSDYLFPIN NIVTVQNTVV DNSSNFDFQE  120
KSNSLQSLTL SMGSGKGSST CETGTDNTSI TTVEATPRRT LDTFGQRTSI YRGVTRRSRY  180
SGHSLLDFVS RAHIKAHFYP FSTLISNLRI SDNAFLGTRH RWTGRYEAHL WDNSCRREGQ  240
SRKGRQGGYD KEDKAARAYD LAALKYWGTS TTTNFPISNY EKEVEEMKNM TRQEFVAAIR  300
RKSSGFSRGA SMYRGVTRHH QHGRWQARIG RVAGNKDLYL GTFSTEEEAA EAYDIAAIKF  360
RGLNAVTNFD MNRYDVKSIL ESNTLPIGGG AAKRLKEAQA LESSRKREEM MALGSTFHYA  420
AAGAASPSTS AVRNLQAYSL LQPQSTFDQN VQQSQPLLTL QNHDISQYTH HHDPSSYQNY  480
IQTQLQLHQT QQQYQPTQQF YNSYGLQSTH PALLQGLMDM GSSSVMDHNT GSSSGSYSAG  540
EYLGNNGXGL ATNSTANNGV GSAEELALVK VDYDMPNGGG YGYFYNVE

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Accumulates in the basal embryo region that gives rise to hypocotyl, root, and root stem cells. Expressed in the root meristem throughout embryo development. {ECO:0000269\|PubMed:15454085, ECO:0000269\|PubMed:20190735}.
Uniprot	TISSUE SPECIFICITY: Expressed in roots, seedlings, flowers, and siliques. Also detected at low levels in leaves. In roots, specifically detected in the distal root meristem, including the QC. This tissue specificity is regulated by auxin gradient and depends on PIN proteins. {ECO:0000269\|PubMed:15454085, ECO:0000269\|PubMed:15635403, ECO:0000269\|PubMed:15988559, ECO:0000269\|PubMed:16424342, ECO:0000269\|PubMed:20190735}.

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}.

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	KF543364	1e-169	KF543364.1 Rosa canina AP2 class putative transcription factor (PLT) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_028955163.1	0.0	AP2-like ethylene-responsive transcription factor PLT2 isoform X1
Swissprot	Q5YGP7	0.0	PLET2_ARATH; AP2-like ethylene-responsive transcription factor PLT2
TrEMBL	A0A498K8Z5	0.0	A0A498K8Z5_MALDO; Uncharacterized protein
STRING	XP_008352496.1	0.0	(Malus domestica)

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

Link Out ? help Back to Top
Phytozome	MDP0000188698

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]