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

KHN25253.1

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

AP2

Protein Properties

Length: 550aa MW: 60966.8 Da PI: 6.6966

Description

AP2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KHN25253.1	genome	TCUHK	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	35.6	2.3e-11	163	219	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrd.pseng..kr.krfslgkfgtaeeAakaaiaarkkleg 55 s y+GV++++++gr++A+++d + ++ k + g ++ +e+Aa+a++ a++k++g KHN25253.1 163 SIYRGVTRHRWTGRYEAHLWDnSCR-RegQSrKGRQ-GGYDKEEKAARAYDLAALKYWG 219 57*****************5444.2455536655.779999************98 PP
2	AP2	47.1	6e-15	264	313	3	55
AP2 3 ykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 y+GV+++++ grW A+I + +k +lg+f t+eeAa+a++ a+ k++g KHN25253.1 264 YRGVTRHHQHGRWQARIGRVAG---NKDLYLGTFSTEEEAAEAYDIAAIKFRG 313 9*************988532...5**********************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF00847	9.2E-9	163	219	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	7.85E-15	163	229	IPR016177	DNA-binding domain
CDD	cd00018	1.47E-19	163	229	No hit	No description
Gene3D	G3DSA:3.30.730.10	3.4E-12	164	228	IPR001471	AP2/ERF domain
SMART	SM00380	3.2E-23	164	233	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	17.504	164	227	IPR001471	AP2/ERF domain
PRINTS	PR00367	2.4E-6	165	176	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	5.36E-18	262	323	IPR016177	DNA-binding domain
CDD	cd00018	4.13E-24	262	323	No hit	No description
Gene3D	G3DSA:3.30.730.10	3.1E-18	263	322	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	19.375	263	321	IPR001471	AP2/ERF domain
SMART	SM00380	8.6E-33	263	327	IPR001471	AP2/ERF domain
Pfam	PF00847	1.5E-9	264	313	IPR001471	AP2/ERF domain
PRINTS	PR00367	2.4E-6	303	323	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:0005634	Cellular Component	nucleus
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: 550 aa Download sequence Send to blast
MNNNWLSFPL SPTHSSLPAH DLQATQYHQF SLGLVNENMD NPFQNHDWNL INTHSSNEIP 60 KVADFLGVSK SENQSGLAAL NEIHSNDSDY LFTNNSLVPM QNPVLDTPSN EYQENANSNL 120 QSLTLSMGSG KDSTCETSGE NSTNTTVEVA PRRTLDTFGQ RTSIYRGVTR HRWTGRYEAH 180 LWDNSCRREG QSRKGRQGGY DKEEKAARAY DLAALKYWGT STTTNFPISN YEKELDEMKH 240 MTRQEFVAAI RRKSSGFSRG ASMYRGVTRH HQHGRWQARI GRVAGNKDLY LGTFSTEEEA 300 AEAYDIAAIK FRGLNAVTNF DMSRYDVKAI LESNTLPIGG GAAKRLKEAQ ALESSRKREE 360 MIALGSSSTF QYGTSASSSR LHAYPLMQHH HQFEQPQPLL TLQNHDISSS HFSHQQDPLH 420 HQGYIQTQLQ LHQQSGASSY SFQNNAQFYN GYLQNHPALL QGMMNMGSSS SSSSVLENNN 480 SNNNNNNVGG FVGSGFGMAS NATTGNTVGT AEELGLVKVD YDMPAGGYGG WSAADSMQTS 540 NGGVFTMWND

Sequence ? help Back to Top

Protein Sequence Length: 550 aa Download sequence Send to blast

MNNNWLSFPL SPTHSSLPAH DLQATQYHQF SLGLVNENMD NPFQNHDWNL INTHSSNEIP  60
KVADFLGVSK SENQSGLAAL NEIHSNDSDY LFTNNSLVPM QNPVLDTPSN EYQENANSNL  120
QSLTLSMGSG KDSTCETSGE NSTNTTVEVA PRRTLDTFGQ RTSIYRGVTR HRWTGRYEAH  180
LWDNSCRREG QSRKGRQGGY DKEEKAARAY DLAALKYWGT STTTNFPISN YEKELDEMKH  240
MTRQEFVAAI RRKSSGFSRG ASMYRGVTRH HQHGRWQARI GRVAGNKDLY LGTFSTEEEA  300
AEAYDIAAIK FRGLNAVTNF DMSRYDVKAI LESNTLPIGG GAAKRLKEAQ ALESSRKREE  360
MIALGSSSTF QYGTSASSSR LHAYPLMQHH HQFEQPQPLL TLQNHDISSS HFSHQQDPLH  420
HQGYIQTQLQ LHQQSGASSY SFQNNAQFYN GYLQNHPALL QGMMNMGSSS SSSSVLENNN  480
SNNNNNNVGG FVGSGFGMAS NATTGNTVGT AEELGLVKVD YDMPAGGYGG WSAADSMQTS  540
NGGVFTMWND

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	KHN25253.1

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	EU677381	0.0	EU677381.1 Glycine max PLETHORA 2 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_028193817.1	0.0	AP2-like ethylene-responsive transcription factor PLT2
Swissprot	Q5YGP7	0.0	PLET2_ARATH; AP2-like ethylene-responsive transcription factor PLT2
TrEMBL	A0A445HLI5	0.0	A0A445HLI5_GLYSO; AP2-like ethylene-responsive transcription factor PLT2
STRING	GLYMA12G06010.1	0.0	(Glycine max)

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] 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] 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]