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

AA53G01430

Organism

Aethionema arabicum

Taxonomic ID

228871

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Aethionemeae; Aethionema

Family

TALE

Protein Properties

Length: 435aa MW: 48522.4 Da PI: 6.7661

Description

TALE family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AA53G01430	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	20	1.1e-06	370	399	26	55
-HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS Homeobox 26 saeereeLAkklgLterqVkvWFqNrRake 55 +++++ LA+++gL+++q+ +WF N+R ++ AA53G01430 370 QEQQKLALAESTGLDQKQINNWFINQRKRH 399 5789999********************885 PP
2	ELK	40.8	4.6e-14	287	308	1	22
ELK 1 ELKhqLlrKYsgyLgsLkqEFs 22 ELK qLlrKYsgyLgsLkqEF+ AA53G01430 287 ELKGQLLRKYSGYLGSLKQEFM 308 9********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM01255	2.6E-18	141	185	IPR005540	KNOX1
Pfam	PF03790	4.7E-21	143	181	IPR005540	KNOX1
SMART	SM01256	1.1E-23	192	243	IPR005541	KNOX2
Pfam	PF03791	1.2E-19	196	241	IPR005541	KNOX2
Pfam	PF03789	7.5E-11	287	308	IPR005539	ELK domain
PROSITE profile	PS51213	11.174	287	307	IPR005539	ELK domain
SMART	SM01188	2.8E-8	287	308	IPR005539	ELK domain
SMART	SM00389	8.6E-5	309	406	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	4.1E-26	312	338	IPR009057	Homeodomain-like
PROSITE profile	PS50071	9.75	371	402	IPR001356	Homeobox domain
Pfam	PF05920	3.0E-9	371	398	IPR008422	Homeobox KN domain
SuperFamily	SSF46689	8.98E-10	371	416	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	4.1E-26	371	404	IPR009057	Homeodomain-like
CDD	cd00086	2.01E-7	371	403	No hit	No description
PROSITE pattern	PS00027	0	377	400	IPR017970	Homeobox, conserved site

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009934	Biological Process	regulation of meristem structural organization
GO:0048440	Biological Process	carpel development
GO:0005634	Cellular Component	nucleus
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 435 aa Download sequence Send to blast
MESGSNSTCC PMAFAGDNSD GPMCPMMMMM MPLMTSHQHQ QQQHHHGHDH HQHQEHDGYA 60 YQSHPQQNSL FLRSPPSPSP SSPSPPQESS KRKVEVLFSS PSSSRSRVAS SFMEIHHQND 120 IGGAGGGGIN INPCSSSSSS ASVKAKIMAH PHYHRLLASY VNCQKVGAPA EVVERLEEAC 180 ASAAAAAASM GATGCLGDDP GLDQFMEAYC EMLAKYEQEL SKPFKEAMLF LQRVDSQFKA 240 LSLSSPSSLS GYGDASIDRN NNNNNVSSEE EVDMNNDLID PQAEDRELKG QLLRKYSGYL 300 GSLKQEFMKK RKKGKLPKEA RQQLLDWWSR HYKWPYPSVT SSSSSSSTYL TNPIQDELIH 360 LIMGKITVVQ EQQKLALAES TGLDQKQINN WFINQRKRHW KPSEDMQFVV MDATHPHHYF 420 IDNVLGNPFP VDHML

Sequence ? help Back to Top

Protein Sequence Length: 435 aa Download sequence Send to blast

MESGSNSTCC PMAFAGDNSD GPMCPMMMMM MPLMTSHQHQ QQQHHHGHDH HQHQEHDGYA  60
YQSHPQQNSL FLRSPPSPSP SSPSPPQESS KRKVEVLFSS PSSSRSRVAS SFMEIHHQND  120
IGGAGGGGIN INPCSSSSSS ASVKAKIMAH PHYHRLLASY VNCQKVGAPA EVVERLEEAC  180
ASAAAAAASM GATGCLGDDP GLDQFMEAYC EMLAKYEQEL SKPFKEAMLF LQRVDSQFKA  240
LSLSSPSSLS GYGDASIDRN NNNNNVSSEE EVDMNNDLID PQAEDRELKG QLLRKYSGYL  300
GSLKQEFMKK RKKGKLPKEA RQQLLDWWSR HYKWPYPSVT SSSSSSSTYL TNPIQDELIH  360
LIMGKITVVQ EQQKLALAES TGLDQKQINN WFINQRKRHW KPSEDMQFVV MDATHPHHYF  420
IDNVLGNPFP VDHML

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	302	311	LKQEFMKKRK
2	308	312	KKRKK

Functional Description ? help Back to Top
Source	Description
UniProt	Required for shoot apical meristem (SAM) formation during embryogenesis. Negatively regulates ASYMMETRIC LEAVES1 (AS1) and ASYMMETRIC LEAVES2 (AS2 or LBD6). Probably binds to the DNA sequence 5'-TGAC-3'. Binds to RNA (By similarity). {ECO:0000250\|UniProtKB:P24345, ECO:0000269\|PubMed:10079219, ECO:0000269\|PubMed:11934861}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AA53G01430

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001302988.1	0.0	homeobox protein SHOOT MERISTEMLESS
Swissprot	Q38874	1e-168	STM_ARATH; Homeobox protein SHOOT MERISTEMLESS
TrEMBL	D4NZH6	0.0	D4NZH6_BRANA; SHOOT MERISTEMLESS
STRING	A0A087HEQ9	1e-171	(Arabis alpina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6473	26	44

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G62360.1	1e-147	KNOX/ELK homeobox transcription factor

Publications ? help Back to Top
Zhang XL,Yang ZP,Zhang J,Zhang LG Ectopic expression of BraYAB1-702, a member of YABBY gene family in Chinese cabbage, causes leaf curling, inhibition of development of shoot apical meristem and flowering stage delaying in Arabidopsis thaliana. Int J Mol Sci, 2013. 14(7): p. 14872-91 [PMID:23863694] Liu C, et al. Phosphatidylserine synthase 1 is required for inflorescence meristem and organ development in Arabidopsis. J Integr Plant Biol, 2013. 55(8): p. 682-95 [PMID:23931744] Simonini S,Kater MM Class I BASIC PENTACYSTEINE factors regulate HOMEOBOX genes involved in meristem size maintenance. J. Exp. Bot., 2014. 65(6): p. 1455-65 [PMID:24482368] Scofield S,Dewitte W,Murray JA STM sustains stem cell function in the Arabidopsis shoot apical meristem and controls KNOX gene expression independently of the transcriptional repressor AS1. Plant Signal Behav, 2018. [PMID:24776954] Kamiuchi Y,Yamamoto K,Furutani M,Tasaka M,Aida M The CUC1 and CUC2 genes promote carpel margin meristem formation during Arabidopsis gynoecium development. Front Plant Sci, 2014. 5: p. 165 [PMID:24817871] Chen C, et al. Transcriptome profiling reveals roles of meristem regulators and polarity genes during fruit trichome development in cucumber (Cucumis sativus L.). J. Exp. Bot., 2014. 65(17): p. 4943-58 [PMID:24962999] Lee JE,Lampugnani ER,Bacic A,Golz JF SEUSS and SEUSS-LIKE 2 coordinate auxin distribution and KNOXI activity during embryogenesis. Plant J., 2014. 80(1): p. 122-35 [PMID:25060324] Ckurshumova W,Berleth T Overcoming recalcitrance - Auxin response factor functions in plant regeneration. Plant Signal Behav, 2015. 10(7): p. e993293 [PMID:26098229] Liang Z,Brown RC,Fletcher JC,Opsahl-Sorteberg HG Calpain-Mediated Positional Information Directs Cell Wall Orientation to Sustain Plant Stem Cell Activity, Growth and Development. Plant Cell Physiol., 2015. 56(9): p. 1855-66 [PMID:26220906] Rast-Somssich MI, et al. Alternate wiring of a KNOXI genetic network underlies differences in leaf development of A. thaliana and C. hirsuta. Genes Dev., 2015. 29(22): p. 2391-404 [PMID:26588991] Landrein B, et al. Mechanical stress contributes to the expression of the STM homeobox gene in Arabidopsis shoot meristems. Elife, 2015. 4: p. e07811 [PMID:26623515] Guzmán-López JA,Abraham-Juárez MJ,Lozano-Sotomayor P,de Folter S,Simpson J Arabidopsis thaliana gonidialess A/Zuotin related factors (GlsA/ZRF) are essential for maintenance of meristem integrity. Plant Mol. Biol., 2016. 91(1-2): p. 37-51 [PMID:26826012] Shi B, et al. Two-Step Regulation of a Meristematic Cell Population Acting in Shoot Branching in Arabidopsis. PLoS Genet., 2016. 12(7): p. e1006168 [PMID:27398935] Lee HG,Choi YR,Seo PJ Increased STM expression is associated with drought tolerance in Arabidopsis. J. Plant Physiol., 2016. 201: p. 79-84 [PMID:27448723] Balkunde R,Kitagawa M,Xu XM,Wang J,Jackson D SHOOT MERISTEMLESS trafficking controls axillary meristem formation, meristem size and organ boundaries in Arabidopsis. Plant J., 2017. 90(3): p. 435-446 [PMID:28161901] Singh S, et al. Sirtinol, a Sir2 protein inhibitor, affects stem cell maintenance and root development in Arabidopsis thaliana by modulating auxin-cytokinin signaling components. Sci Rep, 2017. 7: p. 42450 [PMID:28195159] Lee HG,Choi YR,Seo PJ Erratum to "Increased STM expression is associated with drought tolerance in Arabidopsis" [J. Plant Physiol. 201 (2016) 79-84]. J. Plant Physiol., 2018. 228: p. 218 [PMID:28456397] Xue T, et al. ARGONAUTE10 Inhibits In Vitro Shoot Regeneration Via Repression of miR165/166 in Arabidopsis thaliana. Plant Cell Physiol., 2017. 58(10): p. 1789-1800 [PMID:29016889] Dolzblasz A, et al. Impairment of Meristem Proliferation in Plants Lacking the Mitochondrial Protease AtFTSH4. Int J Mol Sci, 2018. [PMID:29538317] Scofield S, et al. Coordination of meristem and boundary functions by transcription factors in the SHOOT MERISTEMLESS regulatory network. Development, 2018. [PMID:29650590] Liu L, et al. FTIP-Dependent STM Trafficking Regulates Shoot Meristem Development in Arabidopsis. Cell Rep, 2018. 23(6): p. 1879-1890 [PMID:29742441] Chung Y, et al. Auxin Response Factors promote organogenesis by chromatin-mediated repression of the pluripotency gene SHOOTMERISTEMLESS. Nat Commun, 2019. 10(1): p. 886 [PMID:30792395]