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

Aan018235

Organism

Artemisia annua

Taxonomic ID

35608

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; campanulids; Asterales; Asteraceae; Asteroideae; Anthemideae; Artemisiinae; Artemisia

Family

C2H2

Protein Properties

Length: 491aa MW: 54480.6 Da PI: 9.5168

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PUT-183a-Artemisia_annua-599160990	PU_ref	plantGDB	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.2	1.4e-05	70	92	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Aan018235 70 FVCEICNKGFQRDQNLQLHRRGH 92 89*******************88 PP
2	zf-C2H2	12.8	0.00036	147	169	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + +s+ k H +t+ Aan018235 147 WKCEKCSKKYAVQSDWKAHSKTC 169 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	2.02E-7	69	92	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.6E-5	69	92	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
Pfam	PF12171	7.8E-5	70	92	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	10.949	70	92	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.017	70	92	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	72	92	IPR007087	Zinc finger, C2H2
SMART	SM00355	120	112	142	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.2E-4	135	168	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.02E-7	142	167	No hit	No description
SMART	SM00355	140	147	167	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 491 aa Download sequence Send to blast
MSGEMFPIPL QDHHHHHQQQ QHHQLPNHEA NPSPKPISNL KKKRNLPGTP DPEAEVMALS 60 PKSLMATNRF VCEICNKGFQ RDQNLQLHRR GHNLPWKLKQ RNKQDPIKKK VYICPEVSCV 120 HHDPSRALGD LTGIKKHFSR KHGEKKWKCE KCSKKYAVQS DWKAHSKTCG TREYKCDCGT 180 LFSRKDSFIT HRAFCDALAE ESVRLGTPNS LGLKNEGLNE SMMNPNHQPN FPHGFAGMTQ 240 FGSGFRPEFG DQNKPRLSLW LDQANSQLNL SPMDQMNMNS NLYMSSSSAG LAEMVNAFGA 300 SSMPNYANSN QMPSLSLTPM TEGLKEETLA SLYSMNQTES TGPMSATALL QKAAQMGSTR 360 SNPSVFGTSF GLMNTSSTTS NTAVSLVNNN ITSLPHMTTQ LQVSTAMNNN SSNSSPQAST 420 LDHQQMIMSR NEAMAPMKMM QRNFSGVDNG LTRDFLGMGR EGGRPFLPQD LVKFASYGSA 480 MGSMSQFATN N

Sequence ? help Back to Top

Protein Sequence Length: 491 aa Download sequence Send to blast

MSGEMFPIPL QDHHHHHQQQ QHHQLPNHEA NPSPKPISNL KKKRNLPGTP DPEAEVMALS  60
PKSLMATNRF VCEICNKGFQ RDQNLQLHRR GHNLPWKLKQ RNKQDPIKKK VYICPEVSCV  120
HHDPSRALGD LTGIKKHFSR KHGEKKWKCE KCSKKYAVQS DWKAHSKTCG TREYKCDCGT  180
LFSRKDSFIT HRAFCDALAE ESVRLGTPNS LGLKNEGLNE SMMNPNHQPN FPHGFAGMTQ  240
FGSGFRPEFG DQNKPRLSLW LDQANSQLNL SPMDQMNMNS NLYMSSSSAG LAEMVNAFGA  300
SSMPNYANSN QMPSLSLTPM TEGLKEETLA SLYSMNQTES TGPMSATALL QKAAQMGSTR  360
SNPSVFGTSF GLMNTSSTTS NTAVSLVNNN ITSLPHMTTQ LQVSTAMNNN SSNSSPQAST  420
LDHQQMIMSR NEAMAPMKMM QRNFSGVDNG LTRDFLGMGR EGGRPFLPQD LVKFASYGSA  480
MGSMSQFATN N

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-36	143	207	3	67	Zinc finger protein JACKDAW
5b3h_F	1e-36	143	207	3	67	Zinc finger protein JACKDAW
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Start to accumulate during the 16- to 32-cell stage of embryogenesis. {ECO:0000269\|PubMed:17785527}.
Uniprot	TISSUE SPECIFICITY: Expressed in the quiescent center, the ground tissue stem cells and to a lesser extent in mature cortex and endodermis cells. {ECO:0000269\|PubMed:17785527}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that, together with BIB, regulates tissue boundaries and asymmetric cell division by a rapid up-regulation of 'SCARECROW' (SCR), thus controlling the nuclear localization of 'SHORT-ROOT' (SHR) and restricting its action (PubMed:17785527, PubMed:25829440). Binds DNA via its zinc fingers (PubMed:28211915, PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). Confines CYCD6 expression to the cortex-endodermis initial/daughter (CEI/CEID) tissues (PubMed:25829440). Required for radial patterning and stem cell maintenance (PubMed:17785527). Counteracted by 'MAGPIE' (MGP) (PubMed:17785527). Binds to the SCR and MGP promoter sequences (PubMed:21935722). Controls position-dependent signals that regulate epidermal-cell-type patterning (PubMed:20356954). {ECO:0000269\|PubMed:17785527, ECO:0000269\|PubMed:20356954, ECO:0000269\|PubMed:21935722, ECO:0000269\|PubMed:24821766, ECO:0000269\|PubMed:25829440, ECO:0000269\|PubMed:28211915}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Not regulated by SCR and SHR. {ECO:0000269\|PubMed:21935722}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024990401.1	0.0	zinc finger protein JACKDAW-like
Swissprot	Q700D2	1e-129	IDD10_ARATH; Zinc finger protein JACKDAW
TrEMBL	A0A2U1P301	0.0	A0A2U1P301_ARTAN; Zinc finger, C2H2-like, Zinc finger, double-stranded RNA binding protein
STRING	cassava4.1_032876m	1e-176	(Manihot esculenta)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G03150.1	1e-115	C2H2-like zinc finger protein

Publications ? help Back to Top
Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755] Hirano Y, et al. Structure of the SHR-SCR heterodimer bound to the BIRD/IDD transcriptional factor JKD. Nat Plants, 2017. 3: p. 17010 [PMID:28211915] Kobayashi A,Miura S,Kozaki A INDETERMINATE DOMAIN PROTEIN binding sequences in the 5'-untranslated region and promoter of the SCARECROW gene play crucial and distinct roles in regulating SCARECROW expression in roots and leaves. Plant Mol. Biol., 2017. 94(1-2): p. 1-13 [PMID:28324206] Long Y, et al. In vivo FRET-FLIM reveals cell-type-specific protein interactions in Arabidopsis roots. Nature, 2017. 548(7665): p. 97-102 [PMID:28746306] 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]