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

Itr_sc000659.1_g00002.1

Organism

Ipomoea trifida

Taxonomic ID

35884

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea

Family

C2H2

Protein Properties

Length: 503aa MW: 55352.2 Da PI: 7.9902

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Itr_sc000659.1_g00002.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16	3.4e-05	55	77	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 y C++Cgk F r nL+ H r H Itr_sc000659.1_g00002.1 55 YLCEICGKGFQRDQNLQLHRRGH 77 56*******************88 PP
2	zf-C2H2	12.7	0.00037	131	153	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H +t+ Itr_sc000659.1_g00002.1 131 WKCDKCSKRYAVQSDWKAHSKTC 153 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.16E-6	54	77	No hit	No description
Gene3D	G3DSA:3.30.160.60	3.2E-5	54	77	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	11.676	55	77	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.043	55	77	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	57	77	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	2.5E-4	119	152	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.16E-6	126	151	No hit	No description
SMART	SM00355	140	131	151	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: 503 aa Download sequence Send to blast
MTEEEGISSI CSLAENPIPE SNPPVKKKRN LPGNPDPEAE VIALSPKTLM ATNRYLCEIC 60 GKGFQRDQNL QLHRRGHNLP WKLKQRSSKE VRKRVYVCPE KSCVHHHPSR ALGDLTGIKK 120 HFCRKHGEKK WKCDKCSKRY AVQSDWKAHS KTCGTREYRC DCGTIFSRRD SFLTHRAFCD 180 ALAEETARVT AAAVASDMHN AAVLGNISYH FLGTPSLGPV SMPPPASHFS SIFKPSPSSD 240 GEGNTPMRHG GLPPWMGQAQ NSVQTSDSPP VTYTDWDKLI PNKVSENADE ILNSSLPLNN 300 TKEVSVPLLF SSQLQPHQPP STAADMSATA LLQKAAQIGA TAADPSFLGI LGSKPNNNMN 360 LAQDDRRDPP NGTLNHPDLP LQYHESLLNS RLNHSDSPLQ YLIESESEGL ENERILRFYG 420 QDNSGNSNNS SKLFGLYGTT LTSVASRLGS EVDDIPGLCH FQMYPSKRRH IQNEEGAGGG 480 QTRDFLGVGI QSICHPSSLN GWL

Sequence ? help Back to Top

Protein Sequence Length: 503 aa Download sequence Send to blast

MTEEEGISSI CSLAENPIPE SNPPVKKKRN LPGNPDPEAE VIALSPKTLM ATNRYLCEIC  60
GKGFQRDQNL QLHRRGHNLP WKLKQRSSKE VRKRVYVCPE KSCVHHHPSR ALGDLTGIKK  120
HFCRKHGEKK WKCDKCSKRY AVQSDWKAHS KTCGTREYRC DCGTIFSRRD SFLTHRAFCD  180
ALAEETARVT AAAVASDMHN AAVLGNISYH FLGTPSLGPV SMPPPASHFS SIFKPSPSSD  240
GEGNTPMRHG GLPPWMGQAQ NSVQTSDSPP VTYTDWDKLI PNKVSENADE ILNSSLPLNN  300
TKEVSVPLLF SSQLQPHQPP STAADMSATA LLQKAAQIGA TAADPSFLGI LGSKPNNNMN  360
LAQDDRRDPP NGTLNHPDLP LQYHESLLNS RLNHSDSPLQ YLIESESEGL ENERILRFYG  420
QDNSGNSNNS SKLFGLYGTT LTSVASRLGS EVDDIPGLCH FQMYPSKRRH IQNEEGAGGG  480
QTRDFLGVGI QSICHPSSLN GWL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-34	127	191	3	67	Zinc finger protein JACKDAW
5b3h_F	2e-34	127	191	3	67	Zinc finger protein JACKDAW
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Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269\|PubMed:17785527, ECO:0000269\|PubMed:21935722, ECO:0000269\|PubMed:24821766, ECO:0000269\|PubMed:25829440}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269\|PubMed:21935722}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019159490.1	0.0	PREDICTED: zinc finger protein NUTCRACKER-like
Swissprot	Q9ZWA6	1e-136	IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBL	A0A1J7HA73	1e-164	A0A1J7HA73_LUPAN; Uncharacterized protein
STRING	EOX99537	1e-161	(Theobroma cacao)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA103	24	350

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G44160.1	1e-121	C2H2-like zinc finger protein

Publications ? help Back to Top
Muñoz-Strale D,León G Identification of two highly specific pollen promoters using transcriptomic data. Plant Physiol. Biochem., 2014. 83: p. 292-9 [PMID:25208507] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]