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

Araip.R4F69

Organism

Arachis ipaensis

Taxonomic ID

130454

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Dalbergieae; Arachis

Family

C2H2

Protein Properties

Length: 490aa MW: 54282.3 Da PI: 8.984

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Araip.R4F69	genome	NCGR_PGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	14.6	9.3e-05	60	82	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C k F r nL+ H r H Araip.R4F69 60 FVCEICLKGFQRDQNLQLHRRGH 82 89*******************88 PP
2	zf-C2H2	12.8	0.00036	136	158	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H +t+ Araip.R4F69 136 WKCDKCSKRYAVQSDWKAHSKTC 158 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.09E-5	59	82	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.9E-4	59	82	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.305	60	82	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	62	82	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	2.3E-4	124	157	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.09E-5	131	156	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0044212	Molecular Function	transcription regulatory region DNA binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 490 aa Download sequence Send to blast
MDDGEVSNGA FPLHHNNQTH DPTSNNPPPL KRKRNLPGNP DPEAEVIALS PKTLMATNRF 60 VCEICLKGFQ RDQNLQLHRR GHNLPWKLKQ RTTKEVRKRV YVCPEKTCVH NHPSRALGDL 120 TGIKKHFCRK HGEKKWKCDK CSKRYAVQSD WKAHSKTCGT REYKCDCGTI FSRRDSFITH 180 RAFCDALAEE TARVNAASTI NHTLLGANNI AYTLMQQQNH HPLVPNNMST HFSSIFKPIS 240 SSTTDEISSN SQTSSRPLSL WNMGHHPHDT TTIMPITHNN LHDIHQQIGF ATNPPPPSIW 300 MFGNKHPSNG SQQEIITSTT SANSLPLMNI VKNNNNNNNN NNNNNNNNNH VANQLVSVPS 360 LYSTQHQSHD HDQTTTTSSS AANMSATALL QKAAQIGSTS STDPSSFLGS IGLKCSNNNN 420 QGQDGNNKFC GIYSSSWSEP ESSTGDLTQM PPTKRMRVQN EDGSAGGQTR DFLGVGVQTI 480 CHPSSITGWI

Sequence ? help Back to Top

Protein Sequence Length: 490 aa Download sequence Send to blast

MDDGEVSNGA FPLHHNNQTH DPTSNNPPPL KRKRNLPGNP DPEAEVIALS PKTLMATNRF  60
VCEICLKGFQ RDQNLQLHRR GHNLPWKLKQ RTTKEVRKRV YVCPEKTCVH NHPSRALGDL  120
TGIKKHFCRK HGEKKWKCDK CSKRYAVQSD WKAHSKTCGT REYKCDCGTI FSRRDSFITH  180
RAFCDALAEE TARVNAASTI NHTLLGANNI AYTLMQQQNH HPLVPNNMST HFSSIFKPIS  240
SSTTDEISSN SQTSSRPLSL WNMGHHPHDT TTIMPITHNN LHDIHQQIGF ATNPPPPSIW  300
MFGNKHPSNG SQQEIITSTT SANSLPLMNI VKNNNNNNNN NNNNNNNNNH VANQLVSVPS  360
LYSTQHQSHD HDQTTTTSSS AANMSATALL QKAAQIGSTS STDPSSFLGS IGLKCSNNNN  420
QGQDGNNKFC GIYSSSWSEP ESSTGDLTQM PPTKRMRVQN EDGSAGGQTR DFLGVGVQTI  480
CHPSSITGWI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-34	132	201	3	72	Zinc finger protein JACKDAW
5b3h_F	1e-34	132	201	3	72	Zinc finger protein JACKDAW
Search in ModeBase

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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00125	DAP	Transfer from AT1G03840	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Araip.R4F69

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}.

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016172121.1	0.0	zinc finger protein NUTCRACKER
Swissprot	Q9ZWA6	1e-146	IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBL	A0A444Y685	0.0	A0A444Y685_ARAHY; Uncharacterized protein
STRING	XP_007149800.1	0.0	(Phaseolus vulgaris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF4626	29	51

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03840.1	1e-138	C2H2 family 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]