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

RrC5691_p2

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 383aa MW: 43715.6 Da PI: 8.8602

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC5691_p2	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	18.8	4.3e-06	59	81	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 y+C++C++ F r nL+ H r+H RrC5691_p2 59 YVCEICNQGFQRDQNLQMHRRRH 81 9*********************9 PP
2	zf-C2H2	14.8	8.6e-05	138	160	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k + +s++k H++t+ RrC5691_p2 138 WVCERCSKGYAVQSDYKAHLKTC 160 58*******************98 PP
3	zf-C2H2	11.2	0.0012	168	186	5	23
TTTEEESSHHHHHHHHHHT CS zf-C2H2 5 dCgksFsrksnLkrHirtH 23 dCg++Fsr +++ H+ t+ RrC5691_p2 168 DCGRVFSRVESFIEHQDTC 186 9***************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	4.18E-5	56	82	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.5E-5	58	81	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.0052	59	81	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.97	59	81	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	61	81	IPR007087	Zinc finger, C2H2
SMART	SM00355	160	102	132	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	9.4E-4	129	159	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	94	138	165	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009630	Biological Process	gravitropism
GO:0009965	Biological Process	leaf morphogenesis
GO:0010601	Biological Process	positive regulation of auxin biosynthetic process
GO:0048444	Biological Process	floral organ morphogenesis
GO:2000012	Biological Process	regulation of auxin polar transport
GO:0003676	Molecular Function	nucleic acid binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 383 aa Download sequence Send to blast
MIDYERNNIH VSSSSSDLLL AINGTPVNNK RKRRPAGTPD PDAEVVSLSP STLLESDRYV 60 CEICNQGFQR DQNLQMHRRR HKVPWKLLKR EKKDEEVRKR VYVCPEPTCL HHDPCHALGD 120 LVGIKKHFRR KHSAHKQWVC ERCSKGYAVQ SDYKAHLKTC GSRGHSCDCG RVFSRVESFI 180 EHQDTCTIRR PQPTNPPRPL QQNISGHATP SRTFSTTRFG PSLHGLPMLR PPQASHQQSL 240 AFSYPVDASS SPFESLQLQL SIGMAKTSSN LKRNEKEEMS LALERANEEA RRADEMRQEA 300 KRQIEMAEMD LERAKNIRKQ AEAELEKAQF VREEAMKRIN ATMLELTCRS CKQLFQLPVM 360 ADESKTSLVM SYVSSATTEG ECE

Sequence ? help Back to Top

Protein Sequence Length: 383 aa Download sequence Send to blast

MIDYERNNIH VSSSSSDLLL AINGTPVNNK RKRRPAGTPD PDAEVVSLSP STLLESDRYV  60
CEICNQGFQR DQNLQMHRRR HKVPWKLLKR EKKDEEVRKR VYVCPEPTCL HHDPCHALGD  120
LVGIKKHFRR KHSAHKQWVC ERCSKGYAVQ SDYKAHLKTC GSRGHSCDCG RVFSRVESFI  180
EHQDTCTIRR PQPTNPPRPL QQNISGHATP SRTFSTTRFG PSLHGLPMLR PPQASHQQSL  240
AFSYPVDASS SPFESLQLQL SIGMAKTSSN LKRNEKEEMS LALERANEEA RRADEMRQEA  300
KRQIEMAEMD LERAKNIRKQ AEAELEKAQF VREEAMKRIN ATMLELTCRS CKQLFQLPVM  360
ADESKTSLVM SYVSSATTEG ECE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-17	134	186	3	55	Zinc finger protein JACKDAW
5b3h_F	3e-17	134	186	3	55	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor regulating lateral organ morphogenesis and gravitropic responses (PubMed:24039602). Has a redundant role with IDD14 in directing leaf and floral organ morphogenesis (PubMed:24039602). Acts cooperatively with IDD15 to control silique and branche orientation (PubMed:24039602). Involved in the establishment of auxin gradients through the regulation of auxin biosynthesis and transport (PubMed:24039602). {ECO:0000269\|PubMed:24039602}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Not regulated by auxin. {ECO:0000269\|PubMed:24039602}.

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	XP_018482205.1	0.0	PREDICTED: protein indeterminate-domain 16-like
Swissprot	Q9FRH4	0.0	IDD16_ARATH; Protein indeterminate-domain 16
TrEMBL	A0A3P5Y330	0.0	A0A3P5Y330_BRACM; Uncharacterized protein
STRING	Bo5g043540.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM693	28	131

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G25250.1	0.0	indeterminate(ID)-domain 16

Publications ? help Back to Top
Qu Y, et al. Peroxisomal CuAOζ and its product H2O2 regulate the distribution of auxin and IBA-dependent lateral root development in Arabidopsis. J. Exp. Bot., 2017. 68(17): p. 4851-4867 [PMID:28992128]