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

GSBRNA2T00142371001

Common Name

GSBRNA2T00142371001

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 384aa MW: 43564.6 Da PI: 9.0891

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00142371001	genome	Genoscope	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 GSBRNA2T00142371001 59 YVCEICNQGFQRDQNLQMHRRRH 81 9*********************9 PP
2	zf-C2H2	14.1	0.00014	138	160	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C C+k + +s++k H++t+ GSBRNA2T00142371001 138 WVCDRCSKGYAVQSDYKAHLKTC 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+ GSBRNA2T00142371001 168 DCGRVFSRVESFIEHQDTC 186 9***************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	3.8E-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
SMART	SM00355	100	138	165	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: 384 aa Download sequence Send to blast
MIDFEKNINH PSSSSSDLLL AINGTTVNNK RKRRPAGTPD PDAEVVSLSP RTLLESDRYV 60 CEICNQGFQR DQNLQMHRRR HKVPWKLLKR EKKDEEVRKR VYVCPEPTCL HHNPCHALGD 120 LVGIKKHFRR KHSAHKQWVC DRCSKGYAVQ SDYKAHLKTC GSRGHSCDCG RVFSRVESFI 180 EHQDTCTIRR PQPSNPPRPL KQNTSCHATP SITLSTPSIG PLLHGLPMLR PPQASHQQAL 240 ASAYPLNASS SSYESLQLQL SIGMAKTSSN LKRSEKGEMS LALERANEEA RRADEMRQEA 300 KRQVEMAEMD FERAKNIREE AKAELEKAQF VREEAMERIK TTILEITCRS CKQLFQLPVM 360 ADESKTSLVM SYVSSARTEG EFE*

Sequence ? help Back to Top

Protein Sequence Length: 384 aa Download sequence Send to blast

MIDFEKNINH PSSSSSDLLL AINGTTVNNK RKRRPAGTPD PDAEVVSLSP RTLLESDRYV  60
CEICNQGFQR DQNLQMHRRR HKVPWKLLKR EKKDEEVRKR VYVCPEPTCL HHNPCHALGD  120
LVGIKKHFRR KHSAHKQWVC DRCSKGYAVQ SDYKAHLKTC GSRGHSCDCG RVFSRVESFI  180
EHQDTCTIRR PQPSNPPRPL KQNTSCHATP SITLSTPSIG PLLHGLPMLR PPQASHQQAL  240
ASAYPLNASS SSYESLQLQL SIGMAKTSSN LKRSEKGEMS LALERANEEA RRADEMRQEA  300
KRQVEMAEMD FERAKNIREE AKAELEKAQF VREEAMERIK TTILEITCRS CKQLFQLPVM  360
ADESKTSLVM SYVSSARTEG EFE*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-16	134	186	3	55	Zinc finger protein JACKDAW
5b3h_F	1e-16	134	186	3	55	Zinc finger protein JACKDAW
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Highly expressed in leaves, hypocotyls, roots, vasculature of cotyledons, floral organs and in the endodermis and vasculaturenof inflorescence stems. {ECO:0000269\|PubMed:24039602}.

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00142371001

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_013662720.1	0.0	protein indeterminate-domain 16
Swissprot	Q9FRH4	0.0	IDD16_ARATH; Protein indeterminate-domain 16
TrEMBL	A0A078J398	0.0	A0A078J398_BRANA; BnaA09g54430D 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	1e-163	indeterminate(ID)-domain 16

Publications ? help Back to Top
Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] 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]