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

XP_013623277.1

Organism

Brassica oleracea

Taxonomic ID

3712

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: 378aa MW: 43153.1 Da PI: 9.2275

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013623277.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	18.9	4.3e-06	62	84	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 y+C++C++ F r nL+ H r+H XP_013623277.1 62 YVCEICNQGFQRDQNLQMHRRRH 84 9*********************9 PP
2	zf-C2H2	14.8	8.4e-05	141	163	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k + +s++k H++t+ XP_013623277.1 141 WVCERCSKGYAVQSDYKAHLKTC 163 58*******************98 PP
3	zf-C2H2	11.2	0.0011	171	189	5	23
TTTEEESSHHHHHHHHHHT CS zf-C2H2 5 dCgksFsrksnLkrHirtH 23 dCg++Fsr +++ H+ t+ XP_013623277.1 171 DCGRVFSRVESFIEHQDTC 189 9***************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	3.86E-5	59	85	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.5E-5	61	84	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.97	62	84	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0052	62	84	IPR015880	Zinc finger, C2H2-like
Pfam	PF12874	0.018	62	80	No hit	No description
PROSITE pattern	PS00028	0	64	84	IPR007087	Zinc finger, C2H2
SMART	SM00355	160	105	135	IPR015880	Zinc finger, C2H2-like
SMART	SM00355	94	141	168	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: 378 aa Download sequence Send to blast
MIDYEKNNNH QNFPSSSSPD LLLAINGAAV INKRKRRPAG TPDPDADVVS LSPRTLLESD 60 RYVCEICNQG FQRDQNLQMH RRRHKVPWKL LKREKKDEEV RKRVYVCPEP TCLHHDPCHA 120 LGDLVGIKKH FRRKHSVLKQ WVCERCSKGY AVQSDYKAHL KTCGSRGHSC DCGRVFSRVE 180 SFIEHQDTCT IRGPQPTNHR PLHQNTEGHA TPSRTFLTPR INPFLLGVPF LRPPQASHQQ 240 SLAFASSAPF ENLQLQLSIG RTKTQVKRNE KGESSLTMER AIEEARRAEK MRQEARRQIE 300 MAQVDFEKAK NIRKEAKAEL EKAHVVREEA IKRINATMLE ITCHSCKDLF QLPVMADEST 360 SSLVTCYVSS ATTEGEAE

Sequence ? help Back to Top

Protein Sequence Length: 378 aa Download sequence Send to blast

MIDYEKNNNH QNFPSSSSPD LLLAINGAAV INKRKRRPAG TPDPDADVVS LSPRTLLESD  60
RYVCEICNQG FQRDQNLQMH RRRHKVPWKL LKREKKDEEV RKRVYVCPEP TCLHHDPCHA  120
LGDLVGIKKH FRRKHSVLKQ WVCERCSKGY AVQSDYKAHL KTCGSRGHSC DCGRVFSRVE  180
SFIEHQDTCT IRGPQPTNHR PLHQNTEGHA TPSRTFLTPR INPFLLGVPF LRPPQASHQQ  240
SLAFASSAPF ENLQLQLSIG RTKTQVKRNE KGESSLTMER AIEEARRAEK MRQEARRQIE  300
MAQVDFEKAK NIRKEAKAEL EKAHVVREEA IKRINATMLE ITCHSCKDLF QLPVMADEST  360
SSLVTCYVSS ATTEGEAE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	4e-17	139	205	5	71	Zinc finger protein JACKDAW
5b3h_F	4e-17	139	205	5	71	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	XP_013623277.1

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_013623277.1	0.0	PREDICTED: protein indeterminate-domain 16-like
Refseq	XP_022555603.1	0.0	protein indeterminate-domain 16-like isoform X2
Swissprot	Q9FRH4	0.0	IDD16_ARATH; Protein indeterminate-domain 16
TrEMBL	A0A078IPX6	0.0	A0A078IPX6_BRANA; BnaC03g75620D protein
TrEMBL	A0A0D3BI76	0.0	A0A0D3BI76_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6BEU0	0.0	A0A3P6BEU0_BRAOL; Uncharacterized protein
STRING	Bo3g139880.1	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-178	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]