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_013584552.1

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

C3H

Protein Properties

Length: 392aa MW: 43388.8 Da PI: 7.7504

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013584552.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	33.6	6.5e-11	129	152	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 e C+ f+r+G C++Gd C FaHg XP_013584552.1 129 GEVCPEFRRGGDCSRGDDCEFAHG 152 689********************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	3.79E-6	126	156	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	8.4E-6	126	153	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.535	126	154	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.9E-8	130	152	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.1E-6	130	154	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.5	162	185	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 392 aa Download sequence Send to blast
MDIVRPTVEI PPRKLLSSSK SFSGEASPRS SPRKHNWNNK SNKTSTSEQE EDSFNEDNTN 60 TNTNNNKDAK EYCYDSDTDD PYASDHFRMF EFKIRRCTRS RSHDWTDCPF AHPGEKARRR 120 DPRRFQYSGE VCPEFRRGGD CSRGDDCEFA HGVFECWLHP IRYRTEACKD GKHCKRKVCF 180 FAHSPRQLRV LPPENDSGGS SASTSQAKNQ NPCCLFCSGS PTSTLLGNLS HLSRSPSSSP 240 PLSPAHKAAA FSRLRSCAAS AAAAGSVNYK DVLNELVNSL DSITLAEALQ VSSPSPSPVS 300 AAAAAFASSC GLSTQRLHIQ QQQQSSPLQF ALSPSTPSYL TNSPRASFFS DDYTPRQREV 360 NEFTPSAVRE KTRFEDGSCG DPDIGWVNDL LT

Sequence ? help Back to Top

Protein Sequence Length: 392 aa Download sequence Send to blast

MDIVRPTVEI PPRKLLSSSK SFSGEASPRS SPRKHNWNNK SNKTSTSEQE EDSFNEDNTN  60
TNTNNNKDAK EYCYDSDTDD PYASDHFRMF EFKIRRCTRS RSHDWTDCPF AHPGEKARRR  120
DPRRFQYSGE VCPEFRRGGD CSRGDDCEFA HGVFECWLHP IRYRTEACKD GKHCKRKVCF  180
FAHSPRQLRV LPPENDSGGS SASTSQAKNQ NPCCLFCSGS PTSTLLGNLS HLSRSPSSSP  240
PLSPAHKAAA FSRLRSCAAS AAAAGSVNYK DVLNELVNSL DSITLAEALQ VSSPSPSPVS  300
AAAAAFASSC GLSTQRLHIQ QQQQSSPLQF ALSPSTPSYL TNSPRASFFS DDYTPRQREV  360
NEFTPSAVRE KTRFEDGSCG DPDIGWVNDL LT

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Specifically expressed in seeds. {ECO:0000269\|PubMed:18487351}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription repressor that functions as negative regulator of phytochrome-mediated promotion of seed germination. Inhibits seed germination by regulating the expression of gibberellic acid (GA) and abscisic acid (ABA) metabolic genes. Does not regulate the expression of the DELLA genes RGA and RGA1. Activated by PIL5, a phytochrome-interacting basic helix-loop-helix transcription factor. {ECO:0000269\|PubMed:18487351}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_013584552.1

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_013584552.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 2-like
Swissprot	Q9ZWA1	0.0	C3H2_ARATH; Zinc finger CCCH domain-containing protein 2
TrEMBL	A0A0D3C7D9	0.0	A0A0D3C7D9_BRAOL; Uncharacterized protein
STRING	Bo5g004080.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2987	27	66

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03790.1	1e-158	C3H family protein

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Chang G, et al. AFP2 as the novel regulator breaks high-temperature-induced seeds secondary dormancy through ABI5 and SOM in Arabidopsis thaliana. Biochem. Biophys. Res. Commun., 2018. 501(1): p. 232-238 [PMID:29723526]