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_009118559.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

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

Family

DBB

Protein Properties

Length: 234aa MW: 25977.3 Da PI: 4.9209

Description

DBB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009118559.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-B_box	22.3	2.8e-07	4	43	5	38
zf-B_box 5 kCpeHeekelqlfCedCqqllCedClleeHkg......Ht 38 C+ +e+ +++ C ++ lC++C +e+H H+ XP_009118559.1 4 QCDVCENAPATVICCADEAALCPKCDVEIHAAnklaskHQ 43 7*****************************6566776766 PP
2	zf-B_box	31	5.2e-10	55	95	4	38
zf-B_box 4 rkCpeHeekelqlfCedCqqllCedClleeHkg......Ht 38 ++C+ ++ek + +fC +++ llC+dC +++H H+ XP_009118559.1 55 PRCDICQEKAAFIFCVEDRALLCKDCDESIHLAnsrsanHQ 95 79*****************************4334556665 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50119	9.172	1	47	IPR000315	B-box-type zinc finger
CDD	cd00021	9.27E-6	3	45	No hit	No description
SMART	SM00336	2.4E-7	4	47	IPR000315	B-box-type zinc finger
Pfam	PF00643	2.6E-5	4	44	IPR000315	B-box-type zinc finger
PROSITE profile	PS50119	9.883	52	99	IPR000315	B-box-type zinc finger
SMART	SM00336	2.3E-15	52	99	IPR000315	B-box-type zinc finger
Pfam	PF00643	1.2E-7	55	95	IPR000315	B-box-type zinc finger
CDD	cd00021	5.11E-8	55	98	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005622	Cellular Component	intracellular
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 234 aa Download sequence Send to blast
MKIQCDVCEN APATVICCAD EAALCPKCDV EIHAANKLAS KHQRLHLDSL PTKFPRCDIC 60 QEKAAFIFCV EDRALLCKDC DESIHLANSR SANHQRLLAT GIKVALGSSS CTKETEKDQS 120 KEIPAKTLSQ KQPSSSATTP LPWAVDDFFH FSDPEFTDKK GELDLGEFEW FSDMGFFGDQ 180 TLPAAEVPEL SVSHMGQVHS YRPMKSNVSY KKPRLEIRGG DDDDEEHFIV PDLG

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bra.21262	1e-122	bud\| silique

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: High expression in leaves and lower in roots and flowers.

Functional Description ? help Back to Top
Source	Description
UniProt	Acts as negative regulator of seedling photomorphogenesis and light-regulated inhibition of hypocotyl elongation (PubMed:17605755, PubMed:18540109, PubMed:21685177). BBX24/STO and BBX25/STH function as transcriptional corepressors of HY5 activity, leading to the down-regulation of BBX22 expression. BBX24/STO acts additively with BBX25/STH during de-etiolation and the hypocotyl shade avoidance response (PubMed:23624715). Functions as negative regulator of photomorphogenic UV-B responses by interacting with both COP1 and HY5 (PubMed:22410790). May act as a transcription factor in the salt-stress response (PubMed:12909688). {ECO:0000269\|PubMed:12909688, ECO:0000269\|PubMed:17605755, ECO:0000269\|PubMed:18540109, ECO:0000269\|PubMed:21685177, ECO:0000269\|PubMed:22410790, ECO:0000269\|PubMed:23624715}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009118559.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Circadian regulation with a peak before dawn. {ECO:0000269\|PubMed:17605755}.

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	JN386973	1e-118	JN386973.1 Brassica napus salt tolerance protein (STO-2) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009118559.1	1e-174	PREDICTED: B-box zinc finger protein 24-like isoform X1
Swissprot	Q96288	1e-134	BBX24_ARATH; B-box zinc finger protein 24
TrEMBL	M4EUF9	1e-173	M4EUF9_BRARP; Uncharacterized protein
STRING	Bra032441.1-P	1e-174	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2711	27	67

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G06040.1	1e-137	DBB family protein

Publications ? help Back to Top
Gangappa SN,Holm M,Botto JF Molecular interactions of BBX24 and BBX25 with HYH, HY5 HOMOLOG, to modulate Arabidopsis seedling development. Plant Signal Behav, 2014. [PMID:23733077] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Imtiaz M, et al. Identification and functional characterization of the BBX24 promoter and gene from chrysanthemum in Arabidopsis. Plant Mol. Biol., 2015. 89(1-2): p. 1-19 [PMID:26253592] Job N,Yadukrishnan P,Bursch K,Datta S,Johansson H Two B-Box Proteins Regulate Photomorphogenesis by Oppositely Modulating HY5 through their Diverse C-Terminal Domains. Plant Physiol., 2018. 176(4): p. 2963-2976 [PMID:29439209]