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

Rsa1.0_03943.1_g00004.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

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

Family

DBB

Protein Properties

Length: 246aa MW: 27481.8 Da PI: 4.667

Description

DBB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_03943.1_g00004.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-B_box	23.1	1.5e-07	4	43	5	38
zf-B_box 5 kCpeHeekelqlfCedCqqllCedClleeHkg......Ht 38 C+ +e+ +++l C ++ lC++C +e H H+ Rsa1.0_03943.1_g00004.1 4 QCDVCEKAPATLICCADEAALCAKCDVEVHAAnklaskHQ 43 7*****************************6556666665 PP
2	zf-B_box	26.9	1e-08	55	86	4	35
zf-B_box 4 rkCpeHeekelqlfCedCqqllCedClleeHk 35 + C+ + ek + +fC +++ llC+dC + +H Rsa1.0_03943.1_g00004.1 55 PPCDICLEKAAFIFCVEDRALLCRDCDEGTHA 86 68*****************************4 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50119	9.371	1	47	IPR000315	B-box-type zinc finger
CDD	cd00021	4.48E-7	3	47	No hit	No description
Pfam	PF00643	9.1E-6	4	44	IPR000315	B-box-type zinc finger
SMART	SM00336	1.8E-9	4	47	IPR000315	B-box-type zinc finger
SMART	SM00336	2.4E-13	52	99	IPR000315	B-box-type zinc finger
Pfam	PF00643	6.1E-7	55	95	IPR000315	B-box-type zinc finger
CDD	cd00021	4.09E-7	55	98	No hit	No description
PROSITE profile	PS50119	8.916	57	99	IPR000315	B-box-type zinc finger

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010100	Biological Process	negative regulation of photomorphogenesis
GO:0005622	Cellular Component	intracellular
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 246 aa Download sequence Send to blast
MKIQCDVCEK APATLICCAD EAALCAKCDV EVHAANKLAS KHQRLFLDSL STNFPPCDIC 60 LEKAAFIFCV EDRALLCRDC DEGTHAPNTR SANHQRFLAT GIRVALSSAS CSKEAETNRF 120 DPSNQQILSK PPTQQPAAPS PPWTGDEFFS YSDLECNNKQ KEQLDIGELD WLAEMGFFGD 180 QPDDQEALPA AEVPELSVSH LAHVHSYNRP MNPNVSNKKP RLEIRYDDEE EHFLVPDLSL 240 NYGRRN

Functional Description ? help Back to Top
Source	Description
UniProt	Acts as negative regulator of seedling photomorphogenesis (PubMed:18540109). BBX25/STH and BBX24/STO function as transcriptional corepressors of HY5 activity, leading to the down-regulation of BBX22 expression. BBX25/STH acts additively with BBX24/STO during de-etiolation and the hypocotyl shade avoidance response (PubMed:23624715). {ECO:0000269\|PubMed:18540109, ECO:0000269\|PubMed:23624715}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_03943.1_g00004.1

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	AK352961	0.0	AK352961.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-09-E05.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018439835.1	0.0	PREDICTED: B-box zinc finger protein 25 isoform X1
Swissprot	Q9SID1	1e-156	BBX25_ARATH; B-box zinc finger protein 25
TrEMBL	A0A078J0K2	1e-163	A0A078J0K2_BRANA; BnaCnng30730D protein
TrEMBL	A0A3P6BYG4	1e-163	A0A3P6BYG4_BRAOL; Uncharacterized protein
STRING	Bo4g052140.1	1e-164	(Brassica oleracea)

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
AT2G31380.1	1e-148	salt tolerance homologue

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] Zhang X,Lin R Light signaling differentially regulates the expression of group IV of the B-box zinc finger family. Plant Signal Behav, 2017. 12(9): p. e1365213 [PMID:28922622]