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

Carubv10025479m

Common Name

CARUB_v10025479mg

Organism

Capsella rubella

Taxonomic ID

81985

Taxonomic Lineage

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

Family

DBB

Protein Properties

Length: 244aa MW: 27019.3 Da PI: 4.8052

Description

DBB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10025479m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-B_box	23.8	9.5e-08	4	43	5	38
zf-B_box 5 kCpeHeekelqlfCedCqqllCedClleeHkg......Ht 38 C+ +e+ +++l C ++ lC++C +e H H+ Carubv10025479m 4 QCDVCEKAPATLICCADEAALCANCDVEVHAAnklaskHQ 43 7*****************************6556666665 PP
2	zf-B_box	24.9	4.2e-08	55	86	4	35
zf-B_box 4 rkCpeHeekelqlfCedCqqllCedClleeHk 35 + C+ + ek + +fC +++ llC+dC ++H Carubv10025479m 55 PPCDICLEKAAFIFCVEDRALLCRDCDGATHA 86 68****************************93 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50119	9.428	1	47	IPR000315	B-box-type zinc finger
CDD	cd00021	4.79E-7	3	47	No hit	No description
SMART	SM00336	6.5E-10	4	47	IPR000315	B-box-type zinc finger
Pfam	PF00643	5.5E-6	4	44	IPR000315	B-box-type zinc finger
SMART	SM00336	6.3E-13	52	99	IPR000315	B-box-type zinc finger
PROSITE profile	PS50119	8.93	52	99	IPR000315	B-box-type zinc finger
CDD	cd00021	1.35E-5	55	98	No hit	No description
Pfam	PF00643	7.2E-6	55	95	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: 244 aa Download sequence Send to blast
MKIQCDVCEK APATLICCAD EAALCANCDV EVHAANKLAS KHQRLFLDSL STKFPPCDIC 60 LEKAAFIFCV EDRALLCRDC DGATHAPNTR SANHQRFLAT GIRVALSSTS CSQEVEKNHF 120 DPANQQNAKQ VLSKPQPPQS PAPSPLWASD EFFRYSDDLD CSNKQKEQLD LGELDWLAEM 180 GFLGDQPDQE ALPAAEVPEL SFSHLAHAHS YNRSMKSNVS NKKPRLEIRY DDDEEHFLVP 240 DLG*

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	Carubv10025479m

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	AF323666	0.0	AF323666.1 Arabidopsis thaliana B-box zinc finger protein STH mRNA, complete cds.
GenBank	AF325077	0.0	AF325077.1 Arabidopsis thaliana putative CONSTANS-like B-box zinc finger protein (At2g31380) mRNA, complete cds.
GenBank	AF370311	0.0	AF370311.1 Arabidopsis thaliana putative CONSTANS B-box zinc finger protein (At2g31380) mRNA, complete cds.
GenBank	AY063097	0.0	AY063097.1 Arabidopsis thaliana putative CONSTANS B-box zinc finger protein (At2g31380) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006296307.1	1e-180	B-box zinc finger protein 25 isoform X1
Swissprot	Q9SID1	1e-156	BBX25_ARATH; B-box zinc finger protein 25
TrEMBL	R0HUW2	1e-179	R0HUW2_9BRAS; Uncharacterized protein
STRING	XP_006296307.1	1e-179	(Capsella rubella)

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-154	salt tolerance homologue

Link Out ? help Back to Top
Phytozome	Carubv10025479m
Entrez Gene	17889976

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]