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

GSBRNA2T00084211001

Common Name

GSBRNA2T00084211001

Organism

Brassica napus

Taxonomic ID

3708

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: 289aa MW: 31319.7 Da PI: 6.4982

Description

DBB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00084211001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-B_box	16.9	1.3e-05	4	47	5	42
zf-B_box 5 kCpeHeekelqlfCedCqqllCedClleeHkg......Htvvpl 42 C+ +e e+ C ++ lC C ++ H H++vpl GSBRNA2T00084211001 4 QCNVCETAEAAVLCCADEAALCLACDEKVHTAnklagkHQRVPL 47 7****99*******************66899999999986 PP
2	zf-B_box	25.1	3.7e-08	54	90	3	37
zf-B_box 3 erkCpeHeekelqlfCedCqqllCedClleeHkg...H 37 +kC+ ++e +fC +++ llC++C +++H H GSBRNA2T00084211001 54 IPKCDICQEATGFFFCLQDRALLCRKCDVAIH-TvnpH 90 689****9999****************9.33452 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50119	10.196	1	47	IPR000315	B-box-type zinc finger
CDD	cd00021	1.02E-6	3	47	No hit	No description
SMART	SM00336	5.0E-9	4	47	IPR000315	B-box-type zinc finger
SMART	SM00336	1.6E-13	52	99	IPR000315	B-box-type zinc finger
PROSITE profile	PS50119	8.788	52	99	IPR000315	B-box-type zinc finger
CDD	cd00021	9.25E-9	55	99	No hit	No description
Pfam	PF00643	6.5E-6	55	89	IPR000315	B-box-type zinc finger

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: 289 aa Download sequence Send to blast
MKIQCNVCET AEAAVLCCAD EAALCLACDE KVHTANKLAG KHQRVPLSVS SSSIPKCDIC 60 QEATGFFFCL QDRALLCRKC DVAIHTVNPH VSAHQRFLLT GIRVGLESTT DTGPSTPSND 120 DKTNERKPPT SEPQKLDLDH HNHQVGLPET KVSDHISTKL PIASSGSAAT GSISQWQIDE 180 IFGLTDFDQS YEYVENNGSS KADTSRRGDS DSSSMMRSGE EDGEDNSNCL GGGETSWAVP 240 QIHSPPTASG LNWPRHFKHQ SMFVPHISSS THNTGSSPNQ RVGKRRRF*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.19087	0.0	seed

Functional Description ? help Back to Top
Source	Description
UniProt	Acts as positive regulator of seedling photomorphogenesis and light-regulated inhibition of hypocotyl elongation, independently and in concert with HY5 and BBX21 (PubMed:18540109, PubMed:18796637, PubMed:18182030, PubMed:21427283). Acts as a positive regulator of de-etiolation and influences chloroplast biogenesis and function through regulation of genes encoding chloroplast proteins (PubMed:18182030). Acts downstream of COP1 and plays an important role in early and long-term adjustment of the shade avoidance syndrome (SAS) responses in natural environments (PubMed:21070414). Regulates the expression of genes responsive to light hormone signals which may contribute to optimal seedling development (PubMed:21427283). {ECO:0000269\|PubMed:18182030, ECO:0000269\|PubMed:18540109, ECO:0000269\|PubMed:18796637, ECO:0000269\|PubMed:21070414, ECO:0000269\|PubMed:21427283}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00084211001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By light. {ECO:0000269\|PubMed:18182030}.

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	AC232445	0.0	AC232445.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB006F18, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013648648.1	0.0	B-box zinc finger protein 22-like
Swissprot	Q9SYM2	1e-153	BBX22_ARATH; B-box zinc finger protein 22
TrEMBL	A0A078JQX2	0.0	A0A078JQX2_BRANA; BnaAnng29690D protein
STRING	Bra003640.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5606	28	49

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G78600.1	1e-125	light-regulated zinc finger protein 1

Publications ? help Back to Top
Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293]