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

GSBRNA2T00111064001

Common Name

GSBRNA2T00111064001, LOC106452488

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

Protein Properties

Length: 258aa MW: 29084.1 Da PI: 7.4954

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00111064001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	104.5	5.6e-33	24	134	1	99
EEEE-..-HHHHTT-EE--HHH.HTT............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT- CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegD 78 f+k ltpsdv+k++rlv+pk++ae++ +++e+++ l++edesg+sW+++++y+++s++yvltkGW+++vk+++L++gD GSBRNA2T00111064001 24 FEKSLTPSDVGKLNRLVIPKQHAERYlplnncgggddvTESTEKGVLLSFEDESGKSWKFRYSYWNSSQSYVLTKGWSRYVKDKHLNAGD 113 99******************************99996677899***************************************** PP EEEEEE-SS.SEE..EEEEE-S CS B3 79 fvvFkldgr.sefelvvkvfrk 99 +v+F+++ r + +l+++++r+ GSBRNA2T00111064001 114 VVLFQRH-RfDIHRLFIGWRRR 134 ***65.44888899999987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	6.5E-40	16	141	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	3.79E-31	19	136	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	4.08E-29	23	123	No hit	No description
SMART	SM01019	5.2E-25	24	135	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	13.761	24	135	IPR003340	B3 DNA binding domain
Pfam	PF02362	6.2E-30	24	134	IPR003340	B3 DNA binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 258 aa Download sequence Send to blast
MSVNHYSNTL SSHNHHIDHK ESLFEKSLTP SDVGKLNRLV IPKQHAERYL PLNNCGGGDD 60 VTESTEKGVL LSFEDESGKS WKFRYSYWNS SQSYVLTKGW SRYVKDKHLN AGDVVLFQRH 120 RFDIHRLFIG WRRRGETSSF SAVSAVSQDP RANTTAFWNV LTTPYRQVHA STSSYPNNIH 180 QEYSHYGPVA ETPTVVAGSS RTVRLFGVNL ECHSDVVEPP PCPDAYNGQH IYYYSTPHPM 240 NISYAGEAME QVGDGRG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5os9_A	7e-48	20	134	4	113	B3 domain-containing transcription factor NGA1
5os9_B	7e-48	20	134	4	113	B3 domain-containing transcription factor NGA1
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.5428	0.0	seed

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00111064001

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	AC189547	0.0	AC189547.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH004P05, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013750081.1	0.0	B3 domain-containing protein At3g11580 isoform X2
Swissprot	Q8RYD3	1e-142	Y3158_ARATH; B3 domain-containing protein At3g11580
TrEMBL	A0A3P6EPP0	0.0	A0A3P6EPP0_BRAOL; Uncharacterized protein (Fragment)
STRING	Bo5g136360.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1220	28	100

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G11580.1	1e-144	B3 family protein

Link Out ? help Back to Top
Entrez Gene	106452488

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] 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]