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

GSBRNA2T00099832001

Common Name

GSBRNA2T00099832001, LOC106453602

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: 770aa MW: 85093.2 Da PI: 7.4778

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00099832001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	57.8	2e-18	282	381	1	98
EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldg 86 f+kvl+ sd+++ grlvlpk +ae++ ++++e+ l+++d +g++W +++++ +++s++yvl+ G ++ +L++gD+v+F++++ GSBRNA2T00099832001 282 FEKVLSASDAGRIGRLVLPKACAEAYfpPISQPEGLPLKIQDIKGKEWVFQFRFwpNNNSRMYVLE-GVTPCIQSMQLQAGDTVTFSRTE 370 99************************555566778***********99899999999.*******************654 PP SSEE..EEEEE- CS B3 87 rsefelvvkvfr 98 e++lv++ ++ GSBRNA2T00099832001 371 -PEGKLVMGYRK 381 .77777777665 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	1.0E-29	277	385	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	5.49E-20	279	382	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.61E-22	280	381	No hit	No description
Pfam	PF02362	1.3E-15	282	381	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.053	282	383	IPR003340	B3 DNA binding domain
SMART	SM01019	4.9E-20	282	382	IPR003340	B3 DNA binding domain
PROSITE profile	PS51050	14.821	511	561	IPR011124	Zinc finger, CW-type
Pfam	PF07496	9.5E-13	516	558	IPR011124	Zinc finger, CW-type

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
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 770 aa Download sequence Send to blast
MESTKVCMNA QCGSTSTSGE WKRGWPMRSG ELASLCDKCG SAYEQSIFCQ VFHAEESGWR 60 ECNSCDKRLH CGCIASRFMM ELVDNGGVTC ITCAKKSGLF SMNVESNGRE FPTFASAEHV 120 SSVLERTNLK HLLHFQRISP TQPFLQMKQE ESLLPARLES LRHNTEKKES AQPNLSISLG 180 PTLMTSQFHD VDDRSKTTPI FQLASRSRQL LPKPANSAPT TAPPMEPNGS LVSQIHVARP 240 PPEGRGKTQL LPRYWPRITD QELQQLSGQY PHLSNSKIIP LFEKVLSASD AGRIGRLVLP 300 KACAEAYFPP ISQPEGLPLK IQDIKGKEWV FQFRFWPNNN SRMYVLEGVT PCIQSMQLQA 360 GDTVTFSRTE PEGKLVMGYR KATNSTAAQM FKGSSEPNLN MFSNNLSSGC GDINWSKLDK 420 SDDMSKDGLM LQPSLISARK RVRNIGTKSK RLLIDSVDVL ELRLTWEEAQ ELLRPPQSAK 480 PSICTVEDHD FEEYDEPPVF GKRTVFVSRQ TGEQEQWVQC DACAKWRRLP VDTLLPPKWL 540 CSDNVLDPGR SSCSAPDELT PREQDTLLRL SKEFKRRRLA SSNQEEASAL DTLANAAITT 600 TGEQGETEVA ATTKHPRHRA GCSCIVCSQP PSGKGKHKPS CTCTVCEAVK RRFKTLMMRK 660 RNRGEAGQAS QQAQSDQCRE ETEAESIPAV ELPAAGGNID LNSDPASRVS MMSLLQAATF 720 PLEVYLKQKG VPNTAGEQQS SDIVSTENGS SSAAQEHDRD TSGAPEALN*

Sequence ? help Back to Top

Protein Sequence Length: 770 aa Download sequence Send to blast

MESTKVCMNA QCGSTSTSGE WKRGWPMRSG ELASLCDKCG SAYEQSIFCQ VFHAEESGWR  60
ECNSCDKRLH CGCIASRFMM ELVDNGGVTC ITCAKKSGLF SMNVESNGRE FPTFASAEHV  120
SSVLERTNLK HLLHFQRISP TQPFLQMKQE ESLLPARLES LRHNTEKKES AQPNLSISLG  180
PTLMTSQFHD VDDRSKTTPI FQLASRSRQL LPKPANSAPT TAPPMEPNGS LVSQIHVARP  240
PPEGRGKTQL LPRYWPRITD QELQQLSGQY PHLSNSKIIP LFEKVLSASD AGRIGRLVLP  300
KACAEAYFPP ISQPEGLPLK IQDIKGKEWV FQFRFWPNNN SRMYVLEGVT PCIQSMQLQA  360
GDTVTFSRTE PEGKLVMGYR KATNSTAAQM FKGSSEPNLN MFSNNLSSGC GDINWSKLDK  420
SDDMSKDGLM LQPSLISARK RVRNIGTKSK RLLIDSVDVL ELRLTWEEAQ ELLRPPQSAK  480
PSICTVEDHD FEEYDEPPVF GKRTVFVSRQ TGEQEQWVQC DACAKWRRLP VDTLLPPKWL  540
CSDNVLDPGR SSCSAPDELT PREQDTLLRL SKEFKRRRLA SSNQEEASAL DTLANAAITT  600
TGEQGETEVA ATTKHPRHRA GCSCIVCSQP PSGKGKHKPS CTCTVCEAVK RRFKTLMMRK  660
RNRGEAGQAS QQAQSDQCRE ETEAESIPAV ELPAAGGNID LNSDPASRVS MMSLLQAATF  720
PLEVYLKQKG VPNTAGEQQS SDIVSTENGS SSAAQEHDRD TSGAPEALN*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6j9a_A	1e-66	256	389	2	131	B3 domain-containing transcription repressor VAL1
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	574	578	KRRRL

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional repressor of gene expression involved in embryonic pathways, such as LEC1, ABI3, and FUS3. Repressor of the sugar-inducible genes involved in the seed maturation program in seedlings. Plays an essential role in regulating the transition from seed maturation to seedling growth. Functionally redundant with VAL1/HSI2. {ECO:0000269\|PubMed:17158584, ECO:0000269\|PubMed:17267611}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00099832001

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013751290.1	0.0	B3 domain-containing transcription repressor VAL2
Swissprot	Q5CCK4	0.0	VAL2_ARATH; B3 domain-containing transcription repressor VAL2
TrEMBL	A0A0D3DHA9	0.0	A0A0D3DHA9_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6F8U4	0.0	A0A3P6F8U4_BRAOL; Uncharacterized protein
STRING	Bo7g115570.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM7203	26	39

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G32010.1	0.0	HSI2-like 1

Link Out ? help Back to Top
Entrez Gene	106453602

Publications ? help Back to Top
Jia H,McCarty DR,Suzuki M Distinct roles of LAFL network genes in promoting the embryonic seedling fate in the absence of VAL repression. Plant Physiol., 2013. 163(3): p. 1293-305 [PMID:24043445] 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] Chhun T, et al. HSI2 Repressor Recruits MED13 and HDA6 to Down-Regulate Seed Maturation Gene Expression Directly During Arabidopsis Early Seedling Growth. Plant Cell Physiol., 2016. 57(8): p. 1689-706 [PMID:27335347] Yuan W, et al. A cis cold memory element and a trans epigenome reader mediate Polycomb silencing of FLC by vernalization in Arabidopsis. Nat. Genet., 2016. 48(12): p. 1527-1534 [PMID:27819666] Li C,Cui Y A DNA element that remembers winter. Nat. Genet., 2016. 48(12): p. 1451-1452 [PMID:27898079]