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

Csa16g014430.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

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

Family

Protein Properties

Length: 802aa MW: 87898 Da PI: 7.8086

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa16g014430.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	56.4	5.3e-18	301	395	1	93
EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE. CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrsefe 91 f+k+l+ sd+++ grlvlpk +ae++ +++ e++ l+++d +g++W+++++y +++s++yvl+ G ++ L++gD+v+F++++ +++ Csa16g014430.1 301 FEKTLSASDAGRIGRLVLPKACAEAYfpPISQSEGIPLKIQDVKGKEWTFQFRYwpNNNSRMYVLE-GVTPCIQSMLLQAGDTVTFSRVE-PGGK 393 99************************666678889*************899999999.*******************665.5555 PP .E CS B3 92 lv 93 l Csa16g014430.1 394 LI 395 54 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	9.2E-29	298	408	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	3.53E-19	298	401	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.23E-23	299	396	No hit	No description
SMART	SM01019	1.1E-21	301	401	IPR003340	B3 DNA binding domain
Pfam	PF02362	2.8E-15	301	395	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	10.489	301	402	IPR003340	B3 DNA binding domain
PROSITE profile	PS51050	13.214	554	604	IPR011124	Zinc finger, CW-type
Pfam	PF07496	3.4E-8	560	601	IPR011124	Zinc finger, CW-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 802 aa Download sequence Send to blast
MFEVKMGSKM CMNASCGTTS TVEWKKGWPL RSGLLADLCY RCGSAYESSL FCEQFHKDQS 60 GWRECYLCNK RLHCGCIASK VMIEIMDYGG VGCSTCASCH QLNLNKRGEN PGVFSRLPMK 120 ALADRQYVNG ETGMNIEGGR NEADLFSQSH RGEAQPLVMG GDKREEFMPH RGFGNTSTGY 180 RLDGAEMHES SPSQPSLNMG LSVLPYSPSF STEGIEGKKH IGSSSQSNMV HGSASNILQK 240 PSKPAMSTPP VGSKSAQARI GRPPVEGRGK GHLLPRYWPK YTDKEVQQIS GNLNLNIVPL 300 FEKTLSASDA GRIGRLVLPK ACAEAYFPPI SQSEGIPLKI QDVKGKEWTF QFRYWPNNNS 360 RMYVLEGVTP CIQSMLLQAG DTVTFSRVEP GGKLIMGSRK SANGGDMQGC GVTNGTSTED 420 TSSSGVTENP PSINGSSGPS LIPKESNGVP ENLSSPYGGS SSTKNENNGG RIGDDPTRVK 480 EKKRTRTIGA KNKRLLLHSE ESMELRLTWK EAQDLLRPSP SAKPTIVVVE EHEIEEFDEP 540 PVFGKRTIVT TTPSGEQERW ASCDDCSKWR RLPINALLPF KWTCIDNVWD VSRCSCSTPE 600 ESLKELENVL KAEYKKRRTG ESQVAKSEQE QSGLDALASA AVLGDTIGEP EVATTTRHPR 660 HRAGCSCIVC IQPPSGKGRH KPNCGCNVCS TVKRRFKTLM MRRKKKQLER DGPAAEEKEK 720 DMEQAESDKS KAEKEANAAR IDLNSDPYNK EDVEAVVVEK DESRKRKIGE SSGEAQDGDG 780 LGVKEVEEEA EKIREDPRGS S*

Sequence ? help Back to Top

Protein Sequence Length: 802 aa Download sequence Send to blast

MFEVKMGSKM CMNASCGTTS TVEWKKGWPL RSGLLADLCY RCGSAYESSL FCEQFHKDQS  60
GWRECYLCNK RLHCGCIASK VMIEIMDYGG VGCSTCASCH QLNLNKRGEN PGVFSRLPMK  120
ALADRQYVNG ETGMNIEGGR NEADLFSQSH RGEAQPLVMG GDKREEFMPH RGFGNTSTGY  180
RLDGAEMHES SPSQPSLNMG LSVLPYSPSF STEGIEGKKH IGSSSQSNMV HGSASNILQK  240
PSKPAMSTPP VGSKSAQARI GRPPVEGRGK GHLLPRYWPK YTDKEVQQIS GNLNLNIVPL  300
FEKTLSASDA GRIGRLVLPK ACAEAYFPPI SQSEGIPLKI QDVKGKEWTF QFRYWPNNNS  360
RMYVLEGVTP CIQSMLLQAG DTVTFSRVEP GGKLIMGSRK SANGGDMQGC GVTNGTSTED  420
TSSSGVTENP PSINGSSGPS LIPKESNGVP ENLSSPYGGS SSTKNENNGG RIGDDPTRVK  480
EKKRTRTIGA KNKRLLLHSE ESMELRLTWK EAQDLLRPSP SAKPTIVVVE EHEIEEFDEP  540
PVFGKRTIVT TTPSGEQERW ASCDDCSKWR RLPINALLPF KWTCIDNVWD VSRCSCSTPE  600
ESLKELENVL KAEYKKRRTG ESQVAKSEQE QSGLDALASA AVLGDTIGEP EVATTTRHPR  660
HRAGCSCIVC IQPPSGKGRH KPNCGCNVCS TVKRRFKTLM MRRKKKQLER DGPAAEEKEK  720
DMEQAESDKS KAEKEANAAR IDLNSDPYNK EDVEAVVVEK DESRKRKIGE SSGEAQDGDG  780
LGVKEVEEEA EKIREDPRGS S*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6j9a_A	1e-85	279	409	2	132	B3 domain-containing transcription repressor VAL1
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	692	704	KRRFKTLMMRRKK

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 VAL2/HSL1. {ECO:0000269\|PubMed:15894743, ECO:0000269\|PubMed:17158584, ECO:0000269\|PubMed:17267611}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa16g014430.1

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_010469852.1	0.0	PREDICTED: B3 domain-containing transcription repressor VAL1-like
Swissprot	Q8W4L5	0.0	VAL1_ARATH; B3 domain-containing transcription repressor VAL1
TrEMBL	R0HB22	0.0	R0HB22_9BRAS; Uncharacterized protein
STRING	XP_010469852.1	0.0	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6923	24	40

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G30470.1	0.0	high-level expression of sugar-inducible gene 2

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] Schneider A, et al. Potential targets of VIVIPAROUS1/ABI3-LIKE1 (VAL1) repression in developing Arabidopsis thaliana embryos. Plant J., 2016. 85(2): p. 305-19 [PMID:26678037] 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] Qüesta JI,Song J,Geraldo N,An H,Dean C Arabidopsis transcriptional repressor VAL1 triggers Polycomb silencing at FLC during vernalization. Science, 2016. 353(6298): p. 485-8 [PMID:27471304] 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] Merini W, et al. The Arabidopsis Polycomb Repressive Complex 1 (PRC1) Components AtBMI1A, B, and C Impact Gene Networks throughout All Stages of Plant Development. Plant Physiol., 2017. 173(1): p. 627-641 [PMID:27837089] Li C,Cui Y A DNA element that remembers winter. Nat. Genet., 2016. 48(12): p. 1451-1452 [PMID:27898079] Chen N,Veerappan V,Abdelmageed H,Kang M,Allen RD HSI2/VAL1 Silences AGL15 to Regulate the Developmental Transition from Seed Maturation to Vegetative Growth in Arabidopsis. Plant Cell, 2018. 30(3): p. 600-619 [PMID:29475938] Sasnauskas G,Kauneckaite K,Siksnys V Structural basis of DNA target recognition by the B3 domain of Arabidopsis epigenome reader VAL1. Nucleic Acids Res., 2018. 46(8): p. 4316-4324 [PMID:29660015] Wu B, et al. Structural insight into the role of VAL1 B3 domain for targeting to FLC locus in Arabidopsis thaliana. Biochem. Biophys. Res. Commun., 2018. 501(2): p. 415-422 [PMID:29733847]