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

CCG001028.1

Organism

Populus euphratica

Taxonomic ID

75702

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

Protein Properties

Length: 838aa MW: 93043.4 Da PI: 6.9199

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
CCG001028.1	genome	LZU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	58.5	1.2e-18	296	395	1	98
EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvv 94 f+k+l+ sd+++ grlvlpk +ae++ +++ e++ l+++d +gr+W++++++ +++s++yvl+ G ++ +Lk+gD+++F++++ +++lv+ CCG001028.1 296 FEKILSASDAGRIGRLVLPKACAEAFfpPISQSEGIPLRIQDIKGREWTFQFRFwpNNNSRMYVLE-GVTPCIHSMQLKAGDTITFSRID-PGGKLVM 391 99************************666678889***********99899999999.*******************887.7777777 PP EEE- CS B3 95 kvfr 98 ++++ CCG001028.1 392 GFRK 395 7765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	3.53E-21	293	398	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	5.2E-29	293	402	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	2.59E-24	294	395	No hit	No description
PROSITE profile	PS50863	11.166	296	397	IPR003340	B3 DNA binding domain
Pfam	PF02362	7.6E-16	296	395	IPR003340	B3 DNA binding domain
SMART	SM01019	1.5E-22	296	396	IPR003340	B3 DNA binding domain
PROSITE profile	PS51050	14.202	542	592	IPR011124	Zinc finger, CW-type
Pfam	PF07496	2.5E-10	547	589	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: 838 aa Download sequence Send to blast
MGTKICMNAS CQTTTTHEWK SGWPLRSGGH ALLCYNCGSA YEDSLFCDTF HTEEPGWREC 60 NICSKMQSDE IPNGSIFLAR NNAGDSESIP VENTVSGNSI DEGGLAQLCR LLEANEPSLL 120 HPSKRANING GLGHVRQEEI MHVTGDIGTG FSNVTQRSIG SLKFSKPDNM SSLLDLRDMH 180 SSLSQPSLSM ALGAPSGTTN FVTFPDGAVE GKEQRKTPSS FQQGQISRPI LPKPSKPGLS 240 VSSENNKGAA SELRIARPPT EGRGKNQLLP RYWPRITDQE LQRLSGDLKS NIVPLFEKIL 300 SASDAGRIGR LVLPKACAEA FFPPISQSEG IPLRIQDIKG REWTFQFRFW PNNNSRMYVL 360 EGVTPCIHSM QLKAGDTITF SRIDPGGKLV MGFRKSTNND EDTQDVQASG LPDGTASGET 420 SFSGGKDPDQ NALSKRLKLA DGDIGWNNSE NHRCRINVDL LQKTTAPTEK KRTQNIGPKS 480 KRLLMHSEDA MELRLTWEEA QDLLRPPPSV KPTIVTIEDH EFEEYDEPPV FGKRTIFTCR 540 SSGGQEQWAQ CDNCLKWRNL PVDALLPPKW TCSENVWDSS RCKCSAPEEM TSKDLDNVLR 600 VSKDFKKRRN LESQKRFQEW EPSGLDALAT VAVLGDNLDD SGDPSVGATT KHPRHRLGCT 660 CIVCIQPPSG KGKHKPTCTC NVCMTVKRRF KTLMLRKKKR QSERETEISQ KDNMNHKEES 720 ETNGTTSHEV LHINNPDTEG NQSQRRQIEK PETSAGQIDL NCHPNREDMS LEIPGLSTMN 780 LVDTANSPLD NYIKQNGLSS FVWDHQGGPA QQSGDSLRRL SDEAFLASIG WTHESRRD

Sequence ? help Back to Top

Protein Sequence Length: 838 aa Download sequence Send to blast

MGTKICMNAS CQTTTTHEWK SGWPLRSGGH ALLCYNCGSA YEDSLFCDTF HTEEPGWREC  60
NICSKMQSDE IPNGSIFLAR NNAGDSESIP VENTVSGNSI DEGGLAQLCR LLEANEPSLL  120
HPSKRANING GLGHVRQEEI MHVTGDIGTG FSNVTQRSIG SLKFSKPDNM SSLLDLRDMH  180
SSLSQPSLSM ALGAPSGTTN FVTFPDGAVE GKEQRKTPSS FQQGQISRPI LPKPSKPGLS  240
VSSENNKGAA SELRIARPPT EGRGKNQLLP RYWPRITDQE LQRLSGDLKS NIVPLFEKIL  300
SASDAGRIGR LVLPKACAEA FFPPISQSEG IPLRIQDIKG REWTFQFRFW PNNNSRMYVL  360
EGVTPCIHSM QLKAGDTITF SRIDPGGKLV MGFRKSTNND EDTQDVQASG LPDGTASGET  420
SFSGGKDPDQ NALSKRLKLA DGDIGWNNSE NHRCRINVDL LQKTTAPTEK KRTQNIGPKS  480
KRLLMHSEDA MELRLTWEEA QDLLRPPPSV KPTIVTIEDH EFEEYDEPPV FGKRTIFTCR  540
SSGGQEQWAQ CDNCLKWRNL PVDALLPPKW TCSENVWDSS RCKCSAPEEM TSKDLDNVLR  600
VSKDFKKRRN LESQKRFQEW EPSGLDALAT VAVLGDNLDD SGDPSVGATT KHPRHRLGCT  660
CIVCIQPPSG KGKHKPTCTC NVCMTVKRRF KTLMLRKKKR QSERETEISQ KDNMNHKEES  720
ETNGTTSHEV LHINNPDTEG NQSQRRQIEK PETSAGQIDL NCHPNREDMS LEIPGLSTMN  780
LVDTANSPLD NYIKQNGLSS FVWDHQGGPA QQSGDSLRRL SDEAFLASIG WTHESRRD

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6j9a_A	1e-69	274	398	2	126	B3 domain-containing transcription repressor VAL1
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	686	697	KRRFKTLMLRKK
2	686	699	KRRFKTLMLRKKKR

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011021047.1	0.0	PREDICTED: B3 domain-containing transcription repressor VAL1
Swissprot	Q8W4L5	0.0	VAL1_ARATH; B3 domain-containing transcription repressor VAL1
TrEMBL	A0A2K1Y675	0.0	A0A2K1Y675_POPTR; Uncharacterized protein
STRING	POPTR_0013s15330.1	0.0	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF10323	30	39

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]