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

FANhyb_rscf00000282.1.g00001.1

Organism

Fragaria x ananassa

Taxonomic ID

3747

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria

Family

Protein Properties

Length: 875aa MW: 96430.6 Da PI: 6.7843

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
FANhyb_rscf00000282.1.g00001.1	genome	kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	59.1	7.9e-19	265	365	1	99
EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT-- CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLk 75 f+kvl+ sd+++ grlvlpk +ae++ +++ e+ l+++d +g++W++++++ +++s++yvl+ G ++ +L+ FANhyb_rscf00000282.1.g00001.1 265 FEKVLSASDAGRIGRLVLPKACAEAYfpPISHSEGLPLRIQDVKGNEWTFQFRFwpNNNSRMYVLE-GVTPCIQSMQLQ 342 99************************555556667***********99899999999.********* PP TT-EEEEEE-SSSEE..EEEEE-S CS B3 76 egDfvvFkldgrsefelvvkvfrk 99 +gD+v+F++++ + +lv++++++ FANhyb_rscf00000282.1.g00001.1 343 AGDTVTFSRID-PGNKLVIGFRKA 365 ******887.777789988875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	1.6E-29	261	369	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	9.81E-21	262	365	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.55E-23	263	364	No hit	No description
PROSITE profile	PS50863	10.828	265	366	IPR003340	B3 DNA binding domain
SMART	SM01019	4.2E-23	265	366	IPR003340	B3 DNA binding domain
Pfam	PF02362	2.4E-16	265	365	IPR003340	B3 DNA binding domain
PROSITE profile	PS51050	14.895	525	575	IPR011124	Zinc finger, CW-type
Pfam	PF07496	3.8E-12	530	572	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: 875 aa Download sequence Send to blast
MSAWITGIPR NDVLNGFGGL ALSNAGDRNS SSVEYRTVGD TVDEGKFLQL CGTVDEGKLL 60 QLCKIMEANE STLLPQSPTG EESVFLESNL LPRPQRDDKI ESLGQTKGQE VIHQIGEVSP 120 GFFSPTQSSI GSLTFAAQPD NGRTMLEVNH MSIPSSQPSL SMSLGAPSAT PNFIQPFSGG 180 HMDIRDQSKT PSAFQQVKPR PILPRPLQPP LPPVSSETNR SVRIARPPAE GRGRNQLLPR 240 YWPRITDQEL QKLSGALNST IVPLFEKVLS ASDAGRIGRL VLPKACAEAY FPPISHSEGL 300 PLRIQDVKGN EWTFQFRFWP NNNSRMYVLE GVTPCIQSMQ LQAGDTVTFS RIDPGNKLVI 360 GFRKASQSVN MQGPQTSVLQ NGTPGETSFS SENLATGSGD SSLFHMNKGS KDPPLNSPSD 420 HHLAEWDTYM QNRENSGHRT SEDLLQPVSN SEKKRTRNIG PKSKRLLMHS EDVMELRLTW 480 EEAQDLLRPP PSVKPSIVTI EDFEFEEYDE PPVFGKRSIF TAGPSKRREQ WAQCDDCSKW 540 RKLPVDVLLP PKWTCSENSW DSSRSSCTAP EEMSSKQLDN LLSSSVSLKG LKKRRKIIEK 600 KDAEEQEPSG LDALASAAIL GDKVRESGEQ SVGATTKHPR HRPGCTCIVC IQPPSGKGKH 660 KPSCKCNVCL TVKRRFTTMM QRKYEKRQLE REAENSQRNN GNHKDESEVN GTTSGDAMLH 720 RNNSANNSQR NNNNHKDESE INGTTSGDAA LHRNHSSENG ASSSQSRTQA DAAESSSAGQ 780 IDLNCEPSGL FRNPTLQDLF KLAKAASAAR PSEKYTNENS LRTMMDEEQA GLASCSLTQA 840 NGDNERQLPN EAHLSSVSWD CPSIGDKVYR EPDLE

Sequence ? help Back to Top

Protein Sequence Length: 875 aa Download sequence Send to blast

MSAWITGIPR NDVLNGFGGL ALSNAGDRNS SSVEYRTVGD TVDEGKFLQL CGTVDEGKLL  60
QLCKIMEANE STLLPQSPTG EESVFLESNL LPRPQRDDKI ESLGQTKGQE VIHQIGEVSP  120
GFFSPTQSSI GSLTFAAQPD NGRTMLEVNH MSIPSSQPSL SMSLGAPSAT PNFIQPFSGG  180
HMDIRDQSKT PSAFQQVKPR PILPRPLQPP LPPVSSETNR SVRIARPPAE GRGRNQLLPR  240
YWPRITDQEL QKLSGALNST IVPLFEKVLS ASDAGRIGRL VLPKACAEAY FPPISHSEGL  300
PLRIQDVKGN EWTFQFRFWP NNNSRMYVLE GVTPCIQSMQ LQAGDTVTFS RIDPGNKLVI  360
GFRKASQSVN MQGPQTSVLQ NGTPGETSFS SENLATGSGD SSLFHMNKGS KDPPLNSPSD  420
HHLAEWDTYM QNRENSGHRT SEDLLQPVSN SEKKRTRNIG PKSKRLLMHS EDVMELRLTW  480
EEAQDLLRPP PSVKPSIVTI EDFEFEEYDE PPVFGKRSIF TAGPSKRREQ WAQCDDCSKW  540
RKLPVDVLLP PKWTCSENSW DSSRSSCTAP EEMSSKQLDN LLSSSVSLKG LKKRRKIIEK  600
KDAEEQEPSG LDALASAAIL GDKVRESGEQ SVGATTKHPR HRPGCTCIVC IQPPSGKGKH  660
KPSCKCNVCL TVKRRFTTMM QRKYEKRQLE REAENSQRNN GNHKDESEVN GTTSGDAMLH  720
RNNSANNSQR NNNNHKDESE INGTTSGDAA LHRNHSSENG ASSSQSRTQA DAAESSSAGQ  780
IDLNCEPSGL FRNPTLQDLF KLAKAASAAR PSEKYTNENS LRTMMDEEQA GLASCSLTQA  840
NGDNERQLPN EAHLSSVSWD CPSIGDKVYR EPDLE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6j9a_A	2e-70	243	373	2	132	B3 domain-containing transcription repressor VAL1
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	591	595	KKRRK
2	672	686	KRRFTTMMQRKYEKR

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_011461406.1	0.0	PREDICTED: B3 domain-containing transcription repressor VAL2
Swissprot	Q8W4L5	0.0	VAL1_ARATH; B3 domain-containing transcription repressor VAL1
TrEMBL	A0A2P6QKW1	0.0	A0A2P6QKW1_ROSCH; Putative transcription factor & chromatin remodeling CW-Zn-B3/VAL family
STRING	XP_004294727.1	0.0	(Fragaria vesca)

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]