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

Sopen10g027510.2

Organism

Solanum pennellii

Taxonomic ID

28526

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon

Family

Protein Properties

Length: 827aa MW: 91299 Da PI: 7.7319

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sopen10g027510.2	genome	spenn	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	58	1.7e-18	322	422	1	99
EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 f+kvl+ sd+++ grlvlpk +ae++ ++++e+ l+++d +g++W +++++ +++s++yvl+ G ++ +L++gD+v+F++++ e Sopen10g027510.2 322 FEKVLSASDAGRIGRLVLPKACAEAYfpPISQPEGLPLRIQDVKGKEWVFQFRFwpNNNSRMYVLE-GVTPCIQSMQLQAGDTVTFSRMD-PE 412 99************************555567778***********99899999999.*******************876.88 PP E..EEEEE-S CS B3 90 felvvkvfrk 99 ++l+++++++ Sopen10g027510.2 413 GKLLMGFRKA 422 8888888765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	2.8E-29	314	423	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	2.09E-19	319	421	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	2.63E-22	320	421	No hit	No description
SMART	SM01019	1.9E-20	322	423	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.152	322	423	IPR003340	B3 DNA binding domain
Pfam	PF02362	6.0E-16	322	422	IPR003340	B3 DNA binding domain
PROSITE profile	PS51050	14.202	586	636	IPR011124	Zinc finger, CW-type
Pfam	PF07496	6.2E-12	591	633	IPR011124	Zinc finger, CW-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010030	Biological Process	positive regulation of seed germination
GO:2000034	Biological Process	regulation of seed maturation
GO:0003677	Molecular Function	DNA binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 827 aa Download sequence Send to blast
MESKICMNGL CGTASSIEWK KGWPLRSGEF ATLCDKCGNA YEQLLFCDLF HSEDTGWREC 60 ISCGKRLHCG CIASSSLLEL LDSGGINCIS CVRSCQQHAT PNHEKPKAFG TSISNSVGET 120 ASTSLGSQIN GSEPNKRDGS DSIDPALLLL HQNDNTNSPI GQIKMEETFH PAGESGSTFS 180 SNLCQASAES SKNAKLDSYN GYKGVVEIHG STVQTNLSIA LSAPSPNSKL FPTTLDEGDL 240 NKTISSLQQG SRSRNLLPKP PKSASALGPE MNAGIISQIR VARPPVEGRI KNQLLPRYWP 300 RITDQELQQI SGDSNSTIIP LFEKVLSASD AGRIGRLVLP KACAEAYFPP ISQPEGLPLR 360 IQDVKGKEWV FQFRFWPNNN SRMYVLEGVT PCIQSMQLQA GDTVTFSRMD PEGKLLMGFR 420 KASTVKITQE NRLSAIPKSV FSAEPTSFSA MPENLPLMSG YSGLLQSFKG SREPSVNLSS 480 KHFNGGDFSW YLTEKNGGRN ADGAFSPSMP VSERKRSRNI GSKSKRLLID AHEALELKLS 540 WEELQDMLRP PLSVQPTTVT IEDQEFEEYE QPPVLGKRSI FTVRLSGEQE QWAQCDNCFK 600 WRKLPADYLL PPQWTCQDNI SDHSRSSCSV PDDLTPRELE TLLKMDKDFK KQRSASGLRI 660 TQAHDSSDLD SQANGISIAG DPREPGPASV ATTTKHPRHR PGCSCIVCIQ PPSGKGKHNP 720 TCTCNVCMTV KRRFKTLMMR KKKRQSEREA ELGQMNQLMW SSREETEVDS FSRQVKPEVD 780 PSDKERSGSE TLARGHSSNQ LQKLPEITSM SAARDISEAE WSNKLSF

Sequence ? help Back to Top

Protein Sequence Length: 827 aa Download sequence Send to blast

MESKICMNGL CGTASSIEWK KGWPLRSGEF ATLCDKCGNA YEQLLFCDLF HSEDTGWREC  60
ISCGKRLHCG CIASSSLLEL LDSGGINCIS CVRSCQQHAT PNHEKPKAFG TSISNSVGET  120
ASTSLGSQIN GSEPNKRDGS DSIDPALLLL HQNDNTNSPI GQIKMEETFH PAGESGSTFS  180
SNLCQASAES SKNAKLDSYN GYKGVVEIHG STVQTNLSIA LSAPSPNSKL FPTTLDEGDL  240
NKTISSLQQG SRSRNLLPKP PKSASALGPE MNAGIISQIR VARPPVEGRI KNQLLPRYWP  300
RITDQELQQI SGDSNSTIIP LFEKVLSASD AGRIGRLVLP KACAEAYFPP ISQPEGLPLR  360
IQDVKGKEWV FQFRFWPNNN SRMYVLEGVT PCIQSMQLQA GDTVTFSRMD PEGKLLMGFR  420
KASTVKITQE NRLSAIPKSV FSAEPTSFSA MPENLPLMSG YSGLLQSFKG SREPSVNLSS  480
KHFNGGDFSW YLTEKNGGRN ADGAFSPSMP VSERKRSRNI GSKSKRLLID AHEALELKLS  540
WEELQDMLRP PLSVQPTTVT IEDQEFEEYE QPPVLGKRSI FTVRLSGEQE QWAQCDNCFK  600
WRKLPADYLL PPQWTCQDNI SDHSRSSCSV PDDLTPRELE TLLKMDKDFK KQRSASGLRI  660
TQAHDSSDLD SQANGISIAG DPREPGPASV ATTTKHPRHR PGCSCIVCIQ PPSGKGKHNP  720
TCTCNVCMTV KRRFKTLMMR KKKRQSEREA ELGQMNQLMW SSREETEVDS FSRQVKPEVD  780
PSDKERSGSE TLARGHSSNQ LQKLPEITSM SAARDISEAE WSNKLSF

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5yzy_C	8e-68	300	423	1	124	B3 domain-containing transcription repressor VAL1
5yzz_C	8e-68	300	423	1	124	B3 domain-containing transcription repressor VAL1
5z00_C	8e-68	300	423	1	124	B3 domain-containing transcription repressor VAL1
5z00_G	8e-68	300	423	1	124	B3 domain-containing transcription repressor VAL1
5z00_K	8e-68	300	423	1	124	B3 domain-containing transcription repressor VAL1
5z00_M	8e-68	300	423	1	124	B3 domain-containing transcription repressor VAL1
6j9a_A	8e-68	300	423	2	125	B3 domain-containing transcription repressor VAL1
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	730	741	KRRFKTLMMRKK
2	730	743	KRRFKTLMMRKKKR

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}.

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	HG975449	0.0	HG975449.1 Solanum pennellii chromosome ch10, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015055849.1	0.0	B3 domain-containing transcription repressor VAL2 isoform X2
Swissprot	Q5CCK4	0.0	VAL2_ARATH; B3 domain-containing transcription repressor VAL2
TrEMBL	A0A1U8EFC0	0.0	A0A1U8EFC0_CAPAN; B3 domain-containing transcription repressor VAL2-like isoform X2
TrEMBL	A0A2G3BDR8	0.0	A0A2G3BDR8_CAPCH; B3 domain-containing protein
STRING	Solyc10g075030.1.1	0.0	(Solanum lycopersicum)

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

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] 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]