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

Vradi0091s00050.1

Organism

Vigna radiata

Taxonomic ID

157791

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Vigna

Family

Protein Properties

Length: 1022aa MW: 113495 Da PI: 7.052

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Vradi0091s00050.1	genome	SNU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	56.1	6.6e-18	434	533	1	98
EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 f+k l+ sd+++ grlvlpk +ae++ ++++e+ l+++d +g++W +++++ +++s++yvl+ G ++ +L++gD+v+F++++ Vradi0091s00050.1 434 FEKMLSASDAGRIGRLVLPKACAEAYfpPISQPEGLPLRIQDVKGKEWMFQFRFwpNNNSRMYVLE-GVTPCIQSMQLQAGDTVTFSRMD-P 523 89************************555567778***********99899999999.*******************876.7 PP EE..EEEEE- CS B3 89 efelvvkvfr 98 e++l +++++ Vradi0091s00050.1 524 EGKLIMGFRK 533 7777777765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	6.0E-29	428	542	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	1.31E-18	431	534	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.30E-21	432	533	No hit	No description
Pfam	PF02362	1.9E-15	434	533	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.166	434	535	IPR003340	B3 DNA binding domain
SMART	SM01019	1.2E-19	434	534	IPR003340	B3 DNA binding domain
PROSITE profile	PS51050	13.245	699	749	IPR011124	Zinc finger, CW-type
Pfam	PF07496	5.2E-9	704	746	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: 1022 aa Download sequence Send to blast
MHFGASFFLL SYSACTRLLS LSLCFNLSYS LIFSLRLPSI QISLWFLSSV QIQTTFRSHS 60 PPLFHANANP KPHHSRRPHF VETSGDRNFY LRTSGDAERP LEGVELELKM ESRSCMNVAC 120 ATLTTIRWRK GWALRSGEFA DLCDKCGSAY EQSTYCDTFH SNDSGWRECT SCDKRLHCGC 180 IASMSQLELL DTGGVSCISC ARNSGLQPIA INEKPNGSGT SKVIDVSAQQ CTSLANQLNV 240 RGMQGGHYAE NDGLRCWFKP HKIETDGPST EMKPEILPSV GELGSTLISQ FHFESNGSSK 300 ASKAESCKAD TEIRDIYESL AQTNLSMTLA TPIGNSNPFH SSVVDEREQS KTSSLLLGSR 360 SRHLLPKPPR STSGTGLEIN AGMVSQIRVA RPPAEGRGRN QLLPRYWPRI TDQELQQISG 420 EYPTFSNSTI VPLFEKMLSA SDAGRIGRLV LPKACAEAYF PPISQPEGLP LRIQDVKGKE 480 WMFQFRFWPN NNSRMYVLEG VTPCIQSMQL QAGDTVTFSR MDPEGKLIMG FRKATNSTAV 540 QETLPSNMPN GSHSSETSYS GVYENLPILS GYSGLLQSQK GCSETHLNVL SKKWNSAGGD 600 MNWHNIDIPE SRKREGLPLP PVLVPEKKRT RNIGSKSKRL LIDSQDALEL KLTWEEAQDL 660 LRPPPAVKPS IVMIEDQVFE EYEEPPVFGK RSIFVVRSAG VNEQWTQCDS CSKWRKLPVD 720 VLIPPKWTCV ENLWDQSRCS CAAPNELNPR ELDNLLRLNK EFKKQRFAAS QRPALDHESS 780 GLDALANAAI LGDDASESGR TPVVTTTKHP RHRPGCSCIV CIQPPSGKGK HKPTCTCNVC 840 MTVKRRFKTL MMRKKKRQSE REAEIAQRNQ LAWRTKDESE VDSTSRHLTP VDGLENEVRT 900 PSELDPRTPQ DQVAEAAKGQ LDLNCQPDRE EAQTGPNNVS MTSLLEEANL PLETYLKQNG 960 LTSLISEQQT NSASNVQQAQ TTNESEGRQN EDCGTASVIH EQDSSHEDNS GQDKDQNNSL 1020 S*

Sequence ? help Back to Top

Protein Sequence Length: 1022 aa Download sequence Send to blast

MHFGASFFLL SYSACTRLLS LSLCFNLSYS LIFSLRLPSI QISLWFLSSV QIQTTFRSHS  60
PPLFHANANP KPHHSRRPHF VETSGDRNFY LRTSGDAERP LEGVELELKM ESRSCMNVAC  120
ATLTTIRWRK GWALRSGEFA DLCDKCGSAY EQSTYCDTFH SNDSGWRECT SCDKRLHCGC  180
IASMSQLELL DTGGVSCISC ARNSGLQPIA INEKPNGSGT SKVIDVSAQQ CTSLANQLNV  240
RGMQGGHYAE NDGLRCWFKP HKIETDGPST EMKPEILPSV GELGSTLISQ FHFESNGSSK  300
ASKAESCKAD TEIRDIYESL AQTNLSMTLA TPIGNSNPFH SSVVDEREQS KTSSLLLGSR  360
SRHLLPKPPR STSGTGLEIN AGMVSQIRVA RPPAEGRGRN QLLPRYWPRI TDQELQQISG  420
EYPTFSNSTI VPLFEKMLSA SDAGRIGRLV LPKACAEAYF PPISQPEGLP LRIQDVKGKE  480
WMFQFRFWPN NNSRMYVLEG VTPCIQSMQL QAGDTVTFSR MDPEGKLIMG FRKATNSTAV  540
QETLPSNMPN GSHSSETSYS GVYENLPILS GYSGLLQSQK GCSETHLNVL SKKWNSAGGD  600
MNWHNIDIPE SRKREGLPLP PVLVPEKKRT RNIGSKSKRL LIDSQDALEL KLTWEEAQDL  660
LRPPPAVKPS IVMIEDQVFE EYEEPPVFGK RSIFVVRSAG VNEQWTQCDS CSKWRKLPVD  720
VLIPPKWTCV ENLWDQSRCS CAAPNELNPR ELDNLLRLNK EFKKQRFAAS QRPALDHESS  780
GLDALANAAI LGDDASESGR TPVVTTTKHP RHRPGCSCIV CIQPPSGKGK HKPTCTCNVC  840
MTVKRRFKTL MMRKKKRQSE REAEIAQRNQ LAWRTKDESE VDSTSRHLTP VDGLENEVRT  900
PSELDPRTPQ DQVAEAAKGQ LDLNCQPDRE EAQTGPNNVS MTSLLEEANL PLETYLKQNG  960
LTSLISEQQT NSASNVQQAQ TTNESEGRQN EDCGTASVIH EQDSSHEDNS GQDKDQNNSL  1020
S*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6j9a_A	1e-66	408	541	2	131	B3 domain-containing transcription repressor VAL1
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	843	854	KRRFKTLMMRKK
2	843	856	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Vradi0091s00050.1

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	AP015042	0.0	AP015042.1 Vigna angularis var. angularis DNA, chromosome 9, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_014490364.1	0.0	B3 domain-containing transcription repressor VAL2 isoform X1
Swissprot	Q5CCK4	0.0	VAL2_ARATH; B3 domain-containing transcription repressor VAL2
TrEMBL	A0A1S3T9D4	0.0	A0A1S3T9D4_VIGRR; B3 domain-containing transcription repressor VAL2 isoform X1
STRING	XP_007134718.1	0.0	(Phaseolus vulgaris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF11018	32	39

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]