PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID evm.model.supercontig_0.91
Organism
Carica papaya
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Caricaceae; Carica
Family B3
Protein Properties Length: 519aa    MW: 56712.1 Da    PI: 7.634
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm.model.supercontig_0.91genomeASGPBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B359.84.7e-19261360198
                                 EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-E CS
                          B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDf 79 
                                 f+kvl+ sd+++ grlvlpk +ae++   ++++e+  l+++d +g++W +++++  +++s++yvl+ G     ++ +L++gD+
  evm.model.supercontig_0.91 261 FEKVLSASDAGRIGRLVLPKACAEAYfpPISQPEGLPLRIQDIKGKEWVFQFRFwpNNNSRMYVLE-GVTPCIQSMQLQAGDT 342
                                 99**************************555567778***************9989999999***9.**************** PP

                                 EEEEE-SSSEE..EEEEE- CS
                          B3  80 vvFkldgrsefelvvkvfr 98 
                                 v+F++++  e++lv+++++
  evm.model.supercontig_0.91 343 VTFSRMD-PEGKLVMGFRK 360
                                 ****876.77778877776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.106.2E-31253369IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.96E-20258362IPR015300DNA-binding pseudobarrel domain
CDDcd100172.85E-23259360No hitNo description
SMARTSM010193.4E-20261361IPR003340B3 DNA binding domain
PfamPF023622.0E-16261360IPR003340B3 DNA binding domain
PROSITE profilePS5086311.124261362IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 519 aa     Download sequence    Send to blast
MSSSSRSVFE QSAFCEVYHS KESGWRNCTS CSKRLHCGCI VSRVLIEILD SGGVNCINCA  60
KKSGLAPTAL DDQPNGFGLL KVDNACASQV TATDGQPGGV FVQMKQEEVL HASGEPGTTC  120
FSNFQETCNG FSQAAKPDIS KASTGSRDVY KPQPQTNLSI TLGTRENPSH LNSAVVDERG  180
KMLSTFQQVS RSCHLLPKPP RSALGAGLEA NSSMGSQIRV ARPPAEGRGR NQLLPRYWPR  240
ITDQELQQLS GDSNSTIVPL FEKVLSASDA GRIGRLVLPK ACAEAYFPPI SQPEGLPLRI  300
QDIKGKEWVF QFRFWPNNNS RMYVLEGVTP CIQSMQLQAG DTVTFSRMDP EGKLVMGFRK  360
ATNSITVQDT QPSATPSVAH SSESFFSGVF ENLPITSGYS GLLQSLKGST DVHLSTLSKH  420
LNSANVDISW NKSGKHEDIT RENLLLPSML IPERKRTRNI GSKSKRLLID NLDSLELKLT  480
WEEAQDLLRP PPSSKPSIIT IEDHDFEEYE GTRTVGSM*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A3e-712393682131B3 domain-containing transcription repressor VAL1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional 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
SourceLink
PlantRegMapevm.model.supercontig_0.91
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021910632.10.0LOW QUALITY PROTEIN: B3 domain-containing transcription repressor VAL2-like, partial
SwissprotQ5CCK41e-178VAL2_ARATH; B3 domain-containing transcription repressor VAL2
TrEMBLA0A1R3H2W70.0A0A1R3H2W7_COCAP; Uncharacterized protein
STRINGevm.model.supercontig_0.910.0(Carica papaya)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM72032639
Representative plantOGRP12361446
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G32010.11e-172HSI2-like 1
Publications ? help Back to Top
  1. 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]
  2. 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]
  3. 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]
  4. Li C,Cui Y
    A DNA element that remembers winter.
    Nat. Genet., 2016. 48(12): p. 1451-1452
    [PMID:27898079]