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 Gh_D02G0047
Organism
Gossypium hirsutum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family B3
Protein Properties Length: 904aa    MW: 99529 Da    PI: 7.0199
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gh_D02G0047genomeNAU-NBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B358.89.4e-19321420198
                  EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EE CS
           B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvv 94 
                  f+kvl+ sd+++ grlvlpk +ae++   ++++e+  l+++d +g++W +++++  +++s++yvl+ G     ++ +L++gD+v+F++++  e++lv+
  Gh_D02G0047 321 FEKVLSASDAGRIGRLVLPKACAEAYfpPISQPEGLPLRIQDVKGKEWVFQFRFwpNNNSRMYVLE-GVTPCIQSMQLQAGDTVTFSRKD-PEGKLVM 416
                  99**************************555567778***************9989999999***9.********************654.8888888 PP

                  EEE- CS
           B3  95 kvfr 98 
                  ++++
  Gh_D02G0047 417 GFRK 420
                  8776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.7E-30313430IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.02E-19318420IPR015300DNA-binding pseudobarrel domain
CDDcd100171.02E-22319420No hitNo description
PfamPF023625.1E-16321420IPR003340B3 DNA binding domain
PROSITE profilePS5086311.11321422IPR003340B3 DNA binding domain
SMARTSM010197.0E-21321421IPR003340B3 DNA binding domain
PROSITE profilePS5105014.002586636IPR011124Zinc finger, CW-type
PfamPF074963.7E-11591633IPR011124Zinc finger, CW-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 904 aa     Download sequence    Send to blast
MALKSCMNVL CGASTSIEWR NGWTLRSGDF ANLCDKCGSA YEQSIFCDVF HSKDSGWRDC  60
NSCGKPLHCG CIASRFLLEL LDGGGINCVS CAKKSGFNHM IEDEKPNGFG MVKADAGQLH  120
STSADNQLSG ASIENLQLMQ LSNNAESIGL RQLLQLHNDD SSGSLGQMKQ DEFLPPPREM  180
GNTCLTSINQ ASNGSVEAVK PTTSKVNIFD SLPQTNLSIS LGGSLGNQNG FPSSVVDEKS  240
KMSSVLQQAS KSRHLLPKPP RSVLATGLEM NAGTVPQIRV ARPPAEGRGR NQLLPRYWPR  300
ITDQELQQIS GDSNSTIVPL FEKVLSASDA GRIGRLVLPK ACAEAYFPPI SQPEGLPLRI  360
QDVKGKEWVF QFRFWPNNNS RMYVLEGVTP CIQSMQLQAG DTVTFSRKDP EGKLVMGFRK  420
ATNTAVVQET LPPAIPNGTL SSESYFSGVF ENLPIISGYS GLLQSLKGST DPHLNGLSKH  480
SSLAGGDISG HKSDMHEDRI REDLLLTSML TPERKRTRNI GSKSKRLLID SQDALELKLT  540
WEEAQDLLHP PPSIKPSIVT IEDHDFEEYD EPPVFGKRSI FAVRSTGGQE QWAQCDNCSK  600
WRRVPVDALL PPKWTCADNN WDQSRSSCSL PDELTPRELE ILLRLNTDFT KRRIIAFHRQ  660
TQEHESSPGL NALANAAILG DNVADSGTTS VATTTKHPRH RPGCSCIVCI QPPSGKGKHK  720
PTCTCNVCLT VKRRFKTLMM RKKKRQSERE AEIALRNQQA WGPREEAEVE SSSKHVSPHH  780
DPSENEARSV NKLESKNQSN NNKLVSKVVE VNKGRIDLNC DPCRDDDSQF GSSTRMSMMN  840
LLHVASLPLE TYLKENGLTS LVSDQQAIST SHAPPQTGNT SEPHDDQCSH SATEEHETRD  900
EVNT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A1e-682994282131B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1731742KRRFKTLMMRKK
2731744KRRFKTLMMRKKKR
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}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJX5769793e-79JX576979.1 Gossypium hirsutum clone NBRI_GE8713 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016685317.10.0PREDICTED: B3 domain-containing transcription repressor VAL2-like
SwissprotQ5CCK40.0VAL2_ARATH; B3 domain-containing transcription repressor VAL2
TrEMBLA0A1U8J4Q00.0A0A1U8J4Q0_GOSHI; B3 domain-containing transcription repressor VAL2-like
STRINGGorai.005G004300.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM72032639
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G32010.10.0HSI2-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]