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 Medtr4g028130.6
Common NameMTR_4g028130
Organism
Medicago truncatula
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Medicago
Family B3
Protein Properties Length: 650aa    MW: 72338.3 Da    PI: 6.6503
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Medtr4g028130.6genomeMtView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3573.5e-18315414198
                      EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 
                      f+k l+ sd+++ grlvlpk +ae++   ++++e+  l+++d +g++W +++++  +++s++yvl+ G     ++ +L++gD+v+F++++  e+
  Medtr4g028130.6 315 FEKMLSASDAGRIGRLVLPKACAEAYfpPISQPEGLPLRIQDVKGKEWMFQFRFwpNNNSRMYVLE-GVTPCIQSMQLQAGDTVTFSRMD-PEG 406
                      89**************************555567778***************9989999999***9.********************876.777 PP

                      ..EEEEE- CS
               B3  91 elvvkvfr 98 
                      +l +++++
  Medtr4g028130.6 407 KLIMGFRK 414
                      77777765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.103.0E-29307419IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019367.85E-19312414IPR015300DNA-binding pseudobarrel domain
CDDcd100175.24E-22313414No hitNo description
PROSITE profilePS5086311.166315416IPR003340B3 DNA binding domain
PfamPF023621.0E-15315414IPR003340B3 DNA binding domain
SMARTSM010191.2E-19315415IPR003340B3 DNA binding domain
PROSITE profilePS5105013.361579629IPR011124Zinc finger, CW-type
PfamPF074961.1E-9584626IPR011124Zinc finger, CW-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010030Biological Processpositive regulation of seed germination
GO:2000034Biological Processregulation of seed maturation
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 650 aa     Download sequence    Send to blast
MESKCCMNVV CGTSTSIRWR KGWILRSGEF ADLCDKCGSA YEQSAFCDMF HAKESGWREC  60
TSCGKRLHCG CVASKSQLEI LDTGGVSCIT CASTSGLQPI ASNENPNESG TAKVNNVSAQ  120
QCITLANQLN VRGMQVGNYA ENDGMRCWLK PHNVDFDGLS REIKPEVLPS VGEFGSTLMS  180
QFHRESNGSS RTGKAENDMQ DIYESLAQTN LSMTLAAPLP NPFHNVLVDE REQSKMSPPL  240
LLASRSRHLL PKPPRPALSP GLEGNTGMVS QIRIARPPAE GRGRNQLLPR YWPRITDQEL  300
QQISGDSNST IVPLFEKMLS ASDAGRIGRL VLPKACAEAY FPPISQPEGL PLRIQDVKGK  360
EWMFQFRFWP NNNSRMYVLE GVTPCIQSMQ LQAGDTVTFS RMDPEGKLIM GFRKATNSAS  420
QETFPSNMPN GSHSSETSYS GVYENIPILS GYSGLLQSQK GCSETHLNAL SKKWNSVGAD  480
MDWHNVEMPE SRKRDVLSLP PVLVPEKKRT RNIGSKSKRL LIDSEDALEL KLTWEEAQDL  540
LRPPPEVKPS VVMIEDHLFE EYEEPPVFGK KSIFVVRSTG ISEQWTQCDS CQKWRKLPVD  600
VLIPPKWTCM ENFWDQSRCS CAAPNELNPM ELDNLLRMNN GISLFLALN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A7e-702934222131B3 domain-containing transcription repressor VAL1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Mtr.241080.0root| seed| stem
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
PlantRegMapMedtr4g028130.6
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1475370.0AC147537.39 Medicago truncatula clone mth2-133k2, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003605289.10.0B3 domain-containing transcription repressor VAL2 isoform X2
SwissprotQ5CCK40.0VAL2_ARATH; B3 domain-containing transcription repressor VAL2
TrEMBLA0A072UHG00.0A0A072UHG0_MEDTR; AP2/B3 transcription factor family protein
STRINGAES874860.0(Medicago truncatula)
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. Young ND, et al.
    The Medicago genome provides insight into the evolution of rhizobial symbioses.
    Nature, 2011. 480(7378): p. 520-4
    [PMID:22089132]
  2. 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]
  3. 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]
  4. 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]
  5. Li C,Cui Y
    A DNA element that remembers winter.
    Nat. Genet., 2016. 48(12): p. 1451-1452
    [PMID:27898079]