PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Medtr5g046230.1
Common NameMTR_5g046230
Organism
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 YABBY
Protein Properties Length: 217aa    MW: 24405.9 Da    PI: 10.1391
Description YABBY family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Medtr5g046230.1genomeMtView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1YABBY142.25.4e-44151556163
            YABBY   6 sseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaaeshldeslkeelleelkveeenlksnvekeesastsvsse 99 
                      s +++Cyv+CnfCnt+lav +P + l+ +vtv+CGhC++l  ++ +  s    +++h           +l  +      + +k+ ++s+s ss 
  Medtr5g046230.1  15 SDQHLCYVRCNFCNTVLAVGIPCKRLLDTVTVKCGHCSNLSFLTTRPPSSKNQTVDH-----------TLSLQ----GIYSSKKGQPSSS-SSP 92 
                      5579**********************************9866544443333333332...........22222....2233333333333.332 PP

            YABBY 100 klsenedeevprvpp.virPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahf 163
                      +  ++++  +pr+pp v++PPek+ r Psaynrf+keeiqrik +nP+i hreafsaaaknWa +
  Medtr5g046230.1  93 T--TSTESLSPRPPPfVVKPPEKKHRLPSAYNRFMKEEIQRIKVANPQIPHREAFSAAAKNWARY 155
                      3..4555667888888***********************************************76 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046905.0E-5316155IPR006780YABBY protein
SuperFamilySSF470956.81E-898153IPR009071High mobility group box domain
Gene3DG3DSA:1.10.30.104.2E-5109154IPR009071High mobility group box domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010254Biological Processnectary development
GO:0010582Biological Processfloral meristem determinacy
GO:0048479Biological Processstyle development
Sequence ? help Back to Top
Protein Sequence    Length: 217 aa     Download sequence    Send to blast
MNHEEKVTMD LVPPSDQHLC YVRCNFCNTV LAVGIPCKRL LDTVTVKCGH CSNLSFLTTR  60
PPSSKNQTVD HTLSLQGIYS SKKGQPSSSS SPTTSTESLS PRPPPFVVKP PEKKHRLPSA  120
YNRFMKEEIQ RIKVANPQIP HREAFSAAAK NWARYIPNSP TSSISATKRN IVFVRFRLSD  180
QLQSSADQIN DFGVFNVADP ETWIFRRLKY SHMCRL*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: In carpels, expression starts when the gynoecial primordia becomes distinct. First expressed in the lateral region of each carpel. Later resolves into two distinct domains, epidermal and internal. In epidermal tissues, mostly localized on the outer surface, successively from the base to the tip of the gynoecium and finally confined to the valve region before disappearing during last flowering stages. In internal tissues, first confined to four discrete zones adjacent to the future placental tissue occupying the full length of the elongating cylinder, declining from the apical regions and disappearing after the ovule primordia arise. Before nectaries initiation, expression occupies a ring of receptacle cells between the stamen and sepal primordia, from where nectaries will develop. Strongly expressed in nectaries until latest flowering stages. {ECO:0000269|PubMed:10225998}.
UniprotTISSUE SPECIFICITY: Restricted to flowers, mostly in carpels and nectaries. Expressed at low levels in sepal primordia (buds), sepal receptacle and developing petal. Not detected in placental tissues, septum, stigma and ovules. {ECO:0000269|PubMed:10225998}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor required for the initiation of nectary development. Also involved in suppressing early radial growth of the gynoecium, in promoting its later elongation and in fusion of its carpels by regulating both cell division and expansion. Establishes the polar differentiation in the carpels by specifying abaxial cell fate in the ovary wall. Regulates both cell division and expansion. {ECO:0000269|PubMed:10225997, ECO:0000269|PubMed:10225998, ECO:0000269|PubMed:10535738, ECO:0000269|PubMed:11714690, ECO:0000269|PubMed:15598802, ECO:0000269|Ref.10}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00220DAPTransfer from AT1G69180Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapMedtr5g046230.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by SPT and by A class genes AP2 and LUG in the outer whorl. In the third whorl, B class genes AP3 and PI, and the C class gene AG act redundantly with each other and in combination with SEP1, SEP2, SEP3, SHP1 and SHP2 to activate CRC in nectaries and carpels. LFY enhances its expression. {ECO:0000269|PubMed:10225998, ECO:0000269|PubMed:15598802}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKF8060360.0KF806036.1 UNVERIFIED: Pisum sativum crabs claw protein-like mRNA, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024640580.11e-124protein CRABS CLAW
SwissprotQ8L9251e-62CRC_ARATH; Protein CRABS CLAW
TrEMBLG7JWX91e-160G7JWX9_MEDTR; YABBY-like transcription factor CRABS CLAW-like protein
STRINGAES971591e-160(Medicago truncatula)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF102593040
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G69180.14e-56YABBY family protein
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. Fourquin C,Primo A,Martínez-Fernández I,Huet-Trujillo E,Ferrándiz C
    The CRC orthologue from Pisum sativum shows conserved functions in carpel morphogenesis and vascular development.
    Ann. Bot., 2014. 114(7): p. 1535-44
    [PMID:24989787]
  3. Pfannebecker KC,Lange M,Rupp O,Becker A
    Seed Plant-Specific Gene Lineages Involved in Carpel Development.
    Mol. Biol. Evol., 2017. 34(4): p. 925-942
    [PMID:28087776]
  4. Yamaguchi N,Huang J,Xu Y,Tanoi K,Ito T
    Fine-tuning of auxin homeostasis governs the transition from floral stem cell maintenance to gynoecium formation.
    Nat Commun, 2017. 8(1): p. 1125
    [PMID:29066759]
  5. Yamaguchi N, et al.
    Chromatin-mediated feed-forward auxin biosynthesis in floral meristem determinacy.
    Nat Commun, 2018. 9(1): p. 5290
    [PMID:30538233]