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 RrC3551_p1
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family ZF-HD
Protein Properties Length: 278aa    MW: 30795.6 Da    PI: 7.7266
Description ZF-HD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC3551_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1ZF-HD_dimer1018.1e-3258112358
  ZF-HD_dimer   3 kvrYkeClkNhAaslGghavDGCgEfmpsegeegtaaalkCaACgCHRnFHRreve 58 
                  ++r++eClkN+A+++GghavDGCgEfmp+ g egt++alkCaACgCHRnFHR+e +
   RrC3551_p1  58 RFRFRECLKNQAVNIGGHAVDGCGEFMPA-GIEGTIDALKCAACGCHRNFHRKELS 112
                  789*************************9.999********************976 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF047703.8E-2859110IPR006456ZF-HD homeobox protein, Cys/His-rich dimerisation domain
TIGRFAMsTIGR015666.1E-2960110IPR006456ZF-HD homeobox protein, Cys/His-rich dimerisation domain
PROSITE profilePS5152325.41561110IPR006456ZF-HD homeobox protein, Cys/His-rich dimerisation domain
ProDomPD1257744.0E-2463111IPR006456ZF-HD homeobox protein, Cys/His-rich dimerisation domain
Gene3DG3DSA:1.10.10.609.5E-31170244IPR009057Homeodomain-like
SuperFamilySSF466892.92E-19171244IPR009057Homeodomain-like
TIGRFAMsTIGR015651.4E-24183239IPR006455Homeodomain, ZF-HD class
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010371Biological Processregulation of gibberellin biosynthetic process
GO:0010431Biological Processseed maturation
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 278 aa     Download sequence    Send to blast
MDFEEEINLH KKEEEEALYD SPPLPPPSRV LKASTESPDT AGGYMVVHGG SSLGGGSRFR  60
FRECLKNQAV NIGGHAVDGC GEFMPAGIEG TIDALKCAAC GCHRNFHRKE LSYFHHHHAP  120
PHQPPPPPGF YRLPAPVSYR PPPSQAPPLQ LALPPPPQRE RSEDRMETSS AEAGGGGGGS  180
GIRKRFRTKF TPEQKERMLA LAESIGWRIQ RQDDEVIQRF CQETGVPRQV LKVWLHNNKH  240
TLGKSSSSPP LHHHQNPTLH PPPPPPQPTS FHHEQDQP
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wh5_A3e-341822411675ZF-HD homeobox family protein
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtPutative transcription factor.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00588DAPTransfer from AT5G65410Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3534950.0AK353495.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-46-M17.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018437622.11e-161PREDICTED: zinc-finger homeodomain protein 1-like
SwissprotQ9FKP81e-120ZHD1_ARATH; Zinc-finger homeodomain protein 1
TrEMBLA0A398AN321e-146A0A398AN32_BRACM; Uncharacterized protein
STRINGBra031859.1-P1e-142(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM132371728
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G65410.13e-98homeobox protein 25
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Bueso E,Serrano R,Pallás V,Sánchez-Navarro JA
    Seed tolerance to deterioration in arabidopsis is affected by virus infection.
    Plant Physiol. Biochem., 2017. 116: p. 1-8
    [PMID:28477474]