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 orange1.1g010863m
Organism
Citrus sinensis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus
Family C2H2
Protein Properties Length: 499aa    MW: 54420.5 Da    PI: 9.4686
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
orange1.1g010863mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.21.4e-05628123
                       EEETTTTEEESSHHHHHHHHHHT CS
            zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                       ++C++C+k F r  nL+ H r H
  orange1.1g010863m  6 FVCEICNKGFQRDQNLQLHRRGH 28
                       89*******************88 PP
2zf-C2H212.80.0003782104123
                        EEETTTTEEESSHHHHHHHHHHT CS
            zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                        +kC +C+k++  +s+ k H +t+
  orange1.1g010863m  82 WKCDKCSKRYAVQSDWKAHSKTC 104
                        58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576674.28E-7528No hitNo description
Gene3DG3DSA:3.30.160.601.6E-5528IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.017628IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.949628IPR007087Zinc finger, C2H2
PfamPF121717.9E-5628IPR022755Zinc finger, double-stranded RNA binding
PROSITE patternPS000280828IPR007087Zinc finger, C2H2
SMARTSM003551404777IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.4E-470103IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.28E-777102No hitNo description
SMARTSM0035514082102IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 499 aa     Download sequence    Send to blast
MATNRFVCEI CNKGFQRDQN LQLHRRGHNL PWKLKQRTSK EIRKKVYVCP EPNCVHHDPS  60
RALGDLTGIK KHFCRKHGEK KWKCDKCSKR YAVQSDWKAH SKTCGTREYR CDCGTLFSRR  120
DSFITHRAFC DALAEESTRA ITGTNPILSS SSHHQPGIVA GASSHVNLQI PQFNPQDFSA  180
FSLKKEQQSY SLRQEMPPWL GSQQPSILGS AVPGLGQPPS SSHTVDHLSS PSSSIFNTRL  240
HQDHQFTQTT HQDLTRNDHP ANPNPSLGPT LSVPHTNYHQ AMASAFPHMS ATALLQKAAQ  300
MGATMSSSKA STATGNSSSS SSPAHHAALT RPHQQPPPPQ QAHVSATPEH PAGNNKTKTT  360
TGFGLNLSSR EGVVHGLTPF GTKTSGGGSS GPFIQEMLMN TSFSSGYAAA SPFDDALTFG  420
GVFNSKKEPH LNHSFNESSS LSRTSGINDH GEEMTRDFLG LRALSQTDIL NIAGLGNCID  480
TRSSHEQQLN HSQKPWQG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-3478145370Zinc finger protein JACKDAW
5b3h_F1e-3478145370Zinc finger protein JACKDAW
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
13244KLKQRTSKEIRKK
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Strongly up-regulated during seed development. {ECO:0000269|PubMed:21571950}.
UniprotTISSUE SPECIFICITY: At 3 days post anthesis (DPA), expressed in the chalazal endosperm region. By 6 DPA, expressed in the endosperm and embryo. In fully germinated seed, strongest expression in the root tip and not detected in the cotyledons. In 4-days old seedlings, restricted to the vasculature of the cotyledons, the shoot apical meristem region, and the root tip. By 8 days, restricted to newly emerged leaves. {ECO:0000269|PubMed:21571950}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor promoting the transition to germination by regulating light and hormonal signaling during seed maturation (PubMed:21571950). Acts as a positive regulator of phytochrome and/or gibberellin action (PubMed:21571950, PubMed:25035403). {ECO:0000269|PubMed:21571950, ECO:0000269|PubMed:25035403}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00206DAPTransfer from AT1G55110Download
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
GenBankAM4651831e-117AM465183.2 Vitis vinifera contig VV78X062580.11, whole genome shotgun sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024036713.10.0protein indeterminate-domain 7
RefseqXP_024036715.10.0protein indeterminate-domain 7
RefseqXP_024036716.10.0protein indeterminate-domain 7
RefseqXP_024036717.10.0protein indeterminate-domain 7
SwissprotQ9LVQ72e-97IDD1_ARATH; Zinc finger protein ENHYDROUS
TrEMBLV4UKA40.0V4UKA4_9ROSI; Uncharacterized protein
STRINGXP_006426554.10.0(Citrus clementina)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G50700.16e-96indeterminate(ID)-domain 2
Publications ? help Back to Top
  1. Fukazawa J, et al.
    DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis.
    Plant Cell, 2014. 26(7): p. 2920-38
    [PMID:25035403]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]