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 XP_013616325.1
Organism
Brassica oleracea
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family C2H2
Protein Properties Length: 394aa    MW: 44855.4 Da    PI: 8.2538
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013616325.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H212.10.000613557123
                    EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                    y C++Cg s s k++ ++Hi++H
  XP_013616325.1 35 YLCQYCGISRSKKYLITSHINSH 57
                    56********************6 PP
2zf-C2H218.27.1e-0682104123
                     EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                     ++C+ Cg  F+ + +Lk+H+++H
  XP_013616325.1  82 HTCQACGAEFKKPAHLKQHMQSH 104
                     79*******************99 PP
3zf-C2H216.62.2e-05110134123
                     EEET..TTTEEESSHHHHHHHHHHT CS
         zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                     + C   dC+ s++rk++L+rH+ tH
  XP_013616325.1 110 FACYvdDCTSSYRRKDHLNRHLLTH 134
                     678888*****************99 PP
4zf-C2H222.13.9e-07197220223
                     EET..TTTEEESSHHHHHHHHHHT CS
         zf-C2H2   2 kCp..dCgksFsrksnLkrHirtH 23 
                     +C+   Cgk F+ +s+L++H+ +H
  XP_013616325.1 197 VCKekGCGKAFKYPSQLQKHQDSH 220
                     79999****************998 PP
5zf-C2H218.94.1e-06287312123
                     EEET..TTTEEESSHHHHHHHHHH.T CS
         zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                     +kC+   C+ +Fs  snL++H++  H
  XP_013616325.1 287 FKCEveGCSSTFSKASNLQKHLKAvH 312
                     89********************9877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM00355253557IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.0E-481101IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.004582104IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015713.52682109IPR007087Zinc finger, C2H2
PROSITE patternPS00028084104IPR007087Zinc finger, C2H2
SuperFamilySSF576671.64E-1095136No hitNo description
Gene3DG3DSA:3.30.160.609.9E-13102136IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.33110134IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.681110139IPR007087Zinc finger, C2H2
PROSITE patternPS000280112134IPR007087Zinc finger, C2H2
SMARTSM003551.4139164IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.162139169IPR007087Zinc finger, C2H2
PROSITE patternPS000280141164IPR007087Zinc finger, C2H2
SuperFamilySSF576677.62E-6191222No hitNo description
Gene3DG3DSA:3.30.160.604.3E-7191220IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0018196220IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.72196225IPR007087Zinc finger, C2H2
PROSITE patternPS000280198220IPR007087Zinc finger, C2H2
SMARTSM003553.6228253IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280230253IPR007087Zinc finger, C2H2
SMARTSM0035522256277IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.7E-7267309IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.54E-9268325No hitNo description
SMARTSM003554.2E-4287312IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.965287317IPR007087Zinc finger, C2H2
PROSITE patternPS000280289312IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.607.1E-5311341IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003555.5318344IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280320344IPR007087Zinc finger, C2H2
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: 394 aa     Download sequence    Send to blast
MQTNPDSRVE NQSEMPEEAA NVDAKPSKPK DIRHYLCQYC GISRSKKYLI TSHINSHHKV  60
EVEMERDEEA WEADEEDVSG KHTCQACGAE FKKPAHLKQH MQSHSLERPF ACYVDDCTSS  120
YRRKDHLNRH LLTHKGKLFK CPVGNCKSEF SVHGNIGRHV KKFHRKDDTA NGDSNKEITG  180
NGDPHPSECS TGQKKLVCKE KGCGKAFKYP SQLQKHQDSH VKLDSVEAFC SEPGCMKYLT  240
NEECLKAHIR SSHQHINCEI CGSKHLKKNI KRHLRTHEED SSSPGEFKCE VEGCSSTFSK  300
ASNLQKHLKA VHEDIRPFVC GFSGCAKRFA YKHVRNNHEK SGSHIYTCGD FVEADEDFTS  360
RPRGGVKRKH VTAEVLIRKR VMPPQFDSQE HETC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5v3m_C1e-173534734309Zinc finger protein 568
5wjq_D9e-18353479284Zinc finger protein 568
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Both isoforms 1 and 2 transcripts are expressed in seedlings and both TFIIIA and TFIIIA-C are present at similar ratios in 10-day-old seedlings (at protein level). In correlation with the reorganization of 5S rDNA chromatin to a mature state, full-length isoform 1 protein TFIIIA with transcriptional activity accumulates and permits de novo transcription of 5S rRNA. Isoforms 1 and 2 transcripts accumulate in various tissues of the reproductive phase, including flowers and siliques, but only isoform 2 is present in mature seeds. In flowers, both TFIIIA and TFIIIA-C are present at similar ratios (at protein level). Very low amounts of TFIIIA are found in extracts from fresh siliques compared to TFIIIA-C. The amount of full-length TFIIIA protein progressively increases from fresh siliques to seeds concomitant with lower proportions of the shorter TFIIIA-C protein (at protein level) thus leading to 5S rRNA accumulation in the seed. {ECO:0000269|PubMed:22353599}.
UniprotTISSUE SPECIFICITY: Expressed in seedlings, flowers, siliques and seeds. {ECO:0000269|PubMed:22353599}.
Functional Description ? help Back to Top
Source Description
UniProtEssential protein (PubMed:22353599). Isoform 1 is a transcription activator the binds both 5S rDNA and 5S rRNA and stimulates the transcription of 5S rRNA gene (PubMed:12711688, PubMed:22353599). Isoform 1 regulates 5S rRNA levels during development (PubMed:22353599). {ECO:0000269|PubMed:12711688, ECO:0000269|PubMed:22353599}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_013616325.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013616325.10.0PREDICTED: transcription factor IIIA-like isoform X1
SwissprotQ84MZ40.0TF3A_ARATH; Transcription factor IIIA
TrEMBLA0A0D3APY40.0A0A0D3APY4_BRAOL; Uncharacterized protein
STRINGBo2g075240.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM47142852
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.20.0transcription factor IIIA