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 Gorai.009G128000.2
Common NameB456_009G128000, LOC105767848
Organism
Gossypium raimondii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family C2H2
Protein Properties Length: 361aa    MW: 41215.8 Da    PI: 8.4316
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.009G128000.2genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.84.6e-066283223
                        EETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2  2 kCpdCgksFsrksnLkrHirtH 23
                        +C+ Cg +F+ + +Lk+H+++H
  Gorai.009G128000.2 62 ECQECGATFRKPAHLKQHLQSH 83
                        5*******************99 PP
2zf-C2H216.13.3e-0589113123
                         EEET..TTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                         ++C   dC+ s++rk++L+rH+  H
  Gorai.009G128000.2  89 FVCLvdDCHASYRRKDHLNRHLLQH 113
                         899999***************9887 PP
3zf-C2H212.20.00054118143123
                         EEET..TTTEEESSHHHHHHHHHH.T CS
             zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                         ++Cp   C+  F  + n+krH +  H
  Gorai.009G128000.2 118 FSCPieTCNSKFAFQGNMKRHVKEfH 143
                         89********************9988 PP
4zf-C2H218.74.9e-06158182123
                         EEET..TTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                         y C+   Cgk+F+ +s L++H  +H
  Gorai.009G128000.2 158 YICQevGCGKVFKFSSKLRKHEDSH 182
                         89*******************9888 PP
5zf-C2H215.74.3e-05249273223
                         EET..TTTEEESSHHHHHHHHHH.T CS
             zf-C2H2   2 kCp..dCgksFsrksnLkrHirt.H 23 
                         kC    C  +Fs+ksnL++H +  H
  Gorai.009G128000.2 249 KCDfgGCLHTFSTKSNLRQHVKAvH 273
                         688889**************99877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS501579.2242047IPR007087Zinc finger, C2H2
SMARTSM00355282042IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015713.7136188IPR007087Zinc finger, C2H2
SMARTSM003550.0126183IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.604.3E-86287IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS0002806383IPR007087Zinc finger, C2H2
SuperFamilySSF576676.94E-1073115No hitNo description
Gene3DG3DSA:3.30.160.603.1E-988115IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501579.01689118IPR007087Zinc finger, C2H2
SMARTSM003550.02589113IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028091113IPR007087Zinc finger, C2H2
SuperFamilySSF576675.52E-5116144No hitNo description
Gene3DG3DSA:3.30.160.604.8E-5116144IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.16118143IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.598118148IPR007087Zinc finger, C2H2
PROSITE patternPS000280120143IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.1E-7153182IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.8E-5154182No hitNo description
PROSITE profilePS5015710.928158187IPR007087Zinc finger, C2H2
SMARTSM003550.018158182IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280160182IPR007087Zinc finger, C2H2
SMARTSM003559.9190215IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280192215IPR007087Zinc finger, C2H2
SMARTSM0035518218239IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.609.2E-6229270IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576678.04E-7230286No hitNo description
PROSITE profilePS5015711.614248278IPR007087Zinc finger, C2H2
SMARTSM003550.0017248273IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280250273IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.605.1E-5272301IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003553.8279305IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280281305IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005730Cellular Componentnucleolus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0008097Molecular Function5S rRNA binding
GO:0046872Molecular Functionmetal ion binding
GO:0080084Molecular Function5S rDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 361 aa     Download sequence    Send to blast
MDEEKGERVS GPIFKDIRRY FCDHCGICRS KKSLITTHIL THHPEKIDNG GKEEEEVSTS  60
NECQECGATF RKPAHLKQHL QSHSLERPFV CLVDDCHASY RRKDHLNRHL LQHQGKLFSC  120
PIETCNSKFA FQGNMKRHVK EFHDEDSSST DAASQKQYIC QEVGCGKVFK FSSKLRKHED  180
SHVKLDSVEA FCSEPSCLKY FSNEQCLKAH VQSCHQYINC QICGAKQLKK NIKRHLRSHE  240
SGVASERIKC DFGGCLHTFS TKSNLRQHVK AVHEELKPFA CSFSGCGMRF SYKHVRDNHE  300
KSALHVYVPG DFIESDEQFQ SRPRGGRKRT CPTVEMLIRK RVAPPQMDTM MDPGPIQGCS  360
*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tf6_A1e-156521019155PROTEIN (TRANSCRIPTION FACTOR IIIA)
1tf6_D1e-156521019155PROTEIN (TRANSCRIPTION FACTOR IIIA)
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00229DAPTransfer from AT1G72050Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012442876.10.0PREDICTED: putative zinc finger protein 66 isoform X1
RefseqXP_012442877.10.0PREDICTED: zinc finger protein ZXDC-like isoform X2
SwissprotQ84MZ41e-151TF3A_ARATH; Transcription factor IIIA
TrEMBLA0A0D2QEX00.0A0A0D2QEX0_GOSRA; Uncharacterized protein
TrEMBLA0A0D2UL500.0A0A0D2UL50_GOSRA; Uncharacterized protein
STRINGGorai.009G128000.10.0(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.21e-154transcription factor IIIA
Publications ? help Back to Top
  1. Paterson AH, et al.
    Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.
    Nature, 2012. 492(7429): p. 423-7
    [PMID:23257886]