PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | GSVIVT01025855001 | ||||||||
Common Name | VIT_08s0040g00240 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; rosids incertae sedis; Vitales; Vitaceae; Vitis
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Family | C2H2 | ||||||||
Protein Properties | Length: 391aa MW: 45212.7 Da PI: 8.7445 | ||||||||
Description | C2H2 family protein | ||||||||
Gene Model |
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Signature Domain? help Back to Top | |||||||
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No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | zf-C2H2 | 20.8 | 9.9e-07 | 64 | 84 | 3 | 23 |
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C+ Cg sF+ + +Lk+H+++H GSVIVT01025855001 64 CEECGASFKKPAYLKQHMQSH 84 *******************99 PP | |||||||
2 | zf-C2H2 | 19 | 3.9e-06 | 110 | 134 | 1 | 23 |
EEET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirtH 23 ++Cp dC s++rk++L+rH+ H GSVIVT01025855001 110 FTCPvdDCQSSYRRKDHLTRHLLQH 134 89*******************9887 PP | |||||||
3 | zf-C2H2 | 17.6 | 1e-05 | 139 | 164 | 1 | 23 |
EEET..TTTEEESSHHHHHHHHHH.T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt.H 23 ++Cp +C+++F + n+krHi+ H GSVIVT01025855001 139 FTCPveNCKRRFAFQGNMKRHIKEfH 164 89*********************988 PP | |||||||
4 | zf-C2H2 | 20.8 | 1e-06 | 178 | 202 | 1 | 23 |
EEET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirtH 23 y+Cp Cgk+F+ s L++H +H GSVIVT01025855001 178 YVCPelGCGKVFKFASKLQKHEDSH 202 9********************9888 PP | |||||||
5 | zf-C2H2 | 13.3 | 0.00024 | 269 | 293 | 2 | 23 |
EET..TTTEEESSHHHHHHHHHH.T CS zf-C2H2 2 kCp..dCgksFsrksnLkrHirt.H 23 kC+ C +Fs+ksnL +H + H GSVIVT01025855001 269 KCHfkGCLHTFSTKSNLDQHVKAvH 293 79999***************99877 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF57667 | 1.15E-8 | 16 | 84 | No hit | No description |
PROSITE profile | PS50157 | 8.538 | 18 | 45 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 14 | 18 | 40 | IPR015880 | Zinc finger, C2H2-like |
SMART | SM00355 | 0.0081 | 62 | 84 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 11.157 | 62 | 89 | IPR007087 | Zinc finger, C2H2 |
Gene3D | G3DSA:3.30.160.60 | 4.3E-6 | 63 | 110 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE pattern | PS00028 | 0 | 64 | 84 | IPR007087 | Zinc finger, C2H2 |
SuperFamily | SSF57667 | 1.16E-6 | 103 | 136 | No hit | No description |
SMART | SM00355 | 0.0027 | 110 | 134 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 9.66 | 110 | 139 | IPR007087 | Zinc finger, C2H2 |
Gene3D | G3DSA:3.30.160.60 | 2.7E-9 | 111 | 136 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE pattern | PS00028 | 0 | 112 | 134 | IPR007087 | Zinc finger, C2H2 |
SuperFamily | SSF57667 | 2.35E-6 | 137 | 165 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 3.0E-6 | 137 | 161 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.018 | 139 | 164 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 11.801 | 139 | 169 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 141 | 164 | IPR007087 | Zinc finger, C2H2 |
SuperFamily | SSF57667 | 4.23E-5 | 174 | 203 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 8.4E-8 | 174 | 202 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.0023 | 178 | 202 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 10.928 | 178 | 207 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 180 | 202 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 13 | 210 | 235 | IPR015880 | Zinc finger, C2H2-like |
PROSITE pattern | PS00028 | 0 | 212 | 235 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 14 | 238 | 259 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 9.7E-5 | 249 | 290 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 9.37E-7 | 251 | 306 | No hit | No description |
PROSITE profile | PS50157 | 10.803 | 268 | 298 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 0.026 | 268 | 293 | IPR015880 | Zinc finger, C2H2-like |
PROSITE pattern | PS00028 | 0 | 270 | 293 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 9.8 | 299 | 325 | IPR015880 | Zinc finger, C2H2-like |
PROSITE pattern | PS00028 | 0 | 301 | 325 | IPR007087 | Zinc finger, C2H2 |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0005730 | Cellular Component | nucleolus | ||||
GO:0003700 | Molecular Function | transcription factor activity, sequence-specific DNA binding | ||||
GO:0008097 | Molecular Function | 5S rRNA binding | ||||
GO:0046872 | Molecular Function | metal ion binding | ||||
GO:0080084 | Molecular Function | 5S rDNA binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 391 aa Download sequence Send to blast |
MGERGERKEP IFRDVRRYFC DYCGLCRSKK ALIRAHMLSH HKEEMEGQKV HNNEEKEGEK 60 SNACEECGAS FKKPAYLKQH MQSHSLEALN FFGSSIKRPQ SRTTCFERPF TCPVDDCQSS 120 YRRKDHLTRH LLQHQGKLFT CPVENCKRRF AFQGNMKRHI KEFHDEESPP NDVGSKQYVC 180 PELGCGKVFK FASKLQKHED SHAKLDSVEA VCLEPECLKH FTNEQCLKAH LQSCHQHIIC 240 EICGTKQLKK NIKRHLRTHE SVCSSERVKC HFKGCLHTFS TKSNLDQHVK AVHLKLRPFV 300 CGIPGCGMRF PFKHVRDNHE KTGCHVYTHG DFEELDEQFR LRPKGGRKRK SPPIEALLRK 360 RVTPPSQSDS ILCQGPEYLS WLLSDAEDQQ * |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
2i13_A | 4e-13 | 58 | 322 | 1 | 184 | Aart |
2i13_B | 4e-13 | 58 | 322 | 1 | 184 | Aart |
Search in ModeBase |
Nucleic Localization Signal ? help Back to Top | |||
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No. | Start | End | Sequence |
1 | 341 | 349 | RPKGGRKRK |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | DEVELOPMENTAL 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}. | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in seedlings, flowers, siliques and seeds. {ECO:0000269|PubMed:22353599}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Essential 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 | |||
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Motif ID | Method | Source | Motif file |
MP00229 | DAP | Transfer from AT1G72050 | Download |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | Retrieve |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | FQ380819 | 0.0 | FQ380819.1 Vitis vinifera clone SS0ACG27YJ08. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_002278827.1 | 0.0 | PREDICTED: transcription factor IIIA | ||||
Swissprot | Q84MZ4 | 1e-136 | TF3A_ARATH; Transcription factor IIIA | ||||
TrEMBL | D7TQ66 | 0.0 | D7TQ66_VITVI; Uncharacterized protein | ||||
STRING | VIT_08s0040g00240.t01 | 0.0 | (Vitis vinifera) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Representative plant | OGRP2981 | 16 | 27 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G72050.2 | 1e-138 | transcription factor IIIA |
Link Out ? help Back to Top | |
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Phytozome | GSVIVT01025855001 |