PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
|
Home TFext BLAST Prediction Download Help About Links PlantRegMap |
Transcription Factor Information
Basic Information? help Back to Top | |||||||||
---|---|---|---|---|---|---|---|---|---|
TF ID | Sopen07g027520.1 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
|
||||||||
Family | C2H2 | ||||||||
Protein Properties | Length: 509aa MW: 56029.6 Da PI: 8.9851 | ||||||||
Description | C2H2 family protein | ||||||||
Gene Model |
|
Signature Domain? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | zf-C2H2 | 15.6 | 4.6e-05 | 56 | 76 | 3 | 23 |
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C++Cgk F r nL+ H r H Sopen07g027520.1 56 CEICGKGFQRDQNLQLHRRGH 76 *******************88 PP | |||||||
2 | zf-C2H2 | 12.7 | 0.00038 | 130 | 152 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H +t+ Sopen07g027520.1 130 WKCDKCSKRYAVQSDWKAHSKTC 152 58*****************9998 PP |
Protein Features ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF57667 | 1.43E-6 | 53 | 76 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 4.5E-5 | 53 | 76 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.076 | 54 | 76 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 11.489 | 54 | 76 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 56 | 76 | IPR007087 | Zinc finger, C2H2 |
Gene3D | G3DSA:3.30.160.60 | 8.4E-5 | 118 | 151 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 1.43E-6 | 125 | 150 | No hit | No description |
SMART | SM00355 | 140 | 130 | 150 | IPR015880 | Zinc finger, C2H2-like |
Gene Ontology ? help Back to Top | ||||||
---|---|---|---|---|---|---|
GO Term | GO Category | GO Description | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0044212 | Molecular Function | transcription regulatory region DNA binding | ||||
GO:0046872 | Molecular Function | metal ion binding |
Sequence ? help Back to Top |
---|
Protein Sequence Length: 509 aa Download sequence Send to blast |
MTEEVISNGF THDNSIEGSN PPPLKKKRNL PGNPDPEAEV IALSPKTLMA TNRFLCEICG 60 KGFQRDQNLQ LHRRGHNLPW KLKQRTSKEV RKRVYVCPEK VCVHHHPSRA LGDLTGIKKH 120 YCRKHGEKKW KCDKCSKRYA VQSDWKAHSK TCGTREYRCD CGTIFSRRDS FVTHRAFCDA 180 LAEETARVTA ASNMHNPLAM ANNINYHFIG APLGPNMAQH FSSLFKPVSN NNNNNNNNEN 240 SDPMRRDQLS LWNNIGVAQE QDQIGININN LREIHQINPL LHHTSAPAPA PTPTPVYDAN 300 TLLASSRSNA PPVSYNNNNH INWDQFIGSK ISPINNAEQL SNTSSANISV PSLFSCQQQI 360 ALSSPSANMS ATALLQKAAQ IGATTTTTTT ATTDPSIFLG NFSMNNCNTN NNKNNDNNKF 420 CGFYVSTPTT NNSISNSLGS DVDQSSSVND FSATIHPIQM YPPSKRRHIQ IEDSVKGVGV 480 GGGAGGQTRD FLGVGVQSIC HPSSINGWI |
3D Structure ? help Back to Top | ||||||
---|---|---|---|---|---|---|
PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 1e-35 | 126 | 193 | 3 | 70 | Zinc finger protein JACKDAW |
5b3h_F | 1e-35 | 126 | 193 | 3 | 70 | Zinc finger protein JACKDAW |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
UniProt | Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:21935722, ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440}. |
Binding Motif ? help Back to Top | |||
---|---|---|---|
Motif ID | Method | Source | Motif file |
MP00125 | DAP | Transfer from AT1G03840 | Download |
Regulation -- Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
UniProt | INDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269|PubMed:21935722}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | Retrieve |
Annotation -- Nucleotide ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | |||
GenBank | HG975446 | 0.0 | HG975446.1 Solanum pennellii chromosome ch07, complete genome. |
Annotation -- Protein ? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | ||||
Refseq | XP_015080934.1 | 0.0 | zinc finger protein NUTCRACKER | ||||
Swissprot | Q9ZWA6 | 1e-154 | IDD3_ARATH; Zinc finger protein MAGPIE | ||||
TrEMBL | M1AJS6 | 0.0 | M1AJS6_SOLTU; Uncharacterized protein | ||||
STRING | Solyc07g053570.2.1 | 0.0 | (Solanum lycopersicum) |
Orthologous Group ? help Back to Top | |||
---|---|---|---|
Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Asterids | OGEA103 | 24 | 350 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Hit ID | E-value | Description | ||||
AT5G44160.1 | 1e-129 | C2H2-like zinc finger protein |
Publications ? help Back to Top | |||
---|---|---|---|
|