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 | Sme2.5_02596.1_g00003.1 | ||||||||
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
|
||||||||
Family | C2H2 | ||||||||
Protein Properties | Length: 442aa MW: 48555.4 Da PI: 9.0793 | ||||||||
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 | 15.8 | 3.9e-05 | 8 | 28 | 3 | 23 |
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C++Cgk F r nL+ H r H Sme2.5_02596.1_g00003.1 8 CEICGKGFQRDQNLQLHRRGH 28 *******************88 PP | |||||||
2 | zf-C2H2 | 13 | 0.00032 | 82 | 104 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H +t+ Sme2.5_02596.1_g00003.1 82 WKCDKCSKRYAVQSDWKAHSKTC 104 58*****************9998 PP | |||||||
3 | zf-C2H2 | 10.7 | 0.0017 | 112 | 130 | 5 | 23 |
TTTEEESSHHHHHHHHHHT CS zf-C2H2 5 dCgksFsrksnLkrHirtH 23 dCg+ Fsr++++++H + Sme2.5_02596.1_g00003.1 112 DCGTIFSRRDSFVTHRAFC 130 8**************8765 PP |
Protein Features ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF57667 | 8.7E-7 | 5 | 28 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 3.8E-5 | 5 | 28 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.076 | 6 | 28 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 11.489 | 6 | 28 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 8 | 28 | IPR007087 | Zinc finger, C2H2 |
Gene3D | G3DSA:3.30.160.60 | 7.0E-5 | 70 | 103 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 8.7E-7 | 77 | 102 | No hit | No description |
SMART | SM00355 | 140 | 82 | 102 | IPR015880 | Zinc finger, C2H2-like |
Gene Ontology ? help Back to Top | ||||||
---|---|---|---|---|---|---|
GO Term | GO Category | GO Description | ||||
GO:0003676 | Molecular Function | nucleic acid binding | ||||
GO:0046872 | Molecular Function | metal ion binding |
Sequence ? help Back to Top |
---|
Protein Sequence Length: 442 aa Download sequence Send to blast |
MATNRFLCEI CGKGFQRDQN LQLHRRGHNL PWKLKQRTSK EVRKRVYVCP EKACVHHHPS 60 RALGDLTGIK KHYCRKHGEK KWKCDKCSKR YAVQSDWKAH SKTCGTREYR CDCGTIFSRR 120 DSFVTHRAFC DALAEETARV TAASNMHNPL AMGNNINYHF IGAPLGPNMA QHFSSLFKPV 180 SNNNENSDPM RRDQISVWNM GVAQEQDQIG ININNLPEIH QIGPLHTSLA PTSATVYDAI 240 ASRSNAPPVS YNNNHVNWDQ LIGSKISSIN NAEQLSNTSS ANITVPSLFS TQHQIAPSST 300 TPNMSATALL QKAAQIGATT TTAVTDPSIF LGNFGMNNCN NNKLQQGDNN KFCGFYVSTP 360 TTNNSISNSL GSDVDQSSSV NEFSATIHPM QMYPPSKRRH IQTEDTAKAG GGHGGGGGGL 420 TRDFLGVGVQ SICHPSSIDG WL |
3D Structure ? help Back to Top | ||||||
---|---|---|---|---|---|---|
PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 5e-36 | 78 | 145 | 3 | 70 | Zinc finger protein JACKDAW |
5b3h_F | 5e-36 | 78 | 145 | 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}. |
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 | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | |||
GenBank | HG975446 | 1e-165 | HG975446.1 Solanum pennellii chromosome ch07, complete genome. |
Annotation -- Protein ? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | ||||
Refseq | XP_006348832.2 | 0.0 | PREDICTED: zinc finger protein NUTCRACKER | ||||
Swissprot | Q9ZWA6 | 1e-133 | IDD3_ARATH; Zinc finger protein MAGPIE | ||||
TrEMBL | M1AJS6 | 0.0 | M1AJS6_SOLTU; Uncharacterized protein | ||||
STRING | PGSC0003DMT400024272 | 0.0 | (Solanum tuberosum) |
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 | ||||
AT1G03840.2 | 1e-129 | C2H2 family protein |
Publications ? help Back to Top | |||
---|---|---|---|
|