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 | XP_013622796.1 | ||||||||
Organism | |||||||||
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
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Family | C2H2 | ||||||||
Protein Properties | Length: 431aa MW: 48060.9 Da PI: 9.6328 | ||||||||
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 | 19.9 | 2e-06 | 68 | 90 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C++C+k F+r nL+ H r H XP_013622796.1 68 FICEICNKGFKRDQNLQLHRRGH 90 89*******************88 PP | |||||||
2 | zf-C2H2 | 10.8 | 0.0016 | 175 | 193 | 5 | 23 |
TTTEEESSHHHHHHHHHHT CS zf-C2H2 5 dCgksFsrksnLkrHirtH 23 dCg+ Fsrk+++ +H + XP_013622796.1 175 DCGTIFSRKDSFITHRAFC 193 9**************8765 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF57667 | 8.74E-8 | 67 | 90 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 4.9E-6 | 67 | 90 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE profile | PS50157 | 10.866 | 68 | 90 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 0.011 | 68 | 90 | IPR015880 | Zinc finger, C2H2-like |
Pfam | PF12171 | 1.6E-5 | 68 | 90 | IPR022755 | Zinc finger, double-stranded RNA binding |
PROSITE pattern | PS00028 | 0 | 70 | 90 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 97 | 110 | 140 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 3.7E-4 | 133 | 166 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 8.74E-8 | 140 | 165 | No hit | No description |
SMART | SM00355 | 190 | 145 | 165 | IPR015880 | Zinc finger, C2H2-like |
Gene Ontology ? help Back to Top | ||||||
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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 |
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Protein Sequence Length: 431 aa Download sequence Send to blast |
MIIPDDPHLL SFPSYVLHQE HITPNPNPNP NPTASKSNKR KRNLPGNPDP DAEVIALSPN 60 SLMTTNRFIC EICNKGFKRD QNLQLHRRGH NLPWKLKQRT DKEQVKKKVY ICPEKTCVHH 120 DPGRALGDLT GIKKHFSRKH GEKKWKCDKC SKKYAVVSDW KAHSKICGTR EYRCDCGTIF 180 SRKDSFITHR AFCDALAEES ARFASVPPAA AAYLNNSSDA EVNLGNIKPN HQQRLLDCTS 240 SQLDRHGFNV NRNNINGFTG QSSTNQLPLA ANVFASSSSP SPHSASALLQ NLWQLQGQSY 300 QQLLLNKNNN NIIQNGMPNN QEDHDTIKRE LVINGSLFSS EARTSYNQNG GQEIASMSAT 360 ALLQMAAQMG SKRSSSSSNN GMAFGLMTSS IFNNKEMENK IKTKEVDERG FTRDFLGEGS 420 QNRPANIDGQ P |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 4e-35 | 141 | 206 | 3 | 68 | Zinc finger protein JACKDAW |
5b3h_F | 4e-35 | 141 | 206 | 3 | 68 | Zinc finger protein JACKDAW |
Search in ModeBase |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in roots, especially in vascular initials, cortex, endodermis, and quiescent center (QC). {ECO:0000269|PubMed:25829440}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcription factor that, together with JKD, regulates tissue boundaries and asymmetric cell division in roots by a rapid up-regulation of 'SCARECROW' (SCR), thus controlling the nuclear localization of 'SHORT-ROOT' (SHR) and restricting its action (PubMed:25829440). Confines CYCD6 expression to the cortex-endodermis initial/daughter (CEI/CEID) tissues (PubMed:25829440). 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). {ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | XP_013622796.1 |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_013622796.1 | 0.0 | PREDICTED: protein indeterminate-domain 9 isoform X1 | ||||
Swissprot | Q944L3 | 0.0 | IDD9_ARATH; Zinc finger protein BALDIBIS | ||||
TrEMBL | A0A0D3BHB4 | 0.0 | A0A0D3BHB4_BRAOL; Uncharacterized protein | ||||
STRING | Bo3g129830.1 | 0.0 | (Brassica oleracea) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM155 | 28 | 306 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT3G45260.1 | 1e-172 | C2H2-like zinc finger protein |
Publications ? help Back to Top | |||
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