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 | Sobic.006G180900.2.p | ||||||||
Common Name | Sb06g025550, SORBIDRAFT_06g025550 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
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Family | C2H2 | ||||||||
Protein Properties | Length: 600aa MW: 61772.9 Da PI: 8.6779 | ||||||||
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 | 17.2 | 1.5e-05 | 88 | 110 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k F r nL+ H r H Sobic.006G180900.2.p 88 FVCEVCNKGFQREQNLQLHRRGH 110 89*******************88 PP | |||||||
2 | zf-C2H2 | 11.6 | 0.00088 | 165 | 187 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H + + Sobic.006G180900.2.p 165 WKCDKCSKRYAVQSDWKAHSKIC 187 58*****************9876 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF57667 | 2.21E-7 | 87 | 110 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 8.3E-6 | 87 | 110 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.0041 | 88 | 110 | IPR015880 | Zinc finger, C2H2-like |
Pfam | PF12171 | 3.9E-5 | 88 | 110 | IPR022755 | Zinc finger, double-stranded RNA binding |
PROSITE profile | PS50157 | 11.094 | 88 | 110 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 90 | 110 | IPR007087 | Zinc finger, C2H2 |
Gene3D | G3DSA:3.30.160.60 | 4.1E-4 | 153 | 186 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 2.21E-7 | 160 | 185 | No hit | No description |
SMART | SM00355 | 140 | 165 | 185 | 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: 600 aa Download sequence Send to blast |
MASNSSAAAF FGVRDGDQQD QIKPLISPQQ QLAAALPGVA GAVPAASGQG APTAAAPQPP 60 PKKKRTMPDP DAEVIALSPK TLLATNRFVC EVCNKGFQRE QNLQLHRRGH NLPWKLKQKN 120 PLQAQRRRVY LCPEPTCVHH DPARALGDLT GIKKHFCRKH GEKKWKCDKC SKRYAVQSDW 180 KAHSKICGTR EYRCDCGTLF SRRDSFITHR AFCDALAQES ARLPPTSLSS LTSHLYGATN 240 AGNMALSLSQ VGSHLTSTLQ DGHHHHPSPE LLRLGAAAGG GGSSIAARLD HLLSPNGASA 300 FRSPQAPPSS ASFFLNAGAS VGQDFGDDAG NGPHSYLQAN KPFHGLMQLP DLQGNGAGGP 360 GASGPSLFNL GFFANNGNSS GSSHEHASQG LMNNDQFSGG AGGGGGGGGS EVSAAGIFGG 420 NFVGGGDQVP PPGLYSDQAS MLPQMSATAL LQKAAQMGAT SSTNGGAASM FRGFVGSSSP 480 HVRPATPHME QSDANLNDLM NSLAGGGVGG GGMFGGGNGA VSAGMFDPRQ LCNMAEHEVK 540 FGQGGGDMTR DFLGVGGGGI VRGISTPRGG GGDHQSSSDM SSLEAEMKSA SSFNGGRMP* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 9e-35 | 161 | 230 | 3 | 70 | Zinc finger protein JACKDAW |
5b3h_F | 9e-35 | 161 | 230 | 3 | 70 | Zinc finger protein JACKDAW |
Search in ModeBase |
Nucleic Localization Signal ? help Back to Top | |||
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No. | Start | End | Sequence |
1 | 397 | 409 | SGGAGGGGGGGGS |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Sbi.17158 | 0.0 | root |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | TISSUE SPECIFICITY: Highly expressed in leaf tissues. {ECO:0000305|PubMed:22898356}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). 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:22898356, ECO:0000269|PubMed:24821766}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Sobic.006G180900.2.p |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | AY754866 | 0.0 | AY754866.1 Zea mays INDETERMINATE-related protein 9 mRNA, complete cds. | |||
GenBank | BT064120 | 0.0 | BT064120.1 Zea mays full-length cDNA clone ZM_BFc0139A11 mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_002446943.1 | 0.0 | protein indeterminate-domain 5, chloroplastic | ||||
Refseq | XP_021318855.1 | 0.0 | protein indeterminate-domain 5, chloroplastic | ||||
Swissprot | Q9ZUL3 | 1e-114 | IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic | ||||
TrEMBL | C5YE14 | 0.0 | C5YE14_SORBI; Uncharacterized protein | ||||
STRING | Sb06g025550.1 | 0.0 | (Sorghum bicolor) |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT3G50700.1 | 1e-102 | indeterminate(ID)-domain 2 |
Link Out ? help Back to Top | |
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Phytozome | Sobic.006G180900.2.p |
Entrez Gene | 8057591 |
Publications ? help Back to Top | |||
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