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 | mrna09703.1-v1.0-hybrid | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria
|
||||||||
Family | C2H2 | ||||||||
Protein Properties | Length: 465aa MW: 50521.7 Da PI: 9.9018 | ||||||||
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 | 16.3 | 2.8e-05 | 66 | 88 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C++C+k F r nL+ H r H mrna09703.1-v1.0-hybrid 66 FICEICNKGFQRDQNLQLHRRGH 88 89*******************88 PP | |||||||
2 | zf-C2H2 | 12.9 | 0.00034 | 143 | 165 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + +s+ k H +t+ mrna09703.1-v1.0-hybrid 143 WKCEKCSKKYAVQSDWKAHSKTC 165 58*****************9998 PP |
Protein Features ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF57667 | 2.37E-7 | 65 | 88 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 1.2E-5 | 65 | 88 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
Pfam | PF12171 | 5.5E-5 | 66 | 88 | IPR022755 | Zinc finger, double-stranded RNA binding |
SMART | SM00355 | 0.022 | 66 | 88 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 10.845 | 66 | 88 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 68 | 88 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 100 | 108 | 138 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 1.1E-4 | 131 | 164 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 2.37E-7 | 138 | 163 | No hit | No description |
SMART | SM00355 | 140 | 143 | 163 | IPR015880 | Zinc finger, C2H2-like |
Gene Ontology ? help Back to Top | ||||||
---|---|---|---|---|---|---|
GO Term | GO Category | GO Description | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0003676 | Molecular Function | nucleic acid binding | ||||
GO:0046872 | Molecular Function | metal ion binding |
Sequence ? help Back to Top |
---|
Protein Sequence Length: 465 aa Download sequence Send to blast |
MMSGDGYSLM PSAIEGFDHQ LNPANPSQNQ KSNPAVKKKR NLPGTPDPDA EVIALSPTTL 60 MATNRFICEI CNKGFQRDQN LQLHRRGHNL PWKLRQRTNK DVIKKKVYIC PEKTCVHHDP 120 SRALGDLTGI KKHFSRKHGE KKWKCEKCSK KYAVQSDWKA HSKTCGTREY KCDCGTLFSR 180 KDSFITHRAF CDALTEESAR LTSAAAAATN LNFGNDPSAN NTMMNSQAVQ DVSQISDFEK 240 PSRLSFWMNQ QPNNLNVIDM AAANSNNLYD MVQMGSATSL FGSNSMSNFG ASTSISSANL 300 SLSSPMGLKD QEGRNIKPNI ISKPPSAPMS ATALLQKAAQ LGSTRSSNQS LPGSSAGVMT 360 SPPSSNTLNF NRGSNELNQL FQPRNTTSSN LVSSLSCASN NSSLEQLMKF GGASSNAIDR 420 QNSLTRDFLG VGGDNQAHNR QFLPHDLAKF GSAAMGLSPF TGNH* |
3D Structure ? help Back to Top | ||||||
---|---|---|---|---|---|---|
PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 3e-39 | 139 | 203 | 3 | 67 | Zinc finger protein JACKDAW |
5b3h_F | 3e-39 | 139 | 203 | 3 | 67 | Zinc finger protein JACKDAW |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
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 | |
---|---|
Source | Link |
PlantRegMap | mrna09703.1-v1.0-hybrid |
Regulation -- PlantRegMap ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Protein ? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | ||||
Refseq | XP_004304416.1 | 0.0 | PREDICTED: zinc finger protein JACKDAW | ||||
Swissprot | Q944L3 | 1e-117 | IDD9_ARATH; Zinc finger protein BALDIBIS | ||||
TrEMBL | A0A2P6RAR6 | 0.0 | A0A2P6RAR6_ROSCH; Putative transcription factor C2H2 family | ||||
STRING | XP_004304416.1 | 0.0 | (Fragaria vesca) |
Orthologous Group ? help Back to Top | |||
---|---|---|---|
Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Fabids | OGEF181 | 34 | 275 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Hit ID | E-value | Description | ||||
AT5G03150.1 | 1e-100 | C2H2-like zinc finger protein |
Link Out ? help Back to Top | |
---|---|
Phytozome | mrna09703.1-v1.0-hybrid |
Publications ? help Back to Top | |||
---|---|---|---|
|