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 | Solyc12g042070.1.1 | ||||||||
Common Name | SlARF2B | ||||||||
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
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Family | ARF | ||||||||
Protein Properties | Length: 829aa MW: 92468.3 Da PI: 6.9138 | ||||||||
Description | ARF 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 | B3 | 71.6 | 1e-22 | 128 | 229 | 1 | 99 |
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 f+k+lt sd++++g +++ +++a+e+ + + + +++l+ +d++ ++W++++i+r++++r++l++GW+ Fv++++L +gD ++F Solyc12g042070.1.1 128 FCKTLTASDTSTHGGFSVLRRHADEClppldmSRQ-PPTQELVAKDLHANEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL-- 215 99*****************************7333.34459************************************************.. PP SSSEE..EEEEE-S CS B3 86 grsefelvvkvfrk 99 + +++el+v+v+r+ Solyc12g042070.1.1 216 RGENGELRVGVRRA 229 449999*****996 PP | |||||||
2 | Auxin_resp | 116.7 | 2e-38 | 254 | 336 | 1 | 83 |
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 a+ha++tk+ F+v+Y+Pr+s+++F+v++++++++lk+++s+GmRfkm+fe+e+++e+r++Gt+vg++++d rWp+SkWr+Lk Solyc12g042070.1.1 254 AWHAIQTKTLFTVYYKPRTSPADFIVPYDQYMESLKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIENADLKRWPESKWRCLK 336 89*******************************************************************************96 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF101936 | 4.19E-40 | 124 | 257 | IPR015300 | DNA-binding pseudobarrel domain |
Gene3D | G3DSA:2.40.330.10 | 1.4E-40 | 124 | 243 | IPR015300 | DNA-binding pseudobarrel domain |
CDD | cd10017 | 1.37E-20 | 126 | 228 | No hit | No description |
SMART | SM01019 | 4.1E-22 | 128 | 230 | IPR003340 | B3 DNA binding domain |
PROSITE profile | PS50863 | 11.42 | 128 | 230 | IPR003340 | B3 DNA binding domain |
Pfam | PF02362 | 1.4E-20 | 128 | 229 | IPR003340 | B3 DNA binding domain |
Pfam | PF06507 | 1.2E-35 | 254 | 336 | IPR010525 | Auxin response factor |
Pfam | PF02309 | 7.5E-9 | 700 | 786 | IPR033389 | AUX/IAA domain |
SuperFamily | SSF54277 | 5.89E-11 | 700 | 774 | No hit | No description |
PROSITE profile | PS51745 | 20.208 | 703 | 786 | IPR000270 | PB1 domain |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0006355 | Biological Process | regulation of transcription, DNA-templated | ||||
GO:0009734 | Biological Process | auxin-activated signaling pathway | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0003677 | Molecular Function | DNA binding | ||||
GO:0005515 | Molecular Function | protein binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 829 aa Download sequence Send to blast |
MATSENCRNA AGAGKVDAEK ALYTELWRAC AGPLVTVPCE GELVFYFPQG HIEQVEASTN 60 QASDQQMPVY NLPSKILCRV INVLLKAEPD TDEVYAQVTL LPEPNQDENV VSKEPMPSPP 120 PRFHVHSFCK TLTASDTSTH GGFSVLRRHA DECLPPLDMS RQPPTQELVA KDLHANEWRF 180 RHIFRGQPRR HLLQSGWSVF VSSKRLVAGD AFIFLRGENG ELRVGVRRAM RQQGNAPSSV 240 ISSHSMHLGV LATAWHAIQT KTLFTVYYKP RTSPADFIVP YDQYMESLKN NYSIGMRFKM 300 RFEGEEAPEQ RFTGTIVGIE NADLKRWPES KWRCLKVRWD ETSAIPRPDR VSPWKVEPAL 360 SPPALNPLPI PRQKRPRSNV LPSSPDSSVL TREGSSKVVV DTSQASGFSR VLQGQEISTL 420 RGNFVENNES DSSEKPPIWQ PLLDDEKADV HSASRKCISD KRLPLGRPES SFTDLLSGFG 480 GQSSSSHGFH SPTGGQTAPA SWVKRQALDK ETDFSLLAKQ WSLVSSGLSL NLMESGLKGA 540 DTLYQMRGTS RLNCFNEYPT FPGHRPDNQQ GNWLMPPSVL PYIQMSAHSG EIMPKPMASP 600 QPEAMKPKEG NCKLFGIPLV SKCATIDPVM LRKNSPIHST SNMHFGIHPH QFPIIESDQR 660 SEQSKGSKLP DDGFIVHDQE EQFQTSHPGT RDREGKGLVH STRSCTKVHK QGTALGRSVD 720 LAKFNNYEEL IAELDHIFDF NGELKARNKN WLVVYTDDEG DMMLVGDDPW EFCGMVRKIF 780 IYTKDEVQRM NPGTLNSKGE DNSSVAEGSD AKEVKNLQLH IDSSPEDS* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
4ldv_A | 1e-173 | 1 | 358 | 1 | 354 | Auxin response factor 1 |
4ldw_A | 1e-173 | 1 | 358 | 1 | 354 | Auxin response factor 1 |
4ldw_B | 1e-173 | 1 | 358 | 1 | 354 | Auxin response factor 1 |
Search in ModeBase |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Les.776 | 0.0 | fruit| leaf| root| trichome |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | DEVELOPMENTAL STAGE: Expression increases during floral development. Expressed during ovary development with the highest expression on the third day after the flower fully opened. {ECO:0000269|PubMed:21735233}. | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in root, leaf and stem (PubMed:26716451, PubMed:21735233). Also expressed in flower and fruit (PubMed:26716451). Expressed in flower buds about three days before opening including stamen, petal and sepal with the highest in ovary (PubMed:21735233). {ECO:0000269|PubMed:21735233, ECO:0000269|PubMed:26716451}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Auxin response factors (ARFs) are transcriptional factors that binds specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs) (By similarity). Could act as transcriptional activator or repressor. Involved in the control of fruit ripening process. Regulates expression of a number of ripening regulators, transcription factors, and ethylene biosynthesis and signaling components (PubMed:26716451, PubMed:26959229). May act as a transcriptional repressor of auxin-responsive genes (PubMed:26716451). {ECO:0000255|RuleBase:RU004561, ECO:0000269|PubMed:26716451, ECO:0000269|PubMed:26959229}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Solyc12g042070.1.1 |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: By tomato fruit ripening. Expression is up-regulated by plant hormone auxin in tomato fruits. {ECO:0000269|PubMed:26716451}. |
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 | HM143940 | 0.0 | Solanum lycopersicum auxin response factor 11-like (ARF11) mRNA, complete sequence |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_004252281.1 | 0.0 | auxin response factor 2B | ||||
Swissprot | K4DF01 | 0.0 | ARF2B_SOLLC; Auxin response factor 2B | ||||
TrEMBL | M1B5E8 | 0.0 | M1B5E8_SOLTU; Auxin response factor | ||||
STRING | Solyc12g042070.1.1 | 0.0 | (Solanum lycopersicum) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Asterids | OGEA2618 | 24 | 44 | Representative plant | OGRP550 | 15 | 82 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT5G62000.3 | 0.0 | auxin response factor 2 |
Link Out ? help Back to Top | |
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Phytozome | Solyc12g042070.1.1 |
Entrez Gene | 101249712 |
Publications ? help Back to Top | |||
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