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PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Home TFext BLAST Prediction Download Help About Links PlantRegMap |
Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | Sme2.5_06398.1_g00002.1 | ||||||||
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
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Family | ARF | ||||||||
Protein Properties | Length: 864aa MW: 96107 Da PI: 6.9769 | ||||||||
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 | 74.8 | 9.9e-24 | 146 | 247 | 1 | 99 |
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfv 80 f+k+lt sd++++g +++ +++a+e+ + + + +++l+ +d++g++W++++i+r++++r++l++GW+ Fv++++L +gD + Sme2.5_06398.1_g00002.1 146 FCKTLTASDTSTHGGFSVLRRHADEClppldmSRQ-PPTQELVAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAF 230 99*****************************7333.34459********************************************* PP EEEE-SSSEE..EEEEE-S CS B3 81 vFkldgrsefelvvkvfrk 99 +F + +++el+v+v+r+ Sme2.5_06398.1_g00002.1 231 IFL--RGENGELRVGVRRA 247 ***..449999*****996 PP | |||||||
2 | Auxin_resp | 79.5 | 8.1e-27 | 272 | 332 | 1 | 61 |
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsG 61 a+ha++tk++F+v+Y+Pr+s++eF+++++++++++k+++s+GmRfkm+fe+e+++e+r+++ Sme2.5_06398.1_g00002.1 272 AWHAIQTKTMFTVYYKPRTSPAEFIIPYDHYMESVKNNYSIGMRFKMRFEGEEAPEQRYAA 332 89********************************************************865 PP | |||||||
3 | Auxin_resp | 26.1 | 3.7e-10 | 344 | 370 | 57 | 83 |
Auxin_resp 57 rrlsGtvvgvsdldpvrWpnSkWrsLk 83 ++++Gt+vg++d+dp rW +SkWr+Lk Sme2.5_06398.1_g00002.1 344 KSFTGTIVGIEDTDPQRWLDSKWRCLK 370 689**********************96 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF101936 | 2.22E-40 | 142 | 275 | IPR015300 | DNA-binding pseudobarrel domain |
Gene3D | G3DSA:2.40.330.10 | 1.1E-41 | 142 | 261 | IPR015300 | DNA-binding pseudobarrel domain |
CDD | cd10017 | 7.97E-22 | 144 | 246 | No hit | No description |
PROSITE profile | PS50863 | 12.012 | 146 | 248 | IPR003340 | B3 DNA binding domain |
Pfam | PF02362 | 1.2E-21 | 146 | 247 | IPR003340 | B3 DNA binding domain |
SMART | SM01019 | 2.0E-23 | 146 | 248 | IPR003340 | B3 DNA binding domain |
Pfam | PF06507 | 3.3E-29 | 272 | 370 | IPR010525 | Auxin response factor |
Pfam | PF02309 | 4.5E-10 | 734 | 823 | IPR033389 | AUX/IAA domain |
SuperFamily | SSF54277 | 3.38E-12 | 734 | 815 | No hit | No description |
PROSITE profile | PS51745 | 23.891 | 738 | 822 | 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:0009725 | Biological Process | response to hormone | ||||
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: 864 aa Download sequence Send to blast |
MAASEVSIKG YSEPSDGSRT VSETVWSTSG VGKVDADTAL YTELWRSCAG PLVTVPREGE 60 LVYYFPQGHI EQVEASTNQV ADQQMPLYNL PSKILCRVAN VLLKAEPDTD EVYAQVTLMP 120 EPNQDANAVK KEPMRPPPPR FHVHSFCKTL TASDTSTHGG FSVLRRHADE CLPPLDMSRQ 180 PPTQELVAKD LHGNEWRFRH IFRGQPRRHL LQSGWSVFVS SKRLVAGDAF IFLRGENGEL 240 RVGVRRAMRQ QGNAPSSVIS SHSMHLGVLA TAWHAIQTKT MFTVYYKPRT SPAEFIIPYD 300 HYMESVKNNY SIGMRFKMRF EGEEAPEQRY AAVYFVEVIS LLFKSFTGTI VGIEDTDPQR 360 WLDSKWRCLK VRWDENSSIP RPDRVSPWKI EPALSPPALN APPVARTKRP RSNILPSSPD 420 SSVLTREGSS RVTADHSQAS GFSRVLQGQE LTTSRGGFAE SNETDLSEKP MLWQPSVNDE 480 KNDNYSASKR HHSGKWLPLG RPESSLTDLL SGFGVPNNSS LGFCLPSADQ AAFGASLVKQ 540 QTQDQEKDFS LLGKPWSLSP SSLSLNLMDS GSKAPGLRGE TPYQMRGDAR YSAFGEFSVL 600 PGHRLANQQG SWVPQPVSPY MKLSHSREMM HKPTVVKQPE AVKPKEGNCK LFGIPLTSSV 660 CTDPVMMQKS SLHDPVSDKN FGIHPHQSPA TDSDQRAEQS KGSKVDDGIA ANDHDKQFQT 720 FHLAGRERDG KGHSSSTRSC TKVHKQGTAL GRSVDLAKFN NYDELIAELD GLFDFNGELK 780 ARSKSWLVVY TDDEGDMMLV GDDPWQEFCG MVRKIFIYTK EEVQRMNPGT LNSKGEDTSS 840 VAEGSDAKEV KNQLLPSESC QEEY |
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-170 | 32 | 392 | 12 | 354 | Auxin response factor 1 |
4ldw_A | 1e-170 | 32 | 392 | 12 | 354 | Auxin response factor 1 |
4ldw_B | 1e-170 | 32 | 392 | 12 | 354 | Auxin response factor 1 |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Auxin response factors (ARFs) are transcriptional factors that bind 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 (PubMed:26959229, PubMed:26716451, PubMed:27645097, PubMed:28167023). Involved in the control of fruit ripening process (PubMed:26959229, PubMed:26716451, PubMed:28167023). Regulates expression of a number of ripening regulators, transcription factors, and ethylene biosynthesis and signaling components (PubMed:26959229, PubMed:26716451). May act as a transcriptional repressor of auxin-responsive genes (PubMed:26716451). Regulates vegetative growth, lateral root formation and flower organ senescence, possibly partially by regulating gene expression of auxin and ethylene response factor (ERF) genes (PubMed:28167023). Plays a negative role in axillary shoot meristem formation (PubMed:27645097). {ECO:0000255|RuleBase:RU004561, ECO:0000269|PubMed:26716451, ECO:0000269|PubMed:26959229, ECO:0000269|PubMed:27645097, ECO:0000269|PubMed:28167023}. |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: By tomato fruit ripening. Expression in tomato fruits is up-regulated by exogenous application of ethylene and down-regulated by inhibition of ethylene receptors with 1-methylcyclopropene (1-MCP) (PubMed:26959229, PubMed:26716451). Up-regulated by plant hormone abscisic acid (ABA) in tomato fruits (PubMed:26959229). Expression is not up-regulated by plant hormone auxin in tomato fruits (PubMed:26716451). Up-regulated by auxin and gibberellic acid (GA), and down-regulated by ethylene in seedlings (PubMed:28167023). Down-regulated during decapitation-induced axillary shoot development and by excision of immature leaves. Down-regulation is inhibited by the application of auxin on the cut surface (PubMed:27645097). {ECO:0000269|PubMed:26716451, ECO:0000269|PubMed:26959229, ECO:0000269|PubMed:27645097, ECO:0000269|PubMed:28167023}. |
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 | DQ340255 | 0.0 | DQ340255.1 Lycopersicon esculentum auxin response factor 2 (ARF2) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_006341482.1 | 0.0 | PREDICTED: auxin response factor 2-like | ||||
Swissprot | Q2LAJ3 | 0.0 | ARF2A_SOLLC; Auxin response factor 2A | ||||
TrEMBL | M1B469 | 0.0 | M1B469_SOLTU; Auxin response factor | ||||
STRING | PGSC0003DMT400036765 | 0.0 | (Solanum tuberosum) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Asterids | OGEA2618 | 24 | 44 |
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 |
Publications ? help Back to Top | |||
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