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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 | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| TF ID | Cc10_g01900 | ||||||||
| Common Name | GSCOC_T00024683001 | ||||||||
| Organism | |||||||||
| Taxonomic ID | |||||||||
| Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Rubiaceae; Ixoroideae; Coffeeae; Coffea
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| Family | ARF | ||||||||
| Protein Properties | Length: 950aa MW: 104627 Da PI: 5.2173 | ||||||||
| Description | ARF family protein | ||||||||
| Gene Model |
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| Signature Domain? help Back to Top | |||||||
|---|---|---|---|---|---|---|---|
| No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
| 1 | B3 | 75.5 | 6.3e-24 | 147 | 248 | 1 | 99 |
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS
B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92
f+k+lt sd++++g +++p++ ae+ ++++++ ++l+++d++ ++W++++iyr++++r++lt+GW+ Fv ++L++gD+v+F ++++ +l
Cc10_g01900 147 FCKTLTASDTSTHGGFSVPRRAAEKLfpqldySMQPPT-QELVVRDLHDNTWTFRHIYRGQPKRHLLTTGWSMFVGTKRLRAGDSVLFI--RDEKSQL 241
99*********************999*****9555554.49************************************************..4567778 PP
EEEEE-S CS
B3 93 vvkvfrk 99
+++v+r+
Cc10_g01900 242 LLGVRRA 248
9999997 PP
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| 2 | Auxin_resp | 117.1 | 1.5e-38 | 273 | 356 | 1 | 83 |
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83
aahaa+++s+F+++YnPra++seFv+++++++k+++ +++s+GmRf m+fete+ss+rr++Gt+vg+sdldp+rWp+SkWrsL+
Cc10_g01900 273 AAHAAANRSPFTIFYNPRACPSEFVIPLARYRKSVYgTQLSAGMRFGMMFETEESSKRRYMGTIVGISDLDPLRWPGSKWRSLQ 356
79**********************************9*********************************************97 PP
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| Protein Features ? help Back to Top | ||||||
|---|---|---|---|---|---|---|
| Database | Entry ID | E-value | Start | End | InterPro ID | Description |
| SuperFamily | SSF101936 | 1.19E-46 | 133 | 276 | IPR015300 | DNA-binding pseudobarrel domain |
| Gene3D | G3DSA:2.40.330.10 | 2.3E-41 | 140 | 261 | IPR015300 | DNA-binding pseudobarrel domain |
| CDD | cd10017 | 2.85E-21 | 146 | 247 | No hit | No description |
| Pfam | PF02362 | 2.3E-21 | 147 | 248 | IPR003340 | B3 DNA binding domain |
| SMART | SM01019 | 1.1E-22 | 147 | 249 | IPR003340 | B3 DNA binding domain |
| PROSITE profile | PS50863 | 13.042 | 147 | 249 | IPR003340 | B3 DNA binding domain |
| Pfam | PF06507 | 2.5E-33 | 273 | 356 | IPR010525 | Auxin response factor |
| Pfam | PF02309 | 2.0E-11 | 834 | 926 | IPR033389 | AUX/IAA domain |
| PROSITE profile | PS51745 | 26.174 | 839 | 923 | IPR000270 | PB1 domain |
| SuperFamily | SSF54277 | 1.32E-9 | 852 | 918 | No hit | No description |
| Gene Ontology ? help Back to Top | ||||||
|---|---|---|---|---|---|---|
| GO Term | GO Category | GO Description | ||||
| GO:0006355 | Biological Process | regulation of transcription, DNA-templated | ||||
| GO:0009734 | Biological Process | auxin-activated signaling pathway | ||||
| GO:0009908 | Biological Process | flower development | ||||
| GO:0009942 | Biological Process | longitudinal axis specification | ||||
| GO:0010305 | Biological Process | leaf vascular tissue pattern formation | ||||
| GO:0048364 | Biological Process | root development | ||||
| GO:0048507 | Biological Process | meristem development | ||||
| GO:0005634 | Cellular Component | nucleus | ||||
| GO:0016020 | Cellular Component | membrane | ||||
| GO:0042802 | Molecular Function | identical protein binding | ||||
| GO:0044212 | Molecular Function | transcription regulatory region DNA binding | ||||
| Sequence ? help Back to Top |
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| Protein Sequence Length: 950 aa Download sequence Send to blast |
MGAVEEKIKG GALVPGVQNS LLEEMKLLKE MQDQSGIRKP INSELWHACA GPLVMLPQVG 60 SLVYYFPQGH SEQVSVSTNR TATSQIPNYP NLPSQLLCQV HNVTHHADKD TDEIYAQMSL 120 QPVNSDKDIF PMPDFGIKPS KHPTEFFCKT LTASDTSTHG GFSVPRRAAE KLFPQLDYSM 180 QPPTQELVVR DLHDNTWTFR HIYRGQPKRH LLTTGWSMFV GTKRLRAGDS VLFIRDEKSQ 240 LLLGVRRANR QQAALPSSVL SADSMHIGVL AAAAHAAANR SPFTIFYNPR ACPSEFVIPL 300 ARYRKSVYGT QLSAGMRFGM MFETEESSKR RYMGTIVGIS DLDPLRWPGS KWRSLQVEWD 360 EPGCGDKQNR VSPWEIETPE SLFIFPSLTA GLKRPFQSAF LGAQTEWESL VNKPFLRVPG 420 NLSGDIVCPS VSNPWSEQLM KMLIRPNCVD NLPSTASSIL EANAKVSPVL EAEKITQAVI 480 KQKAEIIPQE HVSSQSESIQ QSHLDQANNS KLNFSSQSVL PGKPQHLDKL GNQTPVIHTE 540 ATKLEPELQS DQLSQYSSLG HCNDDRLVVK PANSHNLVND IVLLNQNNNM LAVQASPKMM 600 QAQLDSHLLQ SLPSDASQVE NSIADGLFVY PDHNEWNLYP SSCQSLAGLL KPPGSSSAAI 660 RKHDQPVILS GGLGPELSTI EELWNNQFNN ARFLSQTNPL VSLPQQDLPN LHLLASSFGL 720 KDLSNESSNQ SDMYSCLNFD GNNSGSTVVD PSVSSTALDE FCTLKNSNFQ SPSDYLMGNF 780 NSCQDVQSQI TSTSLADSQA FSVQEFVDNS GGTSSSDVDF DESNALPNSS WQQTTPRVRT 840 YTKIQKAGSV GRSIDVSSFK NYDELCSAIE RMFGLEGLLN DSKGSGWKLV YVDFENDVLL 900 VGDDPWEEFV GCVKCIRILS PSEVQQMGEE GMQLLNSVSE AGRSCDGLG* |
| 3D Structure ? help Back to Top | ||||||
|---|---|---|---|---|---|---|
| PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
| 4ldu_A | 0.0 | 1 | 381 | 5 | 392 | Auxin response factor 5 |
| Search in ModeBase | ||||||
| Functional Description ? help Back to Top | ||||||
|---|---|---|---|---|---|---|
| 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). Seems to act as transcriptional activator. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Mediates embryo axis formation and vascular tissues differentiation. Functionally redundant with ARF7. May be necessary to counteract AMP1 activity. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:14973283, ECO:0000269|PubMed:17553903}. | |||||
| Binding Motif ? help Back to Top | |||
|---|---|---|---|
| Motif ID | Method | Source | Motif file |
| MP00153 | DAP | Transfer from AT1G19850 | Download |
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| Regulation -- PlantRegMap ? help Back to Top | ||||||
|---|---|---|---|---|---|---|
| Source | Upstream Regulator | Target Gene | ||||
| PlantRegMap | Retrieve | Retrieve | ||||
| Annotation -- Protein ? help Back to Top | |||||||
|---|---|---|---|---|---|---|---|
| Source | Hit ID | E-value | Description | ||||
| Refseq | XP_027090708.1 | 0.0 | auxin response factor 5-like | ||||
| Refseq | XP_027090710.1 | 0.0 | auxin response factor 5-like | ||||
| Swissprot | P93024 | 0.0 | ARFE_ARATH; Auxin response factor 5 | ||||
| TrEMBL | A0A068UFS9 | 0.0 | A0A068UFS9_COFCA; Auxin response factor | ||||
| STRING | XP_009778804.1 | 0.0 | (Nicotiana sylvestris) | ||||
| Orthologous Group ? help Back to Top | |||
|---|---|---|---|
| Lineage | Orthologous Group ID | Taxa Number | Gene Number |
| Asterids | OGEA5859 | 23 | 34 |
| Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
|---|---|---|---|---|---|---|
| Hit ID | E-value | Description | ||||
| AT1G19850.1 | 0.0 | ARF family protein | ||||
| ©2010-2022, Center
for Bioinformatics, Peking University Last Modified: 2022-12-08 Questions or Comments, please contact  |
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