PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Pahal.F02450.1

Organism

Panicum hallii

Taxonomic ID

206008

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum

Family

ARF

Protein Properties

Length: 1054aa MW: 116557 Da PI: 6.5416

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pahal.F02450.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	73.7	2.3e-23	126	227	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 f+k+lt sd++++g +++p++ ae++ ++++++ +l+ +d++ sW++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F +++ Pahal.F02450.1 126 FCKTLTASDTSTHGGFSVPRRAAEKIfppldftMQPPAQ--ELMAKDLHDISWKFRHIYRGQPKRHLLTTGWSVFVSTKRLLAGDSVLFI--RDE 216 99***************************96555544..8********************************************..456 PP EE..EEEEE-S CS B3 89 efelvvkvfrk 99 + +l+++++r+ Pahal.F02450.1 217 KSQLLLGIRRA 227 7778*9997 PP
2	Auxin_resp	122.9	2.3e-40	252	334	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aahaa+++s+F+++YnPras+seFv++++k++kal+++vs+GmRf+m feteds rr++Gt++g+ dldp+rW+nS+Wr+L+ Pahal.F02450.1 252 AAHAAANSSPFTIFYNPRASPSEFVIPLAKYNKALYTQVSLGMRFRMLFETEDSGVRRYMGTITGIGDLDPIRWKNSHWRNLQ 334 79*******************************************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	7.46E-44	116	255	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	2.5E-40	118	241	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	3.97E-19	125	226	No hit	No description
Pfam	PF02362	2.9E-21	126	227	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	12.21	126	228	IPR003340	B3 DNA binding domain
SMART	SM01019	1.1E-23	126	228	IPR003340	B3 DNA binding domain
Pfam	PF06507	4.1E-35	252	334	IPR010525	Auxin response factor
Pfam	PF02309	2.1E-9	935	1024	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	25.747	938	1031	IPR000270	PB1 domain
SuperFamily	SSF54277	1.08E-8	954	1017	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:0009723	Biological Process	response to ethylene
GO:0009733	Biological Process	response to auxin
GO:0010311	Biological Process	lateral root formation
GO:0048366	Biological Process	leaf development
GO:0005634	Cellular Component	nucleus
GO:0043565	Molecular Function	sequence-specific DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 1054 aa Download sequence Send to blast
MKDQGSGVTP SPAEGDKKPI NSELWHACAG PLVSLPPVGS LVVYFPQGHS EQVAASMHKE 60 LDTIPSYPSL PSKLICKLLS LTLHADSETD EVYAQMTLQP VNKYDRDAML ASELGLKQNK 120 QPAEFFCKTL TASDTSTHGG FSVPRRAAEK IFPPLDFTMQ PPAQELMAKD LHDISWKFRH 180 IYRGQPKRHL LTTGWSVFVS TKRLLAGDSV LFIRDEKSQL LLGIRRASRP QPALSSSVLS 240 SDSMHIGILA AAAHAAANSS PFTIFYNPRA SPSEFVIPLA KYNKALYTQV SLGMRFRMLF 300 ETEDSGVRRY MGTITGIGDL DPIRWKNSHW RNLQVGWDES TASERRTRVS IWEIEPVATP 360 FYICPPPFFR PKLPKQPGMP DDENEVESAF KRAMPWLADD FAFKDVQNAL FPGLSLVQWM 420 AMQQNPQMLT AAAPSVQSQY LTSNALGMQD GIGNVNEDPA KRLSMQAQNI GLPNLQTGTK 480 MDHPALTSLV QQQQQPHHVL QQQHVQPLQQ SSTILQQQQA QLLQQNAIHL QQQQEQLQRQ 540 QSQPPQQLKA PASLQPMDQH KLKEQQPPGG QAVSQAQLLN QILQPSSSQL QQMGLPKSPT 600 QRPGLPGLTT MGSLPQPQLT QSPQLQQTAE YQQAVIQSQQ PQLQQLSQSE LQLQLLQKIQ 660 QQNLLSQLNP QHQSQLIQQL SQKSQEILQQ QVLQHQLGSS DAVGQLKHLQ QTPLNHMTGS 720 MTPQQLVRSH SALVESEEPS SSTAPSGSRA SPINSLSRAQ QGSRNLPEIP STPHIEHLLQ 780 EIQSKSDNRI KNDIQGSKET INAPSRHPAS DQLDASSATS FCLDESPREG FSFPPVCLDG 840 NAQVDPRDNF LIAENVDTLM PDALLSRGMS SGKGICDLPS GQRDRRDVEN ELSSAAFSSQ 900 SFGVPDMSFK PGCSSDVAVA DGGMASQGLW NSQTQRMRTF TKVQKRGSVG RSIDITRYRG 960 YEDLRHDLAC MFGIQGQLED PYRTDWKLVY VDHENDILLV GDDPWEEFVS CVKSIKILSS 1020 AEVQQMSLDG DLGCIPPQAQ ACSASDDANA WRA*

Sequence ? help Back to Top

Protein Sequence Length: 1054 aa Download sequence Send to blast

MKDQGSGVTP SPAEGDKKPI NSELWHACAG PLVSLPPVGS LVVYFPQGHS EQVAASMHKE  60
LDTIPSYPSL PSKLICKLLS LTLHADSETD EVYAQMTLQP VNKYDRDAML ASELGLKQNK  120
QPAEFFCKTL TASDTSTHGG FSVPRRAAEK IFPPLDFTMQ PPAQELMAKD LHDISWKFRH  180
IYRGQPKRHL LTTGWSVFVS TKRLLAGDSV LFIRDEKSQL LLGIRRASRP QPALSSSVLS  240
SDSMHIGILA AAAHAAANSS PFTIFYNPRA SPSEFVIPLA KYNKALYTQV SLGMRFRMLF  300
ETEDSGVRRY MGTITGIGDL DPIRWKNSHW RNLQVGWDES TASERRTRVS IWEIEPVATP  360
FYICPPPFFR PKLPKQPGMP DDENEVESAF KRAMPWLADD FAFKDVQNAL FPGLSLVQWM  420
AMQQNPQMLT AAAPSVQSQY LTSNALGMQD GIGNVNEDPA KRLSMQAQNI GLPNLQTGTK  480
MDHPALTSLV QQQQQPHHVL QQQHVQPLQQ SSTILQQQQA QLLQQNAIHL QQQQEQLQRQ  540
QSQPPQQLKA PASLQPMDQH KLKEQQPPGG QAVSQAQLLN QILQPSSSQL QQMGLPKSPT  600
QRPGLPGLTT MGSLPQPQLT QSPQLQQTAE YQQAVIQSQQ PQLQQLSQSE LQLQLLQKIQ  660
QQNLLSQLNP QHQSQLIQQL SQKSQEILQQ QVLQHQLGSS DAVGQLKHLQ QTPLNHMTGS  720
MTPQQLVRSH SALVESEEPS SSTAPSGSRA SPINSLSRAQ QGSRNLPEIP STPHIEHLLQ  780
EIQSKSDNRI KNDIQGSKET INAPSRHPAS DQLDASSATS FCLDESPREG FSFPPVCLDG  840
NAQVDPRDNF LIAENVDTLM PDALLSRGMS SGKGICDLPS GQRDRRDVEN ELSSAAFSSQ  900
SFGVPDMSFK PGCSSDVAVA DGGMASQGLW NSQTQRMRTF TKVQKRGSVG RSIDITRYRG  960
YEDLRHDLAC MFGIQGQLED PYRTDWKLVY VDHENDILLV GDDPWEEFVS CVKSIKILSS  1020
AEVQQMSLDG DLGCIPPQAQ ACSASDDANA WRA*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-165	15	355	45	388	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).

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin under dark condition. {ECO:0000269\|PubMed:17408882}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	KJ727741	0.0	KJ727741.1 Zea mays clone pUT5682 ARF transcription factor (ARF27) mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025812098.1	0.0	auxin response factor 16 isoform X1
Swissprot	A3B9A0	0.0	ARFP_ORYSJ; Auxin response factor 16
TrEMBL	A0A2S3HL07	0.0	A0A2S3HL07_9POAL; Auxin response factor
STRING	Si005753m	0.0	(Setaria italica)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP9045	33	38

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G19220.1	0.0	auxin response factor 19

Link Out ? help Back to Top
Phytozome	Pahal.F02450.1

Publications ? help Back to Top
Shen C, et al. OsARF16, a transcription factor, is required for auxin and phosphate starvation response in rice (Oryza sativa L.). Plant Cell Environ., 2013. 36(3): p. 607-20 [PMID:22913536] Shen C, et al. OsARF16 is involved in cytokinin-mediated inhibition of phosphate transport and phosphate signaling in rice (Oryza sativa L.). PLoS ONE, 2014. 9(11): p. e112906 [PMID:25386911] Shen C, et al. OsARF16, a transcription factor regulating auxin redistribution, is required for iron deficiency response in rice (Oryza sativa L.). Plant Sci., 2015. 231: p. 148-58 [PMID:25576000]