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.D00049.1

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: 1155aa MW: 127887 Da PI: 6.7007

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pahal.D00049.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	72.2	6.5e-23	143	244	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++ + +++ ++++ +d++ +W++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F +++ Pahal.D00049.1 143 FCKTLTASDTSTHGGFSVPRRAAEKIfppldfsM-QPPA-QEIQARDLHDSTWTFRHIYRGQPKRHLLTTGWSLFVSGKRLFAGDSVIFV--RDE 233 99***************************954.4444.48********************************************..568 PP EE..EEEEE-S CS B3 89 efelvvkvfrk 99 +++l+++++r+ Pahal.D00049.1 234 KQQLLLGIRRA 244 8889**997 PP
2	Auxin_resp	118.3	6.4e-39	269	352	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aahaa+++s+F+++YnPras++eFvv+++k++kal+ +++s+GmRf+m+fete+ +rr++Gt++g+sdldpvrW+nS+Wr+L+ Pahal.D00049.1 269 AAHAAANNSPFTIFYNPRASPTEFVVPFAKYQKALYgNQISLGMRFRMMFETEELGTRRYMGTITGISDLDPVRWKNSQWRNLQ 352 79********************************9*******************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51257	5	1	27	No hit	No description
SuperFamily	SSF101936	3.79E-43	132	272	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	1.5E-41	135	258	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	3.76E-19	142	234	No hit	No description
Pfam	PF02362	7.9E-21	143	244	IPR003340	B3 DNA binding domain
SMART	SM01019	1.2E-22	143	245	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	12.026	143	245	IPR003340	B3 DNA binding domain
Pfam	PF06507	1.1E-33	269	352	IPR010525	Auxin response factor
Pfam	PF02309	4.0E-10	1018	1106	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	27.975	1021	1105	IPR000270	PB1 domain
SuperFamily	SSF54277	1.67E-7	1036	1100	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: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
Protein Sequence Length: 1155 aa Download sequence Send to blast
MIKQQQQPAS SIGPQAAAVA AAAASGCEGE KKPPAINSEL WHACAGPLVS LPPAGSLVVY 60 FPQGHSEQVA ASMQKDVDGH VPSYPNLPSK LICLLHNVTL HADPETDEVY AQMTLQPVTS 120 YGKEALQLSE LALKQPRPQT EFFCKTLTAS DTSTHGGFSV PRRAAEKIFP PLDFSMQPPA 180 QEIQARDLHD STWTFRHIYR GQPKRHLLTT GWSLFVSGKR LFAGDSVIFV RDEKQQLLLG 240 IRRANRQPTN ISSSVLSSDS MHIGILAAAA HAAANNSPFT IFYNPRASPT EFVVPFAKYQ 300 KALYGNQISL GMRFRMMFET EELGTRRYMG TITGISDLDP VRWKNSQWRN LQVGWDESAA 360 GERRNRVSIW EIEPVAAPFF ICPPPFFGSK RPRQLDDESS EMENLLKRAM PWLGEEICIK 420 DPQTQNTIMP GLSLVQWMNM NMQQNSSFAN TAMQSEYLRS LSNPSMQNLG AADLSRQLCL 480 QNQILQQNSI QFSSPKLTQQ MQPVHELSKA TLPLNQLGVS TKPQEQTQDP SNLQRQQQSM 540 NQLLPLSQSQ TNLVQAQVIV QNQVQQQQPQ SMTQNQQAST SQPQLLHHQQ QQQQQQQQQH 600 QQQKLLHQQQ QLLLQQQQLQ QQQQNQQQLN KMVAQVPNLA AQQLQLSDQQ LQLQLLQKLQ 660 QQQQSLLSQP AVTLAQLPLI QEQQKLILDM QQQLSNSQSL SQQQTMPQQS TKVPSQTPPP 720 PPPPPHMQQE PQQKLPQKHV GFPDTSHAAI PPATSVNAIS VSGSPLIANG ATHSVLTEEI 780 PSCSTSPSSA NGNHLVQPIL GRNQQCGMIN NEKVPQSTAP MSIPSSLDAV TAAPRSTKEL 840 PKLNSNVKQS VMASKLPNPG PVPQNLVNSA PPTDYLETAS SATSVWLSQT DGLLHQGFPM 900 SNFNQQHMFK DAPPETDIQG ADPCNNALFG INSDGQLGFP MGADGFLSNG IDTSKYQNHI 960 STDIDGNYRI PKDGQQEISS SMVSQSFGAS DMAFNSFDSA MNDGGFLNKT SWLPAPPLKR 1020 RTFTKVYKRG AVGRSIDISQ YSGYDELKHA LARMFSIEGQ LEERQRIGWK LVYKDHEDDI 1080 LLLGDDPWEE FVNCVRCIRI LSPQEVQQMS LDGDLGNNIL PNQACSSSDG GNAWRARCDQ 1140 NSGNPSNGSY DQFE*

Sequence ? help Back to Top

Protein Sequence Length: 1155 aa Download sequence Send to blast

MIKQQQQPAS SIGPQAAAVA AAAASGCEGE KKPPAINSEL WHACAGPLVS LPPAGSLVVY  60
FPQGHSEQVA ASMQKDVDGH VPSYPNLPSK LICLLHNVTL HADPETDEVY AQMTLQPVTS  120
YGKEALQLSE LALKQPRPQT EFFCKTLTAS DTSTHGGFSV PRRAAEKIFP PLDFSMQPPA  180
QEIQARDLHD STWTFRHIYR GQPKRHLLTT GWSLFVSGKR LFAGDSVIFV RDEKQQLLLG  240
IRRANRQPTN ISSSVLSSDS MHIGILAAAA HAAANNSPFT IFYNPRASPT EFVVPFAKYQ  300
KALYGNQISL GMRFRMMFET EELGTRRYMG TITGISDLDP VRWKNSQWRN LQVGWDESAA  360
GERRNRVSIW EIEPVAAPFF ICPPPFFGSK RPRQLDDESS EMENLLKRAM PWLGEEICIK  420
DPQTQNTIMP GLSLVQWMNM NMQQNSSFAN TAMQSEYLRS LSNPSMQNLG AADLSRQLCL  480
QNQILQQNSI QFSSPKLTQQ MQPVHELSKA TLPLNQLGVS TKPQEQTQDP SNLQRQQQSM  540
NQLLPLSQSQ TNLVQAQVIV QNQVQQQQPQ SMTQNQQAST SQPQLLHHQQ QQQQQQQQQH  600
QQQKLLHQQQ QLLLQQQQLQ QQQQNQQQLN KMVAQVPNLA AQQLQLSDQQ LQLQLLQKLQ  660
QQQQSLLSQP AVTLAQLPLI QEQQKLILDM QQQLSNSQSL SQQQTMPQQS TKVPSQTPPP  720
PPPPPHMQQE PQQKLPQKHV GFPDTSHAAI PPATSVNAIS VSGSPLIANG ATHSVLTEEI  780
PSCSTSPSSA NGNHLVQPIL GRNQQCGMIN NEKVPQSTAP MSIPSSLDAV TAAPRSTKEL  840
PKLNSNVKQS VMASKLPNPG PVPQNLVNSA PPTDYLETAS SATSVWLSQT DGLLHQGFPM  900
SNFNQQHMFK DAPPETDIQG ADPCNNALFG INSDGQLGFP MGADGFLSNG IDTSKYQNHI  960
STDIDGNYRI PKDGQQEISS SMVSQSFGAS DMAFNSFDSA MNDGGFLNKT SWLPAPPLKR  1020
RTFTKVYKRG AVGRSIDISQ YSGYDELKHA LARMFSIEGQ LEERQRIGWK LVYKDHEDDI  1080
LLLGDDPWEE FVNCVRCIRI LSPQEVQQMS LDGDLGNNIL PNQACSSSDG GNAWRARCDQ  1140
NSGNPSNGSY DQFE*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-168	29	373	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).

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025810781.1	0.0	auxin response factor 19-like isoform X1
Swissprot	Q0D9R7	0.0	ARFS_ORYSJ; Auxin response factor 19
TrEMBL	A0A2S3HGJ6	0.0	A0A2S3HGJ6_9POAL; Auxin response factor
STRING	Pavir.J00164.1.p	0.0	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1409	35	106

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.D00049.1

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Zhang S, et al. The auxin response factor, OsARF19, controls rice leaf angles through positively regulating OsGH3-5 and OsBRI1. Plant Cell Environ., 2015. 38(4): p. 638-54 [PMID:24995795]