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.J01514.1

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

Protein Properties

Length: 271aa MW: 29543.4 Da PI: 7.0084

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pahal.J01514.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	64.2	1.9e-20	132	228	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++g+ W+++ ++r++lt+GW+ Fv+a++L +gD+v+F +++ Pahal.J01514.1 132 FCKTLTASDTSTHGGFSVPRRAAEKVfppldfnQQPPA--QELIAKDLHGNDWKFRQ-----PKRHLLTTGWSVFVSAKRLVAGDSVLFI--WND 217 99***************************8444443..48**********9.....8889********************..777 PP EE..EEEEE-S CS B3 89 efelvvkvfrk 99 + +l+++++r+ Pahal.J01514.1 218 NNQLLLGIRRA 228 7788*9997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	3.53E-44	117	256	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	6.8E-38	123	242	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	8.10E-20	131	227	No hit	No description
SMART	SM01019	1.2E-18	132	229	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	12.929	132	229	IPR003340	B3 DNA binding domain
Pfam	PF02362	9.5E-19	132	228	IPR003340	B3 DNA binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 271 aa Download sequence Send to blast
MKLSLSAGGG LQDQPASPEE ENKCLNSELW HACAGPLVSL PAVGSRVVYF PQGHGEQVAA 60 STNKEMESQI PNYPSLPPQL ICQLHNVTMH ADAETDEVYA QMTLQPLSPQ ELKDPFLPAE 120 LGSASKQPTN YFCKTLTASD TSTHGGFSVP RRAAEKVFPP LDFNQQPPAQ ELIAKDLHGN 180 DWKFRQPKRH LLTTGWSVFV SAKRLVAGDS VLFIWNDNNQ LLLGIRRASR PQTVMPSSVL 240 SSDSMHIGLL AAAAHAASTN SRFTIFYNPR *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-116	11	270	40	301	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).
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).
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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	KJ727740	0.0	KJ727740.1 Zea mays clone pUT5681 ARF transcription factor (ARF16) mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025823935.1	0.0	auxin response factor 6-like isoform X1
Swissprot	A2X1A1	1e-172	ARFF_ORYSI; Auxin response factor 6
Swissprot	Q653U3	1e-172	ARFQ_ORYSJ; Auxin response factor 17
Swissprot	Q6H6V4	1e-172	ARFF_ORYSJ; Auxin response factor 6
TrEMBL	A0A270R761	0.0	A0A270R761_9POAL; Uncharacterized protein
STRING	Pavir.Ab00451.1.p	1e-180	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP2012	36	85

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G30330.2	1e-154	auxin response factor 6

Link Out ? help Back to Top
Phytozome	Pahal.J01514.1

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]