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

Sof003554

Organism

Saccharum officinarum

Taxonomic ID

4547

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Saccharinae; Saccharum; Saccharum officinarum complex

Family

Protein Properties

Length: 242aa MW: 25784.4 Da PI: 5.0607

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
gnl\|UG\|Sof#S17449571	PU_unref	Unigene	View CDS
PUT-157a-Saccharum_officinarum-61086	PU_ref	plantGDB	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	51.7	1.6e-16	148	234	1	83
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 f k+lt+sd+++ g +++p+ +ae++ ++ + t+ +d +g +W+++ + + r++ t+GW++Fv++++L gD++vF Sof003554 148 FAKTLTQSDANNGGGFSVPRYCAETIfprldysADPPVQ--TVLAKDVHGVVWKFRTS-TXDAPRHLVTNGWSNFVNQKKLVGGDSIVFI 234 89**************************996555555..8999********6.455557999*******************6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	1.9E-27	141	240	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	9.29E-22	143	240	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	3.44E-15	147	233	No hit	No description
SMART	SM01019	8.2E-10	148	242	IPR003340	B3 DNA binding domain
Pfam	PF02362	8.4E-15	148	234	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.674	148	242	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: 242 aa Download sequence Send to blast
VPGFTHASAD AWGGVGGGLE MITFVDSAAM ERERESDRCL DPQLWHACAG GMVQMPPVHS 60 KVYYFPQGHA EHAQGPVVDL PAGRVPALVL CRVAAVRFMA DPDTDEVFAK IRLAPVRSNE 120 QPGYAADADD AIGAAAAGGA QEDKPASFAK TLTQSDANNG GGFSVPRYCA ETIFPRLDYS 180 ADPPVQTVLA KDVHGVVWKF RTSTXDAPRH LVTNGWSNFV NQKKLVGGDS IVFIPAENGD 240 LX

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	7e-45	23	241	32	252	Auxin response factor 5
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Sof.17012	0.0	inflorescence\| stem

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in roots, culms, leaves and young panicles. {ECO:0000269\|PubMed:17408882}.

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_004966255.1	1e-130	auxin response factor 18
Refseq	XP_004966256.1	1e-130	auxin response factor 18
Swissprot	Q653H7	1e-119	ARFR_ORYSJ; Auxin response factor 18
TrEMBL	K3XVN3	1e-129	K3XVN3_SETIT; Auxin response factor
STRING	Si005991m	1e-129	(Setaria italica)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G30080.1	7e-88	auxin response factor 16

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] Huang J,Li Z,Zhao D Deregulation of the OsmiR160 Target Gene OsARF18 Causes Growth and Developmental Defects with an Alteration of Auxin Signaling in Rice. Sci Rep, 2016. 6: p. 29938 [PMID:27444058]