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

Sobic.010G253300.1.p

Common Name

Sb10g029130, SORBIDRAFT_10g029130

Organism

Sorghum bicolor

Taxonomic ID

4558

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum

Family

ARF

Protein Properties

Length: 1160aa MW: 128163 Da PI: 6.7275

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.010G253300.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	72.1	7.2e-23	155	256	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 f+k+lt sd++++g +++p++ ae++ + +++ ++++ +d++ ++W++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F Sobic.010G253300.1.p 155 FCKTLTASDTSTHGGFSVPRRAAEKIfppldfsM-QPPA-QEIQARDLHDNVWTFRHIYRGQPKRHLLTTGWSLFVSGKRLFAGDSVIF 241 99***************************954.4444.48********************************************* PP EE-SSSEE..EEEEE-S CS B3 83 kldgrsefelvvkvfrk 99 ++++++l+++++r+ Sobic.010G253300.1.p 242 V--RDERQQLLLGIRRA 256 ..4577788**9997 PP
2	Auxin_resp	118.3	6.4e-39	281	364	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+ Sobic.010G253300.1.p 281 AAHAAANNSPFTIFYNPRASPTEFVVPFAKYQKALYgNQISLGMRFRMMFETEELGTRRYMGTITGISDLDPVRWKNSQWRNLQ 364 79********************************9*******************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	8.11E-43	144	284	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	1.7E-41	147	270	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.15E-19	154	246	No hit	No description
PROSITE profile	PS50863	11.899	155	257	IPR003340	B3 DNA binding domain
Pfam	PF02362	7.7E-21	155	256	IPR003340	B3 DNA binding domain
SMART	SM01019	7.4E-23	155	257	IPR003340	B3 DNA binding domain
Pfam	PF06507	1.1E-33	281	364	IPR010525	Auxin response factor
Pfam	PF02309	1.1E-9	1025	1111	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	27.211	1026	1110	IPR000270	PB1 domain
SuperFamily	SSF54277	2.55E-7	1038	1105	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:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0005515	Molecular Function	protein binding

Sequence ? help Back to Top
Protein Sequence Length: 1160 aa Download sequence Send to blast
MIKQHQQQQQ APPPQPMPAS SAAPPAPAVP AAATAPSGCE GEKKAPPINS ELWHACAGPL 60 VSLPPAGSLV VYFPQGHSEQ VAASMQKDVD GHVPSYPNLP SKLICLLHNV TLHADPETDE 120 VYAQMTLLPV TSYGKEALQL SELALKQPRP QTEFFCKTLT ASDTSTHGGF SVPRRAAEKI 180 FPPLDFSMQP PAQEIQARDL HDNVWTFRHI YRGQPKRHLL TTGWSLFVSG KRLFAGDSVI 240 FVRDERQQLL LGIRRANRQP TNISSSVLSS DSMHIGILAA AAHAAANNSP FTIFYNPRAS 300 PTEFVVPFAK YQKALYGNQI SLGMRFRMMF ETEELGTRRY MGTITGISDL DPVRWKNSQW 360 RNLQVGWDES AAGERRNRVS IWEIEPVAAP FFICPPPFFG SKRPRQLDDE SSEMENLLKR 420 AMPWLGEEIC IKDPQTQNTV MPGLSLVQWM NMNMQQNSSF GNSAMQSEYL RSLSNPNMQN 480 LGAADLSRQL NMQNQILQQN SIQFSSPKLP QQMQPVNELS KASLPLNQLG VGTKQQEQTQ 540 DPSSLQRQQQ SMNQLLPLSQ SQTNLVQAQV LIQNQMQQQQ QPPSMTQNLQ PAASQSLLLP 600 HQQQQQHQQQ KLVHQQQQLL LQQQQLQQQQ QNQQQLNKMA AQVPNLAPHQ LQLSDQQLQL 660 QLLQKLQQQH QSLLSQPGVT LAQLPLIQEQ QKLIIDMQQQ LSNSQSLSQQ QIMTQQSTKV 720 PSQATPPPPT GQQESQQKLP QKHVGFTDTS HTAIPPTTSV NAISAVGSPL MATGATHSVL 780 TDEIPSCSTS PSTANGNHLL QPVLGRNQQC SVINYEKLPQ STAPMSIPSS LEAVTATPRS 840 IKELPKLNSN VKQSVMASKL PNTGPVPQNL ANNAPPTDYL ETASSATSVW LSQADGLLHH 900 GFPMSNFNQQ QMFKDVAPET DIHGADPSNN TLFGINGDGQ LGFPMGADGF LSNGIDASKY 960 QNHISADIDG NYRIPKDGQQ EISSSMVSQS FGASDMAFNS IDSGMNDGGF VNRTSWPPAP 1020 PLKRMRTFTK VYKRGAVGRS IDISQFNGYD ELKHALARMF SMEGQLEERQ RIGWKLVYKD 1080 HEDDILLLGD DPWEEFVNCV KCIRILSPQE VQQMSLDGDL GNNILPNQAC SSSDGGNAWR 1140 ARCDQNSGNP STGSYDQFE*

Sequence ? help Back to Top

Protein Sequence Length: 1160 aa Download sequence Send to blast

MIKQHQQQQQ APPPQPMPAS SAAPPAPAVP AAATAPSGCE GEKKAPPINS ELWHACAGPL  60
VSLPPAGSLV VYFPQGHSEQ VAASMQKDVD GHVPSYPNLP SKLICLLHNV TLHADPETDE  120
VYAQMTLLPV TSYGKEALQL SELALKQPRP QTEFFCKTLT ASDTSTHGGF SVPRRAAEKI  180
FPPLDFSMQP PAQEIQARDL HDNVWTFRHI YRGQPKRHLL TTGWSLFVSG KRLFAGDSVI  240
FVRDERQQLL LGIRRANRQP TNISSSVLSS DSMHIGILAA AAHAAANNSP FTIFYNPRAS  300
PTEFVVPFAK YQKALYGNQI SLGMRFRMMF ETEELGTRRY MGTITGISDL DPVRWKNSQW  360
RNLQVGWDES AAGERRNRVS IWEIEPVAAP FFICPPPFFG SKRPRQLDDE SSEMENLLKR  420
AMPWLGEEIC IKDPQTQNTV MPGLSLVQWM NMNMQQNSSF GNSAMQSEYL RSLSNPNMQN  480
LGAADLSRQL NMQNQILQQN SIQFSSPKLP QQMQPVNELS KASLPLNQLG VGTKQQEQTQ  540
DPSSLQRQQQ SMNQLLPLSQ SQTNLVQAQV LIQNQMQQQQ QPPSMTQNLQ PAASQSLLLP  600
HQQQQQHQQQ KLVHQQQQLL LQQQQLQQQQ QNQQQLNKMA AQVPNLAPHQ LQLSDQQLQL  660
QLLQKLQQQH QSLLSQPGVT LAQLPLIQEQ QKLIIDMQQQ LSNSQSLSQQ QIMTQQSTKV  720
PSQATPPPPT GQQESQQKLP QKHVGFTDTS HTAIPPTTSV NAISAVGSPL MATGATHSVL  780
TDEIPSCSTS PSTANGNHLL QPVLGRNQQC SVINYEKLPQ STAPMSIPSS LEAVTATPRS  840
IKELPKLNSN VKQSVMASKL PNTGPVPQNL ANNAPPTDYL ETASSATSVW LSQADGLLHH  900
GFPMSNFNQQ QMFKDVAPET DIHGADPSNN TLFGINGDGQ LGFPMGADGF LSNGIDASKY  960
QNHISADIDG NYRIPKDGQQ EISSSMVSQS FGASDMAFNS IDSGMNDGGF VNRTSWPPAP  1020
PLKRMRTFTK VYKRGAVGRS IDISQFNGYD ELKHALARMF SMEGQLEERQ RIGWKLVYKD  1080
HEDDILLLGD DPWEEFVNCV KCIRILSPQE VQQMSLDGDL GNNILPNQAC SSSDGGNAWR  1140
ARCDQNSGNP STGSYDQFE*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-166	44	385	47	388	Auxin response factor 5
Search in ModeBase

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).

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.010G253300.1.p

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002437545.2	0.0	auxin response factor 19
Swissprot	Q0D9R7	0.0	ARFS_ORYSJ; Auxin response factor 19
TrEMBL	C5Z987	0.0	C5Z987_SORBI; Auxin response factor
STRING	Sb10g029130.1	0.0	(Sorghum bicolor)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1409	35	106
Representative plant	OGRP4193	11	25

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	Sobic.010G253300.1.p
Entrez Gene	8063839

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]