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

XP_008242276.1

Organism

Prunus mume

Taxonomic ID

102107

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Amygdaleae; Prunus

Family

ARF

Protein Properties

Length: 1052aa MW: 117956 Da PI: 7.2158

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_008242276.1	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	71	1.5e-22	13	114	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++ W++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F +++ XP_008242276.1 13 FCKTLTASDTSTHGGFSVPRRAAEKIfppldfsM-QPPA-QELMAKDLHDSAWTFRHIYRGQPKRHLLTTGWSVFVSTKRLFAGDSVLFI--RDE 103 99***************************954.5444.48**********************************************..456 PP EE..EEEEE-S CS B3 89 efelvvkvfrk 99 + +l+++++r+ XP_008242276.1 104 KSQLLLGIRRA 114 77789999997 PP
2	Auxin_resp	122.5	3e-40	139	221	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aahaa+++s+F++++nPras+seFvv+++k++ka++++vs+GmRf+m+fete+s rr++Gt++g+sd+d+vrW+nS+Wr+L+ XP_008242276.1 139 AAHAAANNSPFTIFFNPRASPSEFVVPLAKYNKAMYTQVSLGMRFRMMFETEESGVRRYMGTITGISDMDTVRWKNSQWRNLQ 221 79*******************************************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	1.83E-43	4	142	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	3.5E-41	5	127	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	3.29E-18	12	113	No hit	No description
Pfam	PF02362	1.1E-20	13	114	IPR003340	B3 DNA binding domain
SMART	SM01019	6.1E-22	13	115	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	12.097	13	115	IPR003340	B3 DNA binding domain
Pfam	PF06507	2.6E-35	139	221	IPR010525	Auxin response factor
Pfam	PF02309	1.6E-8	919	1008	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	23.991	922	1015	IPR000270	PB1 domain
SuperFamily	SSF54277	9.16E-8	935	1000	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: 1052 aa Download sequence Send to blast
MGLKQSRQPS EFFCKTLTAS DTSTHGGFSV PRRAAEKIFP PLDFSMQPPA QELMAKDLHD 60 SAWTFRHIYR GQPKRHLLTT GWSVFVSTKR LFAGDSVLFI RDEKSQLLLG IRRANRQQPA 120 LSSSVMSSDS MHIGILAAAA HAAANNSPFT IFFNPRASPS EFVVPLAKYN KAMYTQVSLG 180 MRFRMMFETE ESGVRRYMGT ITGISDMDTV RWKNSQWRNL QVGWDESTAG ERPGRVSIWE 240 IEPVVTPFYI CPPPFFRPKF PKQPGMPDDE SDIENAFKRA MPWLGDDFGM KSAPNSIFPG 300 LSLVQWMNMQ QNNQFSAAQS GYFPSMVPPP GLQNNLSTDD PSKLLSFQAP VLSAPGVQLN 360 KSAPQNQVSQ VQQPTVTWPQ QQQQQQQLQQ LLHSPMNQQQ QSHPQQQQLQ QLLHSPMNQQ 420 QQNHPQQQQL QQLLQTPTSQ QLQNYSHQQQ QQQREQQQQQ ESQQLQQHQQ PHQQQPQHQP 480 PQRQQQQQQQ LQPTVVNNGV VAPNQIPGQN SHQPVMFSQL QQQQLQTGNT QSQQTVHSSS 540 KNSFQFTTGS QDSQLQQQQL EPQPSLLQRQ QQSAQLQQSS LQLLHQSMSQ KVQQQPQVQQ 600 SSQQGISEQQ LQLQLLQKLQ QQQQQQQLLS PSSPLLQPQL LQQQLAHQQN QQLQQLPLSQ 660 HHQQPLSGNS FSADKLLNNF SAPSLMQSQH ISSVQPQSQH KPLTAIRSHS GITEGDGPSC 720 STSPSTNNCQ MSPSNFLNRN QQGTAMLLGD SVAEPASNLV QELQSKSEIR IKHEFPSSKG 780 PDQIKYKGTI TDQLEASSSG TSYCLDASTI QQNYALPTFC LDSDVQSHPR NSLPFSANIE 840 GLAPDTLLSR GYDSQKDLQN LLSNYGGTPR DIETELSTAA ISSQSFGAAN LPFKPGCSSD 900 VAINEAGVLS NGLWANQAQR MRTYTKVQKR GSVGRCIDVT RYKGYNELRH DLARMFGIEG 960 QLEDPHRTDW KLVYVDHEND ILLVGDDPWE EFVGCVQSIK ILSSVEVQQM SLDGDLGNVP 1020 VPNQACSGSD SGNAWRAPYD DNSAASFNRN QK

Sequence ? help Back to Top

Protein Sequence Length: 1052 aa Download sequence Send to blast

MGLKQSRQPS EFFCKTLTAS DTSTHGGFSV PRRAAEKIFP PLDFSMQPPA QELMAKDLHD  60
SAWTFRHIYR GQPKRHLLTT GWSVFVSTKR LFAGDSVLFI RDEKSQLLLG IRRANRQQPA  120
LSSSVMSSDS MHIGILAAAA HAAANNSPFT IFFNPRASPS EFVVPLAKYN KAMYTQVSLG  180
MRFRMMFETE ESGVRRYMGT ITGISDMDTV RWKNSQWRNL QVGWDESTAG ERPGRVSIWE  240
IEPVVTPFYI CPPPFFRPKF PKQPGMPDDE SDIENAFKRA MPWLGDDFGM KSAPNSIFPG  300
LSLVQWMNMQ QNNQFSAAQS GYFPSMVPPP GLQNNLSTDD PSKLLSFQAP VLSAPGVQLN  360
KSAPQNQVSQ VQQPTVTWPQ QQQQQQQLQQ LLHSPMNQQQ QSHPQQQQLQ QLLHSPMNQQ  420
QQNHPQQQQL QQLLQTPTSQ QLQNYSHQQQ QQQREQQQQQ ESQQLQQHQQ PHQQQPQHQP  480
PQRQQQQQQQ LQPTVVNNGV VAPNQIPGQN SHQPVMFSQL QQQQLQTGNT QSQQTVHSSS  540
KNSFQFTTGS QDSQLQQQQL EPQPSLLQRQ QQSAQLQQSS LQLLHQSMSQ KVQQQPQVQQ  600
SSQQGISEQQ LQLQLLQKLQ QQQQQQQLLS PSSPLLQPQL LQQQLAHQQN QQLQQLPLSQ  660
HHQQPLSGNS FSADKLLNNF SAPSLMQSQH ISSVQPQSQH KPLTAIRSHS GITEGDGPSC  720
STSPSTNNCQ MSPSNFLNRN QQGTAMLLGD SVAEPASNLV QELQSKSEIR IKHEFPSSKG  780
PDQIKYKGTI TDQLEASSSG TSYCLDASTI QQNYALPTFC LDSDVQSHPR NSLPFSANIE  840
GLAPDTLLSR GYDSQKDLQN LLSNYGGTPR DIETELSTAA ISSQSFGAAN LPFKPGCSSD  900
VAINEAGVLS NGLWANQAQR MRTYTKVQKR GSVGRCIDVT RYKGYNELRH DLARMFGIEG  960
QLEDPHRTDW KLVYVDHEND ILLVGDDPWE EFVGCVQSIK ILSSVEVQQM SLDGDLGNVP  1020
VPNQACSGSD SGNAWRAPYD DNSAASFNRN QK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-123	3	242	148	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). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Involved in ethylene responses. Regulates lateral root formation through direct regulation of LBD16 and/or LBD29. Functionally redundant with ARF7. {ECO:0000269\|PubMed:12036261, ECO:0000269\|PubMed:16461383, ECO:0000269\|PubMed:17259263}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_008242276.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin and ethylene. {ECO:0000269\|PubMed:16461383}.

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_008242274.1	0.0	PREDICTED: auxin response factor 7 isoform X1
Swissprot	Q8RYC8	0.0	ARFS_ARATH; Auxin response factor 19
TrEMBL	A0A2L1GH25	0.0	A0A2L1GH25_9ROSA; Auxin response factor
STRING	XP_008242274.1	0.0	(Prunus mume)

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

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Perilli S, et al. RETINOBLASTOMA-RELATED protein stimulates cell differentiation in the Arabidopsis root meristem by interacting with cytokinin signaling. Plant Cell, 2013. 25(11): p. 4469-78 [PMID:24285791] Sun Y, et al. Manipulation of Auxin Response Factor 19 affects seed size in the woody perennial Jatropha curcas. Sci Rep, 2017. 7: p. 40844 [PMID:28102350] Wójcikowska B,Gaj MD Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis. Plant Cell Rep., 2017. 36(6): p. 843-858 [PMID:28255787] Olmo R, et al. Molecular Transducers from Roots Are Triggered in Arabidopsis Leaves by Root-Knot Nematodes for Successful Feeding Site Formation: A Conserved Post-Embryogenic De novo Organogenesis Program? Front Plant Sci, 2017. 8: p. 875 [PMID:28603536] Lee K,Seo PJ High-temperature promotion of callus formation requires the BIN2-ARF-LBD axis in Arabidopsis. Planta, 2017. 246(4): p. 797-802 [PMID:28766014] Ayala-Rodríguez JÁ,Barrera-Ortiz S,Ruiz-Herrera LF,López-Bucio J Folic acid orchestrates root development linking cell elongation with auxin response and acts independently of the TARGET OF RAPAMYCIN signaling in Arabidopsis thaliana. Plant Sci., 2017. 264: p. 168-178 [PMID:28969797] Nakamura M, et al. Auxin and ROP GTPase Signaling of Polar Nuclear Migration in Root Epidermal Hair Cells. Plant Physiol., 2018. 176(1): p. 378-391 [PMID:29084900] Hong L, et al. Alternative polyadenylation is involved in auxin-based plant growth and development. Plant J., 2018. 93(2): p. 246-258 [PMID:29155478] Lee K,Park OS,Seo PJ Arabidopsis ATXR2 deposits H3K36me3 at the promoters of LBD genes to facilitate cellular dedifferentiation. Sci Signal, 2018. [PMID:29184030] Kimura T, et al. Asymmetric Auxin Distribution is Not Required to Establish Root Phototropism in Arabidopsis. Plant Cell Physiol., 2018. 59(4): p. 823-835 [PMID:29401292] Schoenaers S, et al. The Auxin-Regulated CrRLK1L Kinase ERULUS Controls Cell Wall Composition during Root Hair Tip Growth. Curr. Biol., 2018. 28(5): p. 722-732.e6 [PMID:29478854] Huang KL, et al. The ARF7 and ARF19 Transcription Factors Positively Regulate PHOSPHATE STARVATION RESPONSE1 in Arabidopsis Roots. Plant Physiol., 2018. 178(1): p. 413-427 [PMID:30026290]