PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Protein Features |

3D Structure |

Gene Ontology |

Function |

Publication

Basic Information? help Back to Top

TF ID

NNU_012369-RA

Organism

Nelumbo nucifera

Taxonomic ID

4432

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; stem eudicotyledons; Proteales; Nelumbonaceae; Nelumbo

Family

ARF

Protein Properties

Length: 704aa MW: 77086.9 Da PI: 6.9999

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
NNU_012369-RA	genome	CAS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	76	4.2e-24	122	223	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 f k+lt+sd+++ g +++p+ +ae++ ++ + t++ +d +g++W++++iyr++++r++lt+GW+ Fv++++L +gD++vF + ++ NNU_012369-RA 122 FAKTLTQSDANNGGGFSVPRYCAETIfprldysADPPVQ--TVIAKDVHGEVWKFRHIYRGTPRRHLLTTGWSTFVNQKKLIAGDSIVFL--RAEN 213 89**************************996555555..8********************************************..4499 PP E..EEEEE-S CS B3 90 felvvkvfrk 99 +el+v+++r+ NNU_012369-RA 214 GELCVGIRRA 223 99****97 PP
2	Auxin_resp	119.5	2.6e-39	291	374	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 aa+ a+++++FevvY+Prast+eFvvk++ v++a++++++ GmRfkmafetedss++++ +Gt+++v+ +dp++WpnS+Wr+L+ NNU_012369-RA 291 AATLAANGQPFEVVYYPRASTPEFVVKASAVRAAMRIQWCSGMRFKMAFETEDSSRISWfMGTISSVQVADPIHWPNSPWRLLQ 374 68899*****************************************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	3.1E-37	114	226	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	1.28E-28	118	224	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	4.72E-22	121	222	No hit	No description
PROSITE profile	PS50863	13.14	122	224	IPR003340	B3 DNA binding domain
Pfam	PF02362	3.2E-22	122	223	IPR003340	B3 DNA binding domain
SMART	SM01019	6.5E-23	122	224	IPR003340	B3 DNA binding domain
Pfam	PF06507	4.4E-34	291	374	IPR010525	Auxin response factor
PROSITE profile	PS51745	20.853	618	698	IPR000270	PB1 domain

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: 704 aa Download sequence Send to blast
MITFTDSMKE PVKETEKCLD SQLWHACAGG MVQMPPVNSK VFYFPQGQSE HAHGNVDFGN 60 SQRIPALILC RVAAVKYMAD PETDEVYAKI RLVPLRNNEP EYDDDGVLGS NGSEVPEKPA 120 SFAKTLTQSD ANNGGGFSVP RYCAETIFPR LDYSADPPVQ TVIAKDVHGE VWKFRHIYRG 180 TPRRHLLTTG WSTFVNQKKL IAGDSIVFLR AENGELCVGI RRAKRGVGGG PESPSGWNPA 240 AGNCVSPYGG FSVFLREDEN KLMRNPNGGN SNSGGGLRAR GRVRPESVTE AATLAANGQP 300 FEVVYYPRAS TPEFVVKASA VRAAMRIQWC SGMRFKMAFE TEDSSRISWF MGTISSVQVA 360 DPIHWPNSPW RLLQVTWDEP DLLQNVKRVS PWLVELVSNM PAIHLSPFSP PRKKLRLPQH 420 PDFPLDGQFP IPPFSGNPLG PSSGPMCCLS DSTPAGIQGA RHAQFGISLS DLHLNKLQSG 480 LFPASFQRLD NNTTPPSRIP NSLSLVKGNP NSTENISCLL TMGSSTQSSK KSDSAKSPQF 540 LLFGQPILTE QQISLSCSGD MVSPVLTGNS SSDGNLDKTA NFSDGSASAL NQQGLADNSC 600 QGFPWYKDRP TTDLSLETGH CKVFMESEDV GRTLDLSVLG SYEELYRRLA NMFGIERSEM 660 LSHVFYRDAS GAVKHTGDEP FSEFMKTARR LTILMDSGSD NLGR

Sequence ? help Back to Top

Protein Sequence Length: 704 aa Download sequence Send to blast

MITFTDSMKE PVKETEKCLD SQLWHACAGG MVQMPPVNSK VFYFPQGQSE HAHGNVDFGN  60
SQRIPALILC RVAAVKYMAD PETDEVYAKI RLVPLRNNEP EYDDDGVLGS NGSEVPEKPA  120
SFAKTLTQSD ANNGGGFSVP RYCAETIFPR LDYSADPPVQ TVIAKDVHGE VWKFRHIYRG  180
TPRRHLLTTG WSTFVNQKKL IAGDSIVFLR AENGELCVGI RRAKRGVGGG PESPSGWNPA  240
AGNCVSPYGG FSVFLREDEN KLMRNPNGGN SNSGGGLRAR GRVRPESVTE AATLAANGQP  300
FEVVYYPRAS TPEFVVKASA VRAAMRIQWC SGMRFKMAFE TEDSSRISWF MGTISSVQVA  360
DPIHWPNSPW RLLQVTWDEP DLLQNVKRVS PWLVELVSNM PAIHLSPFSP PRKKLRLPQH  420
PDFPLDGQFP IPPFSGNPLG PSSGPMCCLS DSTPAGIQGA RHAQFGISLS DLHLNKLQSG  480
LFPASFQRLD NNTTPPSRIP NSLSLVKGNP NSTENISCLL TMGSSTQSSK KSDSAKSPQF  540
LLFGQPILTE QQISLSCSGD MVSPVLTGNS SSDGNLDKTA NFSDGSASAL NQQGLADNSC  600
QGFPWYKDRP TTDLSLETGH CKVFMESEDV GRTLDLSVLG SYEELYRRLA NMFGIERSEM  660
LSHVFYRDAS GAVKHTGDEP FSEFMKTARR LTILMDSGSD NLGR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldy_A	5e-76	19	395	19	353	Auxin response factor 1
4ldy_B	5e-76	19	395	19	353	Auxin response factor 1
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_010264667.1	0.0	PREDICTED: auxin response factor 18-like
Swissprot	Q653H7	0.0	ARFR_ORYSJ; Auxin response factor 18
TrEMBL	A0A1U8ACS1	0.0	A0A1U8ACS1_NELNU; Auxin response factor
STRING	XP_010264667.1	0.0	(Nelumbo nucifera)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G30080.1	0.0	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]