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

mrna31023.1-v1.0-hybrid

Organism

Fragaria vesca

Taxonomic ID

57918

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria

Family

C3H

Protein Properties

Length: 1131aa MW: 125125 Da PI: 8.5589

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
mrna31023.1-v1.0-hybrid	genome	GDR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	23.3	1.1e-07	94	115	4	26
---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHg 26 + C++f++ G+Ck Gd+C FaHg mrna31023.1-v1.0-hybrid 94 SACPDFRK-GHCKKGDSCEFAHG 115 67****.***********9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	6.3E-5	90	116	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.826	91	117	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.8E-5	94	117	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.4E-5	94	115	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	6.615	125	149	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	13	125	148	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF103473	9.68E-25	559	785	IPR020846	Major facilitator superfamily domain
PROSITE pattern	PS01022	0	625	649	IPR018456	PTR2 family proton/oligopeptide symporter, conserved site
Pfam	PF00854	6.1E-101	636	1075	IPR000109	Proton-dependent oligopeptide transporter family
SuperFamily	SSF103473	9.68E-25	866	1116	IPR020846	Major facilitator superfamily domain
CDD	cd06174	7.93E-4	882	1100	IPR020846	Major facilitator superfamily domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006857	Biological Process	oligopeptide transport
GO:0009611	Biological Process	response to wounding
GO:0009753	Biological Process	response to jasmonic acid
GO:0016020	Cellular Component	membrane
GO:0005215	Molecular Function	transporter activity
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 1131 aa Download sequence Send to blast
MASDSPTSPN SPYLPSEEAL SAALRRYLPS NNEGSDPDPD SPVDAYSGDH FRMFEFKVRR 60 CARGRSHDWT DCPFAHPGEE AQRRDPRKFH YSGSACPDFR KGHCKKGDSC EFAHGVFECW 120 LHPARYRTQP CKDGTSCKRR VCFFAHTPEQ LRVLPQQSPR GSNSPPMTRS VSRSLGLSSV 180 SEMVASLRKV KSLPTSWNVQ VGLVGSVGSP GFVSPRGSML QPGFCSLPST PTRIPTCSTA 240 GVLDFCDEGG TPVIQTGNVE GSRIRRMLAG IRLASPISMG DTLVIQTGDV ETGHLLTGSR 300 FGVGRSDITP MNDDFRMYIA NAEPQTGNYP LPLEISGDNS HLVRPLEQHL RSNCFVKLFV 360 TSEILGMVFE IIYQESHIMA YFFIWFVCAM IAMYVARLLA MIEGGMANRE QFAVYLRCFS 420 FLLLELLQYW GIHQGNYITA LKIILRVTGA IIGWWVVGVL QSYMDAFVNG KPPREFCAAV 480 ADLLEAQRAQ LLCSPSPSSA IPYVPSRDQS DGNDDKEKSQ IAYFFKRFFL LVNIVTLMAV 540 TEEKMSWTAA DAVDYKGFPA DKSRTGGWVS AALILGIEIC ERLSTMGIAV NLVTYLVGTM 600 HLPSSTSANI VTDFAGTSFL LCLLGGFLAD SFLGRYKTIA IFASIQSLGI VALAISVKLP 660 QLRPPHCDIT AANNDCQQAN EFQMGFLYLA LYMIALGIGG LKSSVSGFGT DQFDDKDDKE 720 KAQMAYFFNR FFFFISTGTL MAVTVLVYIQ DQVDRSLAYG ICSISMFIAI LVFFSGTKRY 780 RYKKSTGSPI VQIFQVIVAA VRKRKMPLPF DVALLYENYP EASRICHTDQ FRVDTHPVQF 840 SVSFLDKAAI VAEEDFERNA PAGSLPNPWK LCSVTRVEEV KMMVKLLPIW ATTIMFWTAY 900 AQMLTFSVEQ ASTMERSIGK FQIPAGSLTV FFVLAILITL AVNDRIIMPV WKKWKGQPGF 960 TNLQRIAIGL VLSTLGMAAA ALTEKKRLLV AKGMKTMSTG ALPISVYWLI PQFFLVGSGE 1020 AFIYTGQLDF FITQSPKGMK TMSTGLFLST IALGFFVSSF LVSIVRRFTG SKDGQGWLAD 1080 NINYGRLDCF YGLLSVLSVI NFVAYLVCAR WYKPRKPTKP SNGSSAEDKC *

Sequence ? help Back to Top

Protein Sequence Length: 1131 aa Download sequence Send to blast

MASDSPTSPN SPYLPSEEAL SAALRRYLPS NNEGSDPDPD SPVDAYSGDH FRMFEFKVRR  60
CARGRSHDWT DCPFAHPGEE AQRRDPRKFH YSGSACPDFR KGHCKKGDSC EFAHGVFECW  120
LHPARYRTQP CKDGTSCKRR VCFFAHTPEQ LRVLPQQSPR GSNSPPMTRS VSRSLGLSSV  180
SEMVASLRKV KSLPTSWNVQ VGLVGSVGSP GFVSPRGSML QPGFCSLPST PTRIPTCSTA  240
GVLDFCDEGG TPVIQTGNVE GSRIRRMLAG IRLASPISMG DTLVIQTGDV ETGHLLTGSR  300
FGVGRSDITP MNDDFRMYIA NAEPQTGNYP LPLEISGDNS HLVRPLEQHL RSNCFVKLFV  360
TSEILGMVFE IIYQESHIMA YFFIWFVCAM IAMYVARLLA MIEGGMANRE QFAVYLRCFS  420
FLLLELLQYW GIHQGNYITA LKIILRVTGA IIGWWVVGVL QSYMDAFVNG KPPREFCAAV  480
ADLLEAQRAQ LLCSPSPSSA IPYVPSRDQS DGNDDKEKSQ IAYFFKRFFL LVNIVTLMAV  540
TEEKMSWTAA DAVDYKGFPA DKSRTGGWVS AALILGIEIC ERLSTMGIAV NLVTYLVGTM  600
HLPSSTSANI VTDFAGTSFL LCLLGGFLAD SFLGRYKTIA IFASIQSLGI VALAISVKLP  660
QLRPPHCDIT AANNDCQQAN EFQMGFLYLA LYMIALGIGG LKSSVSGFGT DQFDDKDDKE  720
KAQMAYFFNR FFFFISTGTL MAVTVLVYIQ DQVDRSLAYG ICSISMFIAI LVFFSGTKRY  780
RYKKSTGSPI VQIFQVIVAA VRKRKMPLPF DVALLYENYP EASRICHTDQ FRVDTHPVQF  840
SVSFLDKAAI VAEEDFERNA PAGSLPNPWK LCSVTRVEEV KMMVKLLPIW ATTIMFWTAY  900
AQMLTFSVEQ ASTMERSIGK FQIPAGSLTV FFVLAILITL AVNDRIIMPV WKKWKGQPGF  960
TNLQRIAIGL VLSTLGMAAA ALTEKKRLLV AKGMKTMSTG ALPISVYWLI PQFFLVGSGE  1020
AFIYTGQLDF FITQSPKGMK TMSTGLFLST IALGFFVSSF LVSIVRRFTG SKDGQGWLAD  1080
NINYGRLDCF YGLLSVLSVI NFVAYLVCAR WYKPRKPTKP SNGSSAEDKC *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4oh3_A	0.0	538	1129	1	583	Nitrate transporter 1.1
4oh3_B	0.0	538	1129	1	583	Nitrate transporter 1.1
5a2n_A	0.0	538	1129	1	583	PROTEIN NRT1/ PTR FAMILY 6.3
5a2n_B	0.0	538	1129	1	583	PROTEIN NRT1/ PTR FAMILY 6.3
5a2o_A	0.0	538	1129	1	583	NITRATE TRANSPORTER 1.1
5a2o_B	0.0	538	1129	1	583	NITRATE TRANSPORTER 1.1
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Low-affinity proton-dependent nitrate transporter. Not involved in dipeptides transport. {ECO:0000269\|PubMed:15509836}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	mrna31023.1-v1.0-hybrid

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up-regulated in the shoots by nitrate, but no changes in the roots. {ECO:0000269\|PubMed:12668777}.

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_011458172.1	0.0	PREDICTED: protein NRT1/ PTR FAMILY 6.2
Swissprot	Q9SZY4	0.0	PTR27_ARATH; Protein NRT1/ PTR FAMILY 6.2
TrEMBL	A0A2P6RJ17	0.0	A0A2P6RJ17_ROSCH; Putative proton-dependent oligopeptide transporter family, major facilitator superfamily
STRING	XP_004288806.1	0.0	(Fragaria vesca)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G19810.1	1e-86	C3H family protein

Link Out ? help Back to Top
Phytozome	mrna31023.1-v1.0-hybrid

Publications ? help Back to Top
Okamoto M,Vidmar JJ,Glass AD Regulation of NRT1 and NRT2 gene families of Arabidopsis thaliana: responses to nitrate provision. Plant Cell Physiol., 2003. 44(3): p. 304-17 [PMID:12668777] Chiu CC, et al. Mutation of a nitrate transporter, AtNRT1:4, results in a reduced petiole nitrate content and altered leaf development. Plant Cell Physiol., 2004. 45(9): p. 1139-48 [PMID:15509836] Deeken R, et al. An integrated view of gene expression and solute profiles of Arabidopsis tumors: a genome-wide approach. Plant Cell, 2006. 18(12): p. 3617-34 [PMID:17172353] Tsay YF,Chiu CC,Tsai CB,Ho CH,Hsu PK Nitrate transporters and peptide transporters. FEBS Lett., 2007. 581(12): p. 2290-300 [PMID:17481610] Lin SH, et al. Mutation of the Arabidopsis NRT1.5 nitrate transporter causes defective root-to-shoot nitrate transport. Plant Cell, 2008. 20(9): p. 2514-28 [PMID:18780802] Li JY, et al. The Arabidopsis nitrate transporter NRT1.8 functions in nitrate removal from the xylem sap and mediates cadmium tolerance. Plant Cell, 2010. 22(5): p. 1633-46 [PMID:20501909] Léran S, et al. A unified nomenclature of NITRATE TRANSPORTER 1/PEPTIDE TRANSPORTER family members in plants. Trends Plant Sci., 2014. 19(1): p. 5-9 [PMID:24055139]