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

WALNUT_00005339-RA

Organism

Juglans regia

Taxonomic ID

51240

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Juglandaceae; Juglans

Family

SBP

Protein Properties

Length: 803aa MW: 89634.3 Da PI: 6.5042

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
WALNUT_00005339-RA	genome	JHU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	117.2	8.4e-37	139	214	1	76
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkk 76 +Cqv+gCead+se+k yhrrh+vC ++++a++v+++g +r+CqqC++fh ls+fDe+krsCrr+L++hn+rrr+k WALNUT_00005339-RA 139 RCQVPGCEADISELKGYHRRHRVCLQCAHASSVVLDGDAKRYCQQCGKFHILSDFDEGKRSCRRKLERHNNRRRRK 214 6************************************************************************997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	2.1E-28	135	201	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	29.804	137	214	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	1.44E-33	138	217	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	1.0E-27	140	214	IPR004333	Transcription factor, SBP-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0055070	Biological Process	copper ion homeostasis
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 803 aa Download sequence Send to blast
METPPVPRSP EPTVSEQMEA VHPTVAEEDP SSALWDFDDL LDFNVDEHFS ISLDHDHHHD 60 QPPFSPEALE LPPEDPDDST NNRIRKRDPR LICSNFLAGR VPCACPELDE QMEMEESAPG 120 KKRVRTARTS TRTPRAAARC QVPGCEADIS ELKGYHRRHR VCLQCAHASS VVLDGDAKRY 180 CQQCGKFHIL SDFDEGKRSC RRKLERHNNR RRRKPGDSKV AMENEPQGLM QTEDVPCDDG 240 LYWSSPIAET EAALESEDGQ VTTLGSALDS QNIPTDTVAS FAASGETQMQ GGKDNTKCSP 300 SPLYYDNKTP YSSLCPTGRI SFKLYDWNPA EFPRRLRHQI FQWLSNMPVE LEGYIRPGCT 360 ILTLFVAMPK FMWVKLSEDP ISYLHDFVVA PGRMLSGRGT ILVFINDMIL LVMKGRPYVM 420 KVKVEVKVPR LHYVHPICFE AGKPLQFVTC GSNLLQSKLR FLVSFAGKYL MDDYCVAPLH 480 GQTEGDSTSS CNHQLYKIHV PQTEPDLFGP AFVEVENESG LSNFIPILIG DKETCAEMEI 540 LQQRFDASLF LKGSEIAAFG PLTDSCDVSA LRQSTFAEFL LDIAWLLKDP ASENFEKPIT 600 ASQIQRFNNI LSFLICNDST SILEKLLKKL KIVLNNMKFD SIVNGTFDAD LSLLKKYTDN 660 AREILHKKHK KRESSVLQSG SVPKGNSISQ NASEDNALLV NGQDTEIIAN AKVVGALTCS 720 ASSGRSETVP LLNGEVVMNV KHLKEWPRKS CGHIGSGTVF RSRPSIFVIS FAAVCLGICA 780 VLLHPHKVGQ FAVSIRRCLL DRI

Sequence ? help Back to Top

Protein Sequence Length: 803 aa Download sequence Send to blast

METPPVPRSP EPTVSEQMEA VHPTVAEEDP SSALWDFDDL LDFNVDEHFS ISLDHDHHHD  60
QPPFSPEALE LPPEDPDDST NNRIRKRDPR LICSNFLAGR VPCACPELDE QMEMEESAPG  120
KKRVRTARTS TRTPRAAARC QVPGCEADIS ELKGYHRRHR VCLQCAHASS VVLDGDAKRY  180
CQQCGKFHIL SDFDEGKRSC RRKLERHNNR RRRKPGDSKV AMENEPQGLM QTEDVPCDDG  240
LYWSSPIAET EAALESEDGQ VTTLGSALDS QNIPTDTVAS FAASGETQMQ GGKDNTKCSP  300
SPLYYDNKTP YSSLCPTGRI SFKLYDWNPA EFPRRLRHQI FQWLSNMPVE LEGYIRPGCT  360
ILTLFVAMPK FMWVKLSEDP ISYLHDFVVA PGRMLSGRGT ILVFINDMIL LVMKGRPYVM  420
KVKVEVKVPR LHYVHPICFE AGKPLQFVTC GSNLLQSKLR FLVSFAGKYL MDDYCVAPLH  480
GQTEGDSTSS CNHQLYKIHV PQTEPDLFGP AFVEVENESG LSNFIPILIG DKETCAEMEI  540
LQQRFDASLF LKGSEIAAFG PLTDSCDVSA LRQSTFAEFL LDIAWLLKDP ASENFEKPIT  600
ASQIQRFNNI LSFLICNDST SILEKLLKKL KIVLNNMKFD SIVNGTFDAD LSLLKKYTDN  660
AREILHKKHK KRESSVLQSG SVPKGNSISQ NASEDNALLV NGQDTEIIAN AKVVGALTCS  720
ASSGRSETVP LLNGEVVMNV KHLKEWPRKS CGHIGSGTVF RSRPSIFVIS FAAVCLGICA  780
VLLHPHKVGQ FAVSIRRCLL DRI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul5_A	3e-41	136	218	2	84	squamosa promoter binding protein-like 7
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	200	212	RRKLERHNNRRRR

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that participates in reprogramming global gene expression during copper deficiency in order to improve the metal uptake and prioritize its distribution to copper proteins of major importance (Probable). Binds directly to 5'-GTAC-3' motifs in the microRNA (miRNA) promoter of the stress-responsive miRNAs miR398b and miR398c to activate their transcription. During copper deficiency, activates the copper transporters COPT1 and COPT2, and the copper chaperone CCH, directly or indirectly via miRNAs. Required for the expression of the miRNAs miR397, miR408 and miR857 (PubMed:19122104). Acts coordinately with HY5 to regulate miR408 and its target genes in response to changes in light and copper conditions (PubMed:25516599). Activates miR857 and its target genes in response to low copper conditions (PubMed:26511915). Involved in cadmium stress response by regulating miR397a, miR398b, miR398c and miR857 (PubMed:27352843). Required for iron homeostasis during copper deficiency (PubMed:22374396). {ECO:0000269\|PubMed:19122104, ECO:0000269\|PubMed:22374396, ECO:0000269\|PubMed:25516599, ECO:0000269\|PubMed:26511915, ECO:0000269\|PubMed:27352843}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00604	PBM	Transfer from AT5G18830	Download

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018826031.1	0.0	PREDICTED: squamosa promoter-binding-like protein 7 isoform X2
Swissprot	Q8S9G8	0.0	SPL7_ARATH; Squamosa promoter-binding-like protein 7
TrEMBL	A0A2I4F305	0.0	A0A2I4F305_JUGRE; squamosa promoter-binding-like protein 7 isoform X2
STRING	VIT_05s0020g02160.t01	0.0	(Vitis vinifera)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF6470	34	50

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G18830.1	0.0	squamosa promoter binding protein-like 7

Publications ? help Back to Top
Zhang H, et al. MicroRNA408 is critical for the HY5-SPL7 gene network that mediates the coordinated response to light and copper. Plant Cell, 2014. 26(12): p. 4933-53 [PMID:25516599] Zhao Y, et al. MicroRNA857 Is Involved in the Regulation of Secondary Growth of Vascular Tissues in Arabidopsis. Plant Physiol., 2015. 169(4): p. 2539-52 [PMID:26511915] Perea-García A, et al. Modulation of copper deficiency responses by diurnal and circadian rhythms in Arabidopsis thaliana. J. Exp. Bot., 2016. 67(1): p. 391-403 [PMID:26516126] Gielen H,Remans T,Vangronsveld J,Cuypers A Toxicity responses of Cu and Cd: the involvement of miRNAs and the transcription factor SPL7. BMC Plant Biol., 2016. 16(1): p. 145 [PMID:27352843] Yan J, et al. Arabidopsis Pollen Fertility Requires the Transcription Factors CITF1 and SPL7 That Regulate Copper Delivery to Anthers and Jasmonic Acid Synthesis. Plant Cell, 2017. 29(12): p. 3012-3029 [PMID:29114014] Araki R, et al. SPL7 locally regulates copper-homeostasis-related genes in Arabidopsis. J. Plant Physiol., 2018. [PMID:29635212]