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

Manes.03G189400.1.p

Organism

Manihot esculenta

Taxonomic ID

3983

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Crotonoideae; Manihoteae; Manihot

Family

SBP

Protein Properties

Length: 771aa MW: 86465.5 Da PI: 6.8509

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Manes.03G189400.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	116.9	1e-36	127	204	1	78
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 +Cqv+gCead+se+k yh+rh+vC +++a++v+++g+++r+CqqC++fh ls+fDe+krsCrr+L++hn+rrr+k++ Manes.03G189400.1.p 127 RCQVPGCEADISELKGYHKRHRVCLRCANASSVVLDGESKRYCQQCGKFHLLSDFDEGKRSCRRKLERHNNRRRRKSH 204 6*************************************************************************9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	5.6E-29	122	189	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	29.889	125	202	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	1.09E-33	126	205	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	1.1E-27	128	202	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: 771 aa Download sequence Send to blast
METSSPTSPG APRPMLHDME IRPPMFEDPS SSALWDWGDL LDFTVDDQFP ISFDSVDDST 60 NIEVNHIEAT PVPDRVRKRD PRLTCSNFLA GRVPCACPEL DEKLEEEEVV PGKKRARTTR 120 STAGVARCQV PGCEADISEL KGYHKRHRVC LRCANASSVV LDGESKRYCQ QCGKFHLLSD 180 FDEGKRSCRR KLERHNNRRR RKSHDSKGAA DKEPQRELLS EDAACDGEAG KDCQIVEKEA 240 MVESEDGNIS SLHSAPNSQN VNSDSGLSVG SPNPKDGVKD DSKFLHSPFN CDNKSSYSSV 300 CPTGRISFKL YDWNPAEFPR RLRHQIFEWL ASMPVELEGY VRPGCTILTA FLSMPTFMWA 360 KLFEDPVSYV HDFVITPGKM LSKRSPMLVY LNNMIFRVMQ DGNSVLKVNL EGQAPRLHYV 420 HPSCFEAGKP IEFVACGSNL LQPKFRLLVS FAGKYLKYDY CVALPRGPTE GCSSLDHQLC 480 KIYIPHVDPN VFGPAFIEVE NESGLSNFIP VLIGNEEICS EMERIQHRLD SSQQASGSQC 540 KVSTHRQMAF SELVVDIAWL IKKPSLESFQ QKMSSSQIQR LNSLLNFLLH HESAAILDKI 600 LQNLKIILDE MEKKRVLYGI SDSDMSLLQK HMDSASNILQ QKVKQSDDVD ERDFRGCSES 660 DMPSVASFNN EDLEKSSNGK LGIMENSSAV VKSDRIPLLS KDVVMNVNLS KERPNKSCSL 720 VFSNRLMKSR PAIFLIATFT ICLGVCAILV HPNQVSKFAV SIRRCLTDRF *

Sequence ? help Back to Top

Protein Sequence Length: 771 aa Download sequence Send to blast

METSSPTSPG APRPMLHDME IRPPMFEDPS SSALWDWGDL LDFTVDDQFP ISFDSVDDST  60
NIEVNHIEAT PVPDRVRKRD PRLTCSNFLA GRVPCACPEL DEKLEEEEVV PGKKRARTTR  120
STAGVARCQV PGCEADISEL KGYHKRHRVC LRCANASSVV LDGESKRYCQ QCGKFHLLSD  180
FDEGKRSCRR KLERHNNRRR RKSHDSKGAA DKEPQRELLS EDAACDGEAG KDCQIVEKEA  240
MVESEDGNIS SLHSAPNSQN VNSDSGLSVG SPNPKDGVKD DSKFLHSPFN CDNKSSYSSV  300
CPTGRISFKL YDWNPAEFPR RLRHQIFEWL ASMPVELEGY VRPGCTILTA FLSMPTFMWA  360
KLFEDPVSYV HDFVITPGKM LSKRSPMLVY LNNMIFRVMQ DGNSVLKVNL EGQAPRLHYV  420
HPSCFEAGKP IEFVACGSNL LQPKFRLLVS FAGKYLKYDY CVALPRGPTE GCSSLDHQLC  480
KIYIPHVDPN VFGPAFIEVE NESGLSNFIP VLIGNEEICS EMERIQHRLD SSQQASGSQC  540
KVSTHRQMAF SELVVDIAWL IKKPSLESFQ QKMSSSQIQR LNSLLNFLLH HESAAILDKI  600
LQNLKIILDE MEKKRVLYGI SDSDMSLLQK HMDSASNILQ QKVKQSDDVD ERDFRGCSES  660
DMPSVASFNN EDLEKSSNGK LGIMENSSAV VKSDRIPLLS KDVVMNVNLS KERPNKSCSL  720
VFSNRLMKSR PAIFLIATFT ICLGVCAILV HPNQVSKFAV SIRRCLTDRF *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul5_A	5e-44	125	210	3	88	squamosa promoter binding protein-like 7
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	188	200	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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Manes.03G189400.1.p

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_021607121.1	0.0	squamosa promoter-binding-like protein 7
Swissprot	Q8S9G8	0.0	SPL7_ARATH; Squamosa promoter-binding-like protein 7
TrEMBL	A0A2C9WAE2	0.0	A0A2C9WAE2_MANES; Uncharacterized protein
STRING	cassava4.1_002120m	0.0	(Manihot esculenta)

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

Link Out ? help Back to Top
Phytozome	Manes.03G189400.1.p

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]