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

mrna22889.1-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

SBP

Protein Properties

Length: 1167aa MW: 127631 Da PI: 6.7294

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
mrna22889.1-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	SBP	128.8	2e-40	147	223	1	77
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 +Cqve+C+adls+ak+yhrrhkvC +hska+++lv +++qrfCqqCsrfh l+efDe+krsCrrrLa+hn+rrrk+ mrna22889.1-v1.0-hybrid 147 ACQVEDCRADLSNAKDYHRRHKVCVMHSKASEALVGNVMQRFCQQCSRFHVLKEFDEGKRSCRRRLAGHNKRRRKTL 223 5*************************************************************************975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	6.2E-32	142	209	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	31.59	145	222	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	6.28E-37	147	226	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	1.0E-28	148	221	IPR004333	Transcription factor, SBP-box
Gene3D	G3DSA:1.25.40.20	2.0E-6	908	1047	IPR020683	Ankyrin repeat-containing domain
SuperFamily	SSF48403	2.49E-8	934	1050	IPR020683	Ankyrin repeat-containing domain
CDD	cd00204	9.20E-8	939	1048	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 1167 aa Download sequence Send to blast
MEAFGAKGRG FYGPVATEMR GVGKRSLEWD LNDWKWDGDL FAASPLNSVL SDCRSRQLFP 60 AAPGTPSNAG LSNSCSSGSD DVSPGGNEKG KREVEKRRRG GAVENGQLND EARSLNLNLG 120 GQAYPIVEGE GNAGKKTKIA GNSNRAACQV EDCRADLSNA KDYHRRHKVC VMHSKASEAL 180 VGNVMQRFCQ QCSRFHVLKE FDEGKRSCRR RLAGHNKRRR KTLPDTADFR PYGAARVRAS 240 TPADSSSFPD HFPSPASPPN SSFPARSPKT SNLGDLAGKL EFGGLAGDGK WSGKLLESAG 300 VEACPHRRRT LLSFLSEIQS VALIVVVGGV DEHLCSLPSI TGVKLVSYME LVSQFSGQID 360 LFEVLGDLAG KLQFGGLAGG WKVVGEAAGV CWGGDAPSPA PYANSSDQAK DQDLLSHLLK 420 SLASLAGTVD GRNISALLQA SQGLPNTGSS VKTAQQVPDT VSNVYEPSRP SVSASSMDDC 480 VIIEEPLRPV GQCLKSPASD MQKRGFSVDG DLGSQILSGL QGSKPLPSRE SALTKAVTPD 540 YGRIQLLEID LNSPYDDSHD DLENLGSCHV PINPGIHHDS HKSSPPQTSR NSDSTFTQSP 600 SSSSGESQNR TDRIVFKLFG KDPNELPYVL RSQIIDWLSH SPTEIESYIR PGCIVLTIYL 660 RLEKSMWEEL CCHLGSNLQK LLDAANDPFW RTGWIYTRMQ HFVAFMYNGQ VVLDAPLPLK 720 SHKSSRISSI KPIAVSSSER AQFVVKGFNL PHSTRLLCAL EGKYLAQEAC DDLMDGADTT 780 VEHDELQCLK FSCSIPNVTG RGFIEVEDLG LSSNFFPFVV AEQEVCSEIC MLEDVIEAAE 840 TADDIQAEPE ILETKNRAMD FIHELGWLLH RSHVKFRLGH LDPNLDLFPF GRFKLLMEFS 900 VDHDWCAVVK KLLKLLFDRT VDAGEHSSVE LALLDMALLH RAVQRNSRPM VELLLRFVPD 960 KGLESEQKKQ VEGEGNNFLF KPDGVGPLGL TPLHVAASID GCEHVLDALT DDPGKVGIEA 1020 WKNARDSTGM TPYDYASMQG RYSYINLIQR KISKKLESGH VVVDIPGTIL ESNSKQKQSD 1080 GHRSSKVASF DTEKFDIKAL MRGDCKLCSQ KLAYGSRRSL VYRPAMLSMV AIAAVCVCVA 1140 LLFKSTPEVV FIFHPFRWEH LKFGSS*

Sequence ? help Back to Top

Protein Sequence Length: 1167 aa Download sequence Send to blast

MEAFGAKGRG FYGPVATEMR GVGKRSLEWD LNDWKWDGDL FAASPLNSVL SDCRSRQLFP  60
AAPGTPSNAG LSNSCSSGSD DVSPGGNEKG KREVEKRRRG GAVENGQLND EARSLNLNLG  120
GQAYPIVEGE GNAGKKTKIA GNSNRAACQV EDCRADLSNA KDYHRRHKVC VMHSKASEAL  180
VGNVMQRFCQ QCSRFHVLKE FDEGKRSCRR RLAGHNKRRR KTLPDTADFR PYGAARVRAS  240
TPADSSSFPD HFPSPASPPN SSFPARSPKT SNLGDLAGKL EFGGLAGDGK WSGKLLESAG  300
VEACPHRRRT LLSFLSEIQS VALIVVVGGV DEHLCSLPSI TGVKLVSYME LVSQFSGQID  360
LFEVLGDLAG KLQFGGLAGG WKVVGEAAGV CWGGDAPSPA PYANSSDQAK DQDLLSHLLK  420
SLASLAGTVD GRNISALLQA SQGLPNTGSS VKTAQQVPDT VSNVYEPSRP SVSASSMDDC  480
VIIEEPLRPV GQCLKSPASD MQKRGFSVDG DLGSQILSGL QGSKPLPSRE SALTKAVTPD  540
YGRIQLLEID LNSPYDDSHD DLENLGSCHV PINPGIHHDS HKSSPPQTSR NSDSTFTQSP  600
SSSSGESQNR TDRIVFKLFG KDPNELPYVL RSQIIDWLSH SPTEIESYIR PGCIVLTIYL  660
RLEKSMWEEL CCHLGSNLQK LLDAANDPFW RTGWIYTRMQ HFVAFMYNGQ VVLDAPLPLK  720
SHKSSRISSI KPIAVSSSER AQFVVKGFNL PHSTRLLCAL EGKYLAQEAC DDLMDGADTT  780
VEHDELQCLK FSCSIPNVTG RGFIEVEDLG LSSNFFPFVV AEQEVCSEIC MLEDVIEAAE  840
TADDIQAEPE ILETKNRAMD FIHELGWLLH RSHVKFRLGH LDPNLDLFPF GRFKLLMEFS  900
VDHDWCAVVK KLLKLLFDRT VDAGEHSSVE LALLDMALLH RAVQRNSRPM VELLLRFVPD  960
KGLESEQKKQ VEGEGNNFLF KPDGVGPLGL TPLHVAASID GCEHVLDALT DDPGKVGIEA  1020
WKNARDSTGM TPYDYASMQG RYSYINLIQR KISKKLESGH VVVDIPGTIL ESNSKQKQSD  1080
GHRSSKVASF DTEKFDIKAL MRGDCKLCSQ KLAYGSRRSL VYRPAMLSMV AIAAVCVCVA  1140
LLFKSTPEVV FIFHPFRWEH LKFGSS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	4e-29	140	221	3	84	squamosa promoter binding protein-like 4
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'. {ECO:0000269\|PubMed:16554053}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	mrna22889.1-v1.0-hybrid

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_004297084.1	0.0	PREDICTED: squamosa promoter-binding-like protein 12
Swissprot	Q9S7P5	0.0	SPL12_ARATH; Squamosa promoter-binding-like protein 12
TrEMBL	A0A2P6QZK7	0.0	A0A2P6QZK7_ROSCH; Putative transcription factor SBP family
STRING	XP_004297084.1	0.0	(Fragaria vesca)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1539	34	95

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G47070.1	0.0	squamosa promoter binding protein-like 1

Link Out ? help Back to Top
Phytozome	mrna22889.1-v1.0-hybrid

Publications ? help Back to Top
Jung S, et al. Synteny conservation between the Prunus genome and both the present and ancestral Arabidopsis genomes. BMC Genomics, 2006. 7: p. 81 [PMID:16615871] Jorgensen SA,Preston JC Differential SPL gene expression patterns reveal candidate genes underlying flowering time and architectural differences in Mimulus and Arabidopsis. Mol. Phylogenet. Evol., 2014. 73: p. 129-39 [PMID:24508602] Chao LM, et al. Arabidopsis Transcription Factors SPL1 and SPL12 Confer Plant Thermotolerance at Reproductive Stage. Mol Plant, 2017. 10(5): p. 735-748 [PMID:28400323]