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

Pavir.J062800.2.p

Organism

Panicum virgatum

Taxonomic ID

38727

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum

Family

SBP

Protein Properties

Length: 791aa MW: 86692.4 Da PI: 6.2458

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.J062800.2.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	82.2	7e-26	1	53	26	78
HHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 26 vhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 +h+ka++++v ++ qrfCqqCsrfh l+efDe+krsCrrrLa+hn+rrrk+++ Pavir.J062800.2.p 1 MHAKASTAVVGNTVQRFCQQCSRFHLLQEFDEGKRSCRRRLAGHNRRRRKTRP 53 69************************************************875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51141	21.939	1	51	IPR004333	Transcription factor, SBP-box
Gene3D	G3DSA:4.10.1100.10	1.7E-15	1	38	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	6.15E-23	1	55	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	2.2E-17	1	50	IPR004333	Transcription factor, SBP-box
CDD	cd00204	1.49E-9	547	677	No hit	No description
SuperFamily	SSF48403	4.2E-8	571	677	IPR020683	Ankyrin repeat-containing domain
SMART	SM00248	0.34	572	601	IPR002110	Ankyrin repeat
Gene3D	G3DSA:1.25.40.20	5.3E-8	574	676	IPR020683	Ankyrin repeat-containing domain
SMART	SM00248	710	618	648	IPR002110	Ankyrin repeat

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
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: 791 aa Download sequence Send to blast
MHAKASTAVV GNTVQRFCQQ CSRFHLLQEF DEGKRSCRRR LAGHNRRRRK TRPDIAIGGT 60 ASIEDKVSNY LLLSLIGICA NLNSDSVQHS NSQELLSTLL KNLGSVAKSL EPKELCKLLE 120 AYQSLQNGSN AGTSGTTNAA EEAAGPSNSK LPFGNGSHRG QASSSVVPVQ SKATVVVTPE 180 PASCKLKDFD LNDTCNDMEG FEDGQEGSPT PAFKAADSPN CASWMQQDST QSPPQTSGNS 240 DSTSTQSLSS SNGDAQCRTD KIVFKLFNKV PSDLPPVLRS QILGWLSSSP TDIESYIRPG 300 CIILTVYLRL VESAWRELSG NMSLHLDKLL NSSTDNFWAS GLVFVMVRQQ LAFMHNGQIM 360 LDRPLAPSSH QYCKILRVRP VAAPYSATIN FRVEGFNLLS TSSRVICSYE GCCIFQEDTD 420 TVADDAEDIE CLSFCCSVPG SRGRGFIEVE DSGFSNGFFP FIIAEKDVCS EVSELESIFE 480 SSSDEYAVVD DNARDQALEF LNELGWLLHR ANRMSKQAET DTPLAAFNMW RFRKLGIFAM 540 EREWCAVVEM LLNFLFIGLV DLGSQSPEEM VLSENLLHAA VRRKSVKMVR FLLRYKPNKN 600 SKGTAQTYLF RPDALGPLTI TPLHIAAATS DAEDVLDALT DDPGLVGISA WSNARDETGF 660 TPEDYARQRG NDAYLNLVHK KIDKHLGKGH VVLGVPSSMC SVIPDGAKPG DVSLEICRPM 720 SASVPRCLLC TQQARVYPNS GARTFLYRPA MLTVMGVAVV CVCVGILLHT FPRVYAAPTF 780 RWELLERGPM *

Sequence ? help Back to Top

Protein Sequence Length: 791 aa Download sequence Send to blast

MHAKASTAVV GNTVQRFCQQ CSRFHLLQEF DEGKRSCRRR LAGHNRRRRK TRPDIAIGGT  60
ASIEDKVSNY LLLSLIGICA NLNSDSVQHS NSQELLSTLL KNLGSVAKSL EPKELCKLLE  120
AYQSLQNGSN AGTSGTTNAA EEAAGPSNSK LPFGNGSHRG QASSSVVPVQ SKATVVVTPE  180
PASCKLKDFD LNDTCNDMEG FEDGQEGSPT PAFKAADSPN CASWMQQDST QSPPQTSGNS  240
DSTSTQSLSS SNGDAQCRTD KIVFKLFNKV PSDLPPVLRS QILGWLSSSP TDIESYIRPG  300
CIILTVYLRL VESAWRELSG NMSLHLDKLL NSSTDNFWAS GLVFVMVRQQ LAFMHNGQIM  360
LDRPLAPSSH QYCKILRVRP VAAPYSATIN FRVEGFNLLS TSSRVICSYE GCCIFQEDTD  420
TVADDAEDIE CLSFCCSVPG SRGRGFIEVE DSGFSNGFFP FIIAEKDVCS EVSELESIFE  480
SSSDEYAVVD DNARDQALEF LNELGWLLHR ANRMSKQAET DTPLAAFNMW RFRKLGIFAM  540
EREWCAVVEM LLNFLFIGLV DLGSQSPEEM VLSENLLHAA VRRKSVKMVR FLLRYKPNKN  600
SKGTAQTYLF RPDALGPLTI TPLHIAAATS DAEDVLDALT DDPGLVGISA WSNARDETGF  660
TPEDYARQRG NDAYLNLVHK KIDKHLGKGH VVLGVPSSMC SVIPDGAKPG DVSLEICRPM  720
SASVPRCLLC TQQARVYPNS GARTFLYRPA MLTVMGVAVV CVCVGILLHT FPRVYAAPTF  780
RWELLERGPM *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	1e-17	1	50	35	84	squamosa promoter binding protein-like 4
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pvr.835	0.0	callus\| leaf\| root\| stem

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Ubiquitous. {ECO:0000269\|PubMed:16861571}.

Functional Description ? help Back to Top
Source	Description
UniProt	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'. {ECO:0000250}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00633	PBM	Transfer from PK06791.1	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.J062800.2.p

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	BT038852	0.0	BT038852.1 Zea mays full-length cDNA clone ZM_BFb0336G12 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025793312.1	0.0	squamosa promoter-binding-like protein 6
Swissprot	Q75LH6	0.0	SPL6_ORYSJ; Squamosa promoter-binding-like protein 6
TrEMBL	A0A2S3IGN3	0.0	A0A2S3IGN3_9POAL; Uncharacterized protein
STRING	Pavir.J01500.1.p	0.0	(Panicum virgatum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G47070.1	1e-179	squamosa promoter binding protein-like 1

Link Out ? help Back to Top
Phytozome	Pavir.J062800.2.p

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]