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.7NG390500.1.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: 384aa MW: 41845.5 Da PI: 7.9395

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.7NG390500.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	128.8	2.1e-40	160	238	1	78
--SSTT-----TT--HHHHHTT--HHHHT-S-EE.ETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvl.vsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 +Cq+egC+adls+ak+yhrrhkvCe+hskapvv+ + gl+qrfCqqCsrfh l+efD++k+sCr+rLa+hn+rrrk+++ Pavir.7NG390500.1.p 160 RCQAEGCKADLSSAKRYHRRHKVCEHHSKAPVVVtAGGLHQRFCQQCSRFHLLDEFDDAKKSCRKRLADHNRRRRKSKP 238 6****************************98725689***********************************975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	1.3E-33	155	223	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	30.291	158	236	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	4.97E-37	159	239	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	7.5E-31	161	235	IPR004333	Transcription factor, SBP-box

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: 384 aa Download sequence Send to blast
MMNRSAAANA CDEFPYVFAS NPAPPSLLPI MDQESSIQRE QLGYNLEANS LALLPPSNAA 60 AAAAGHHHAT IAGHDILQFY PSSHYLAASG NPYSSHFSGS TFQPYYPQAQ AAPEYYFPTL 120 VSSAEENMAS FAATQLGLNL GYRTYFPPRG GFTYGHHPPR CQAEGCKADL SSAKRYHRRH 180 KVCEHHSKAP VVVTAGGLHQ RFCQQCSRFH LLDEFDDAKK SCRKRLADHN RRRRKSKPSD 240 ADAGDKKRAH GNKAAAAKDK AGSSSKNMDI GDGLGTQMLG SALLSKDQDQ AMDLGEVVKE 300 AVDPKGKASM PQHHGMHHQN HHGFPFHSSS AGSCFPQTQA VSGDTTSNIA QVQEPSLAFH 360 HQHHQHSNIL QLGQAMFDLD FEH*

Sequence ? help Back to Top

Protein Sequence Length: 384 aa Download sequence Send to blast

MMNRSAAANA CDEFPYVFAS NPAPPSLLPI MDQESSIQRE QLGYNLEANS LALLPPSNAA  60
AAAAGHHHAT IAGHDILQFY PSSHYLAASG NPYSSHFSGS TFQPYYPQAQ AAPEYYFPTL  120
VSSAEENMAS FAATQLGLNL GYRTYFPPRG GFTYGHHPPR CQAEGCKADL SSAKRYHRRH  180
KVCEHHSKAP VVVTAGGLHQ RFCQQCSRFH LLDEFDDAKK SCRKRLADHN RRRRKSKPSD  240
ADAGDKKRAH GNKAAAAKDK AGSSSKNMDI GDGLGTQMLG SALLSKDQDQ AMDLGEVVKE  300
AVDPKGKASM PQHHGMHHQN HHGFPFHSSS AGSCFPQTQA VSGDTTSNIA QVQEPSLAFH  360
HQHHQHSNIL QLGQAMFDLD FEH*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	7e-27	161	235	11	84	squamosa promoter binding protein-like 4
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	230	247	RRRRKSKPSDADAGDKKR
2	231	236	RRRKSK

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Developing leaves. Present at highest levels in very young ligules and auricles. Present pre- and post-ligule and auricle development.
Uniprot	TISSUE SPECIFICITY: Leaf ligular region, blade and sheath.

Functional Description ? help Back to Top
Source	Description
UniProt	Involved in the formation of ligules and auricles during leaf organogenesis.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.7NG390500.1.p

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	ZMU89496	0.0	U89496.1 Zea mays liguleless1 protein (liguleless1) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004960135.1	0.0	protein LIGULELESS 1
Swissprot	O04003	0.0	LG1_MAIZE; Protein LIGULELESS 1
TrEMBL	A0A3L6Q0D9	0.0	A0A3L6Q0D9_PANMI; Protein LIGULELESS 1-like
STRING	Pavir.Gb00284.1.p	0.0	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP6990	34	52

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G02065.1	1e-42	squamosa promoter binding protein-like 8

Link Out ? help Back to Top
Phytozome	Pavir.7NG390500.1.p

Publications ? help Back to Top
Sylvester AW,Cande WZ,Freeling M Division and differentiation during normal and liguleless-1 maize leaf development. Development, 1990. 110(3): p. 985-1000 [PMID:2088734]