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

Sobic.001G278800.1.p

Common Name

Sb01g027430, SORBIDRAFT_01g027430

Organism

Sorghum bicolor

Taxonomic ID

4558

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum

Family

HD-ZIP

Protein Properties

Length: 255aa MW: 27769.6 Da PI: 8.2339

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.001G278800.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	57.9	1.7e-18	100	154	2	56
T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 rk+ +++keq Le++F+++++++ ++++ LA++l+L rqV vWFqNrRa+ k Sobic.001G278800.1.p 100 RKKLRLSKEQSALLEDHFKEHSTLNPKQKAALARQLNLRPRQVEVWFQNRRARTK 154 788899***********************************************98 PP
2	HD-ZIP_I/II	125.7	2.1e-40	100	188	1	90
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLre 89 +kk+rlskeq++lLE++F+e+++L+p++K++lar+L+l+prqv+vWFqnrRARtk+kq+E+d+e Lkr++++l+een+rL++e ++Lr Sobic.001G278800.1.p 100 RKKLRLSKEQSALLEDHFKEHSTLNPKQKAALARQLNLRPRQVEVWFQNRRARTKLKQTEVDCELLKRCCETLTEENRRLHRELQQLR- 187 69*************************************************************************************9. PP HD-ZIP_I/II 90 e 90 + Sobic.001G278800.1.p 188 A 188 3 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	7.52E-19	87	157	IPR009057	Homeodomain-like
PROSITE profile	PS50071	17.135	96	156	IPR001356	Homeobox domain
SMART	SM00389	5.2E-16	98	160	IPR001356	Homeobox domain
CDD	cd00086	4.26E-16	100	157	No hit	No description
Pfam	PF00046	7.2E-16	100	154	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	8.0E-18	100	154	IPR009057	Homeodomain-like
PROSITE pattern	PS00027	0	131	154	IPR017970	Homeobox, conserved site
Pfam	PF02183	2.1E-10	156	189	IPR003106	Leucine zipper, homeobox-associated
SMART	SM00340	3.4E-21	156	199	IPR003106	Leucine zipper, homeobox-associated

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 255 aa Download sequence Send to blast
MEQEEVGLAL GLSLGSGHHQ QLKEQPPPSS HPCALLEPTL SLSSLPAKDG LTTTPMRRIA 60 AVKRELQVEE DDEATDRALI YSVASSAVVT ADDDEGCNSR KKLRLSKEQS ALLEDHFKEH 120 STLNPKQKAA LARQLNLRPR QVEVWFQNRR ARTKLKQTEV DCELLKRCCE TLTEENRRLH 180 RELQQLRALS HPHPAAAFFM PAAAALSICP SCERIATGAS AAATTTGADR PNKAGGGPVR 240 APHLFSPFTK SAAC*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	98	104	SRKKLRL
2	148	156	RRARTKLKQ

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in seedlings, stems, leaf blades and panicles. {ECO:0000269\|PubMed:17999151}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.001G278800.1.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	BT054580	1e-178	BT054580.1 Zea mays full-length cDNA clone ZM_BFc0164J19 mRNA, complete cds.
GenBank	EU962030	1e-178	EU962030.1 Zea mays clone 239717 homeobox-leucine zipper protein HAT22 mRNA, complete cds.
GenBank	KJ727618	1e-178	KJ727618.1 Zea mays clone pUT5529 HB transcription factor (HB121) mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002464840.1	0.0	homeobox-leucine zipper protein HOX15
Swissprot	Q7G737	4e-83	HOX15_ORYSJ; Homeobox-leucine zipper protein HOX15
TrEMBL	C5WQI4	0.0	C5WQI4_SORBI; Uncharacterized protein
STRING	Sb01g027430.1	0.0	(Sorghum bicolor)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP2055	36	98
Representative plant	OGRP196	16	156

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G37790.1	8e-61	HD-ZIP family protein

Link Out ? help Back to Top
Phytozome	Sobic.001G278800.1.p
Entrez Gene	8055099

Publications ? help Back to Top
Rice Chromosome 10 Sequencing Consortium In-depth view of structure, activity, and evolution of rice chromosome 10. Science, 2003. 300(5625): p. 1566-9 [PMID:12791992]