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.001G476300.1.p

Common Name

Sb01g044620, SORBIDRAFT_01g044620

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: 325aa MW: 35365.9 Da PI: 4.5553

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.001G476300.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	58.6	1.1e-18	71	123	4	56
-SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 4 RttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 ++++ +eq+++Le++Fe +++++ ++++++A+ l L+ rqV vWFqNrRa++k Sobic.001G476300.1.p 71 KRRLLQEQVRALERCFETDNKLDPDRKARIARDLALQPRQVAVWFQNRRARWK 123 456789**********************************************9 PP
2	HD-ZIP_I/II	123.4	1.1e-39	69	161	1	93
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLre 89 ekkrrl +eqv++LE++Fe+++kL+p+rK+++ar+L lqprqvavWFqnrRAR+ktk lE+d++aL++++dal+++ ++L++++++L++ Sobic.001G476300.1.p 69 EKKRRLLQEQVRALERCFETDNKLDPDRKARIARDLALQPRQVAVWFQNRRARWKTKTLERDFSALRARHDALRADCDALRRDKDALAA 157 69**************************************************************************************9 PP HD-ZIP_I/II 90 elke 93 e++e Sobic.001G476300.1.p 158 EIRE 161 9986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	1.54E-17	64	125	IPR009057	Homeodomain-like
SMART	SM00389	2.6E-17	68	129	IPR001356	Homeobox domain
PROSITE profile	PS50071	15.937	69	125	IPR001356	Homeobox domain
CDD	cd00086	3.77E-16	70	125	No hit	No description
Pfam	PF00046	6.2E-16	71	123	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	9.6E-19	76	124	IPR009057	Homeodomain-like
PROSITE pattern	PS00027	0	100	123	IPR017970	Homeobox, conserved site
Pfam	PF02183	2.7E-13	125	166	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: 325 aa Download sequence Send to blast
MRRQSKRPTA SRESPETVEK LAFAEEEALT AGKMEPDEGE MDVDVDDEEE DELAGGRGAA 60 RSSPCGLGEK KRRLLQEQVR ALERCFETDN KLDPDRKARI ARDLALQPRQ VAVWFQNRRA 120 RWKTKTLERD FSALRARHDA LRADCDALRR DKDALAAEIR ELRQKLLSKA PEAAVKLEAT 180 TGNDAAEERQ TTAGAPPAGV CKDGSSDSDS SVVFNDVETS PYSGAAAFEQ PAFVGFDAPF 240 LDTSAAAPTG CSSPPVFEPK WQHGPTTYPF DSYKTCAGGG YGFTEEWLAS SDVIGNDGAA 300 GFFSEDHASS LNFSWCASGV QGWE*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Sbi.9105	0.0	panicle\| root

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in seedlings, roots, stems, leaf sheaths and 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.001G476300.1.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	JX469925	0.0	JX469925.1 Zea mays subsp. mays clone UT3181 HB-type transcription factor mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002465732.1	0.0	homeobox-leucine zipper protein HOX13 isoform X2
Swissprot	Q10QP3	1e-106	HOX13_ORYSJ; Homeobox-leucine zipper protein HOX13
TrEMBL	C5WUU6	0.0	C5WUU6_SORBI; Uncharacterized protein
STRING	Sb01g044620.1	0.0	(Sorghum bicolor)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP4283	31	70
Representative plant	OGRP14149	4	4

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G65310.2	4e-28	homeobox protein 5

Link Out ? help Back to Top
Phytozome	Sobic.001G476300.1.p
Entrez Gene	8057638

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]