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.002G353800.1.p

Common Name

Sb02g037560, SORBIDRAFT_02g037560

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: 232aa MW: 25585.6 Da PI: 6.5147

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.002G353800.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	59.6	5.1e-19	56	109	3	56
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 k++++++eq+e Le F+++r++ + ++ +LA++lgL+ +qV vWFqNrRa++k Sobic.002G353800.1.p 56 KKRRLSDEQVEMLELSFREERKLETGRKVHLAAELGLDPKQVAVWFQNRRARHK 109 45589***********************************************99 PP
2	HD-ZIP_I/II	116	2.1e-37	56	146	2	92
HD-ZIP_I/II 2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLree 90 kkrrls+eqv++LE sF+ee+kLe+ rKv+la eLgl+p+qvavWFqnrRAR+k+k lE+++++Lk+a+da ++++Le+ev +L+e+ Sobic.002G353800.1.p 56 KKRRLSDEQVEMLELSFREERKLETGRKVHLAAELGLDPKQVAVWFQNRRARHKSKLLEEEFAKLKQAHDAAILHKCHLENEVMRLKER 144 9**************************************************************************************98 PP HD-ZIP_I/II 91 lk 92 l Sobic.002G353800.1.p 145 LV 146 85 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	4.79E-17	50	110	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.277	51	111	IPR001356	Homeobox domain
SMART	SM00389	4.9E-17	54	115	IPR001356	Homeobox domain
CDD	cd00086	1.30E-15	56	111	No hit	No description
Pfam	PF00046	2.6E-16	56	109	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	3.8E-18	56	109	IPR009057	Homeodomain-like
PRINTS	PR00031	1.2E-5	82	91	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	86	109	IPR017970	Homeobox, conserved site
PRINTS	PR00031	1.2E-5	91	107	IPR000047	Helix-turn-helix motif

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:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 232 aa Download sequence Send to blast
MEEYDGLFPS AYVDSSSSLL VPNGTAQGER PRARRRRRRA PRCGGGGDLD GGGDPKKRRL 60 SDEQVEMLEL SFREERKLET GRKVHLAAEL GLDPKQVAVW FQNRRARHKS KLLEEEFAKL 120 KQAHDAAILH KCHLENEVMR LKERLVLAEE ELTRFRSAGS HAVSGDGGDI MGRAVCSGSP 180 SSSFSTGTCH QPGVDVGGGD HLGDDDQLLY VPDYAYADNS VVEWFSLYGL M*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	29	38	RPRARRRRRR
2	33	41	RRRRRRAPR
3	36	58	RRRAPRCGGGGDLDGGGDPKKRR

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in roots, 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.002G353800.1.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	BT039959	0.0	BT039959.1 Zea mays full-length cDNA clone ZM_BFc0054M14 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002460922.1	1e-169	homeobox-leucine zipper protein HOX14
Swissprot	Q7XI85	4e-89	HOX14_ORYSJ; Homeobox-leucine zipper protein HOX14
TrEMBL	C5XCG1	1e-168	C5XCG1_SORBI; Uncharacterized protein
STRING	Sb02g037560.1	1e-169	(Sorghum bicolor)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP2006	38	101
Representative plant	OGRP3776	10	25

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G36740.1	8e-39	homeobox protein 40

Link Out ? help Back to Top
Phytozome	Sobic.002G353800.1.p
Entrez Gene	8078955

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]