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.003G294600.1.p

Common Name

Sb03g034510, SORBIDRAFT_03g034510

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

HB-PHD

Protein Properties

Length: 1583aa MW: 173118 Da PI: 6.3489

Description

HB-PHD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.003G294600.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	29.9	9.9e-10	801	846	7	52
--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHH CS Homeobox 7 ftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrR 52 f + ++ L+ +Fek++yps+e++ L+++lgLt +qV+ WF R Sobic.003G294600.1.p 801 FGPVVTQKLKVHFEKDPYPSRETKVNLSEELGLTFNQVSRWFSSTR 846 66677999**********************************8776 PP
2	Homeobox	31.1	4e-10	1050	1089	13	52
HHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHH CS Homeobox 13 eeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrR 52 + L+e+Fek++yp ++++e LA++lgLt +q++ WF R Sobic.003G294600.1.p 1050 QKLKEHFEKDPYPCRATKESLARELGLTCNQISKWFSATR 1089 78**********************************8766 PP
3	PHD	41.8	2.4e-14	477	531	1	50
SBTTTSS..TCTTSSEEEBSS.SSSEEETTTSTSSSSHHSHHSS..TBSSHHHHT CS PHD 1 rCkvCgk..sdeegelvlCdg.CkewfHlkClglkleseekpeg..ewlCeeCke 50 +C+vCg+ + +++++lCdg C++ fH++Cl+++l +e++p g wlC+ C + Sobic.003G294600.1.p 477 FCAVCGSkdVTLQNDIILCDGaCDRGFHQNCLNPPLLTEDIPPGdeGWLCPACVC 531 7****64445****66****************9999*****87 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57903	1.17E-15	467	533	IPR011011	Zinc finger, FYVE/PHD-type
Gene3D	G3DSA:3.30.40.10	2.6E-14	473	532	IPR013083	Zinc finger, RING/FYVE/PHD-type
PROSITE profile	PS50016	11.226	475	532	IPR019787	Zinc finger, PHD-finger
CDD	cd15504	1.14E-28	477	529	No hit	No description
Pfam	PF00628	1.4E-11	477	531	IPR019787	Zinc finger, PHD-finger
SMART	SM00249	3.9E-12	477	530	IPR001965	Zinc finger, PHD-type
PROSITE pattern	PS01359	0	478	529	IPR019786	Zinc finger, PHD-type, conserved site
SMART	SM00389	3.9E-10	795	856	IPR001356	Homeobox domain
SuperFamily	SSF46689	2.22E-10	798	856	IPR009057	Homeodomain-like
CDD	cd00086	3.31E-10	799	850	No hit	No description
Gene3D	G3DSA:1.10.10.60	4.1E-10	801	855	IPR009057	Homeodomain-like
Pfam	PF00046	4.0E-7	801	846	IPR001356	Homeobox domain
PROSITE profile	PS50071	12.374	809	852	IPR001356	Homeobox domain
PROSITE profile	PS50071	12.698	1035	1095	IPR001356	Homeobox domain
SMART	SM00389	7.0E-12	1037	1099	IPR001356	Homeobox domain
SuperFamily	SSF46689	3.42E-10	1038	1094	IPR009057	Homeodomain-like
CDD	cd00086	2.77E-11	1041	1093	No hit	No description
Pfam	PF00046	1.1E-7	1049	1089	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	2.1E-11	1050	1097	IPR009057	Homeodomain-like
PROSITE pattern	PS00027	0	1070	1093	IPR017970	Homeobox, conserved site

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0005515	Molecular Function	protein binding
GO:0008270	Molecular Function	zinc ion binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 1583 aa Download sequence Send to blast
MGRKGSEVSP SNRYPLRSAH SSGRVLRSAS ANDNKNSEPL NAAAATQATV KKRSGSQLDS 60 PNSSVRLLRS TSKNKEEARS GPLNDRIPAK PAANKRKHAS PSQVGSPSNS VRVLRSAIKN 120 KDEACSEPLS DRIADEPAAN KRKNANPSNV GSPSRDVRVL RSGSKVKDET CTKPLNDSAA 180 VVPASSKRKG TSPSKVGSPS SSVRVLRSTS KYKNETCTEP LNDSGAVEPS ANKRKGVSRS 240 KEGSPNSSVR VLRSASNNKL EVSIDPLNNS IAGQPAAKRR KSGSSFEAGS PVGSARVLRS 300 TSERKNEASS EPLNDSTAAR PSARKRKGGA ISKTDSPKIG VRVLRSASAK KNEACSEPVN 360 DSTSAEPTVT KRRICKPSKD RSPKKDYLKI CQRVRYILNR MNYQQTFIQA YASEGWKGQS 420 VEKIRPEKEL ERAKEEILQC KLRIREAFRN MDSLLSKGKL EESLFDSAGE ISSEDIFCAV 480 CGSKDVTLQN DIILCDGACD RGFHQNCLNP PLLTEDIPPG DEGWLCPACV CKADSIDALN 540 ELQGSKLSIH DSWEKVFPEA ASIANGSKQV DASDLLPDHI KDSDNLALAE GHMVNEVRFS 600 AEDDTKADDL GLPSEDSGDG DFDPAGPDSS EDQKDGLNSE ESDFTSDSDD FCAEIAKSCG 660 QDEVLASPLS NVINRTDRMK LRAAGNRSNE ENHNNAFMDM ELPVSSRRQV ERLDYKKLYD 720 EAYEEESSNS SDEEEWSGKE LLEGSETDSL GERLRPVKRC SRKAPAGQQN IEHTPQKFGP 780 ESEQKTEILR SNGSSSTGRK FGPVVTQKLK VHFEKDPYPS RETKVNLSEE LGLTFNQVSR 840 WFSSTRHYSR VASAKKEMHP DSHISENNDS TTVDRMQARQ PSAGVMEKLT RDRNDIVPEK 900 PMVQNNLNQG VMEKLIRDRN DIVPEEPVVE SNLNQSNIED IVLSGTEIEM ESYGQESSDS 960 SDEEWSAFST PRKTRLQDNE KASLTESLRS SKRCSRRAAA REQNNEHTQS EQQTREQLHG 1020 SAREQQTEVL RSNVSTGKVS KYHFGPIVSQ KLKEHFEKDP YPCRATKESL ARELGLTCNQ 1080 ISKWFSATRH YSRDAVAKNQ KHLGENTTEN NNSTTFDGIQ VLEPNVGLID KPAADINDMI 1140 SEKLMVQINL NEGIEEDIPP SQYTRCEEKV TMTPAAISTE AGPPGYGPGE NFLQVSSRNT 1200 SCEQSVIMAP TTIAGEVSPP GYALGENQGN GAPWNTSCER RLFMSPATSS REVGPPGYEP 1260 EENRGSGISW YTSSEQILFM SPTTISRELG PPGYGPGENQ RSITSWNTSY ESGVFTSPVT 1320 TSREDGPPGY GPGENQENDS TSCELRMFTS PTTISREVGP PGYELIGKNK GNDTSWTTNY 1380 QQGVFTSPKT ISREACPPGF GSGENQGNGT PWYMSSKQRA FTSPSFTSPT TISREVGLPG 1440 YGQENQGNGA SWNMSYEQGV FMSPTDISRE VGPPGYGPAE NQGNTTSWIS TGNKQRMFTA 1500 STIPNEVGLP GYSPVGIQGT GGSRSMNLEA FPPGYGPGEN HLGGASGSVI NPQARSQESV 1560 EFSDETRRKA IQRELRRRQK FR*

Sequence ? help Back to Top

Protein Sequence Length: 1583 aa Download sequence Send to blast

MGRKGSEVSP SNRYPLRSAH SSGRVLRSAS ANDNKNSEPL NAAAATQATV KKRSGSQLDS  60
PNSSVRLLRS TSKNKEEARS GPLNDRIPAK PAANKRKHAS PSQVGSPSNS VRVLRSAIKN  120
KDEACSEPLS DRIADEPAAN KRKNANPSNV GSPSRDVRVL RSGSKVKDET CTKPLNDSAA  180
VVPASSKRKG TSPSKVGSPS SSVRVLRSTS KYKNETCTEP LNDSGAVEPS ANKRKGVSRS  240
KEGSPNSSVR VLRSASNNKL EVSIDPLNNS IAGQPAAKRR KSGSSFEAGS PVGSARVLRS  300
TSERKNEASS EPLNDSTAAR PSARKRKGGA ISKTDSPKIG VRVLRSASAK KNEACSEPVN  360
DSTSAEPTVT KRRICKPSKD RSPKKDYLKI CQRVRYILNR MNYQQTFIQA YASEGWKGQS  420
VEKIRPEKEL ERAKEEILQC KLRIREAFRN MDSLLSKGKL EESLFDSAGE ISSEDIFCAV  480
CGSKDVTLQN DIILCDGACD RGFHQNCLNP PLLTEDIPPG DEGWLCPACV CKADSIDALN  540
ELQGSKLSIH DSWEKVFPEA ASIANGSKQV DASDLLPDHI KDSDNLALAE GHMVNEVRFS  600
AEDDTKADDL GLPSEDSGDG DFDPAGPDSS EDQKDGLNSE ESDFTSDSDD FCAEIAKSCG  660
QDEVLASPLS NVINRTDRMK LRAAGNRSNE ENHNNAFMDM ELPVSSRRQV ERLDYKKLYD  720
EAYEEESSNS SDEEEWSGKE LLEGSETDSL GERLRPVKRC SRKAPAGQQN IEHTPQKFGP  780
ESEQKTEILR SNGSSSTGRK FGPVVTQKLK VHFEKDPYPS RETKVNLSEE LGLTFNQVSR  840
WFSSTRHYSR VASAKKEMHP DSHISENNDS TTVDRMQARQ PSAGVMEKLT RDRNDIVPEK  900
PMVQNNLNQG VMEKLIRDRN DIVPEEPVVE SNLNQSNIED IVLSGTEIEM ESYGQESSDS  960
SDEEWSAFST PRKTRLQDNE KASLTESLRS SKRCSRRAAA REQNNEHTQS EQQTREQLHG  1020
SAREQQTEVL RSNVSTGKVS KYHFGPIVSQ KLKEHFEKDP YPCRATKESL ARELGLTCNQ  1080
ISKWFSATRH YSRDAVAKNQ KHLGENTTEN NNSTTFDGIQ VLEPNVGLID KPAADINDMI  1140
SEKLMVQINL NEGIEEDIPP SQYTRCEEKV TMTPAAISTE AGPPGYGPGE NFLQVSSRNT  1200
SCEQSVIMAP TTIAGEVSPP GYALGENQGN GAPWNTSCER RLFMSPATSS REVGPPGYEP  1260
EENRGSGISW YTSSEQILFM SPTTISRELG PPGYGPGENQ RSITSWNTSY ESGVFTSPVT  1320
TSREDGPPGY GPGENQENDS TSCELRMFTS PTTISREVGP PGYELIGKNK GNDTSWTTNY  1380
QQGVFTSPKT ISREACPPGF GSGENQGNGT PWYMSSKQRA FTSPSFTSPT TISREVGLPG  1440
YGQENQGNGA SWNMSYEQGV FMSPTDISRE VGPPGYGPAE NQGNTTSWIS TGNKQRMFTA  1500
STIPNEVGLP GYSPVGIQGT GGSRSMNLEA FPPGYGPGEN HLGGASGSVI NPQARSQESV  1560
EFSDETRRKA IQRELRRRQK FR*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	1566	1577	RRKAIQRELRRR

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Sbi.20537	0.0	leaf\| root

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed in the outer layers of globular embryos. {ECO:0000269\|PubMed:15094187}.
Uniprot	TISSUE SPECIFICITY: Expressed in roots, leaves, stems, panicle and seeds. {ECO:0000269\|PubMed:21951842}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional repressor involved in the regulation of gibberrelin (GA) signaling. Binds to the 5'-GATC-3' motif of HD16/EL1 promoter. Functions as a positive regulator of GA signaling by suppressing the expression of HD16/EL1, a negative regulator of GA signaling. {ECO:0000269\|PubMed:21951842}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.003G294600.1.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by gibberellin. {ECO:0000269\|PubMed:21951842}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	X89760	0.0	X89760.1 Z.mays mRNA for homeobox 2a protein.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002458483.2	0.0	uncharacterized protein LOC8075570
Refseq	XP_021310812.1	0.0	uncharacterized protein LOC8075570
Swissprot	Q8H991	0.0	HAZ1_ORYSJ; Homeobox protein HAZ1
TrEMBL	C5XK29	0.0	C5XK29_SORBI; Uncharacterized protein
STRING	Sb03g034510.1	0.0	(Sorghum bicolor)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP4393	37	68
Representative plant	OGRP1830	15	39

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G19510.1	1e-74	Homeodomain-like protein with RING/FYVE/PHD-type zinc finger domain

Link Out ? help Back to Top
Phytozome	Sobic.003G294600.1.p
Entrez Gene	8075570

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] Wen BQ,Xing MQ,Zhang H,Dai C,Xue HW Rice homeobox transcription factor HOX1a positively regulates gibberellin responses by directly suppressing EL1. J Integr Plant Biol, 2011. 53(11): p. 869-78 [PMID:21951842]