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

Cucsa.045360.1

Common Name

Csa_6G514870, LOC101209093

Organism

Cucumis sativus

Taxonomic ID

3659

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis

Family

HD-ZIP

Protein Properties

Length: 722aa MW: 79184.6 Da PI: 6.3178

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.045360.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	62.8	5.2e-20	50	105	1	56
TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 +++ ++t++q++e+e++F+++++p+ ++r eL+++lgL+ qVk+WFqN+R+++k Cucsa.045360.1 50 KKRYNRHTQHQIQEMEAFFKECPHPDDKQRMELSRELGLEPLQVKFWFQNKRTQMK 105 577789***********************************************998 PP
2	START	182.1	3.1e-57	238	459	2	206
HHHHHHHHHHHHHHHC-TT-EEEE......EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEEE CS START 2 laeeaaqelvkkalaeepgWvkss......esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWdetla....kaet 81 la + ++el ++a+ +ep+Wv +n+ e+l++f + v +++ea+r+s+vv+m++++lv +++d qW++ + +a+t Cucsa.045360.1 238 LAVSGMEELRRMAQGGEPLWVAGDgkssgeVVLNEAEYLRSFGGGIVgkpmgFRTEASRVSAVVFMNHMKLVDIFMDAT-QWSTVFCgivsRAST 331 5677799************88766667777888888888855555****************************.**99999 PP EEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEEE- CS START 82 levissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskvtwveh 169 +e +s+g gal++m+ae+q++splvp R+ +fvRy++q+++g+w+++dvS+d ++ p ++ R pSg+li++++ng+sk+twveh Cucsa.045360.1 332 VEILSPGlpgnfnGALHVMSAEFQVPSPLVPtRENYFVRYCKQQTDGSWAVADVSLDTLRPSPI-PNTRR---KPSGCLIQELPNGYSKITWVEH 422 ***********************************************************5.66666...****************** PP EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS START 170 vdlkgrlphwllrslvksglaegaktwvatlqrqcek 206 v++++ ++ ++r lv+sgla+gak+wvatl+rq e+ Cucsa.045360.1 423 VEVDETGVPTMYRTLVNSGLAFGAKRWVATLDRQSER 459 *******************************9886 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	4.8E-21	39	105	IPR009057	Homeodomain-like
SuperFamily	SSF46689	4.6E-19	40	107	IPR009057	Homeodomain-like
PROSITE profile	PS50071	17.07	47	107	IPR001356	Homeobox domain
SMART	SM00389	1.5E-19	48	111	IPR001356	Homeobox domain
CDD	cd00086	6.31E-19	49	108	No hit	No description
Pfam	PF00046	1.2E-17	50	105	IPR001356	Homeobox domain
PROSITE pattern	PS00027	0	82	105	IPR017970	Homeobox, conserved site
PROSITE profile	PS50848	43.569	228	462	IPR002913	START domain
SuperFamily	SSF55961	3.16E-30	231	460	No hit	No description
CDD	cd08875	2.89E-111	232	458	No hit	No description
SMART	SM00234	4.3E-52	237	459	IPR002913	START domain
Pfam	PF01852	1.4E-48	239	459	IPR002913	START domain
Gene3D	G3DSA:3.30.530.20	5.0E-7	327	456	IPR023393	START-like domain
SuperFamily	SSF55961	3.3E-21	481	713	No hit	No description

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:0008289	Molecular Function	lipid binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 722 aa Download sequence Send to blast
MFDPDMFDTT HHHMLEELEN MREDDFDNKS GAEILESACG TDQQQQRSKK KRYNRHTQHQ 60 IQEMEAFFKE CPHPDDKQRM ELSRELGLEP LQVKFWFQNK RTQMKAQHER HENAILKAEN 120 EKLRAENIRY REAFAHSTCP NCGSSSTALG EMSFDDQHLR IENSRLRDEI ERMSGYGSKC 180 TKPYYQLPTN APTRSLDLGI TNFGPQSSGF VGEMYGAADF FRSISRPSEG EKPVIVELAV 240 SGMEELRRMA QGGEPLWVAG DGKSSGEVVL NEAEYLRSFG GGIVGKPMGF RTEASRVSAV 300 VFMNHMKLVD IFMDATQWST VFCGIVSRAS TVEILSPGLP GNFNGALHVM SAEFQVPSPL 360 VPTRENYFVR YCKQQTDGSW AVADVSLDTL RPSPIPNTRR KPSGCLIQEL PNGYSKITWV 420 EHVEVDETGV PTMYRTLVNS GLAFGAKRWV ATLDRQSERF ATSIATTIPT GDLRVISSIE 480 GRKSMLKLAE RMVTSFCAGV GASSVHAWTA LPAAAGDEVR VVTRKSTDEP GRPPGVVLSA 540 ATSFWIPVSP KVVFDFLRKE KSRSEWDILS NGGLVQEMAH IANGRHSGNC VSLLRVNSAN 600 SSQSNMLILQ ESCTDSTGSY VIYAPVDTVA MNVVLSGCDP DYVALLPSGF AILPDGPGGG 660 GNNGGGILEL GSGGSLITVA FQILVDSVPT ARLSIGSVAT VNSLIKCTVE RIRAAVMREN 720 P*

Sequence ? help Back to Top

Protein Sequence Length: 722 aa Download sequence Send to blast

MFDPDMFDTT HHHMLEELEN MREDDFDNKS GAEILESACG TDQQQQRSKK KRYNRHTQHQ  60
IQEMEAFFKE CPHPDDKQRM ELSRELGLEP LQVKFWFQNK RTQMKAQHER HENAILKAEN  120
EKLRAENIRY REAFAHSTCP NCGSSSTALG EMSFDDQHLR IENSRLRDEI ERMSGYGSKC  180
TKPYYQLPTN APTRSLDLGI TNFGPQSSGF VGEMYGAADF FRSISRPSEG EKPVIVELAV  240
SGMEELRRMA QGGEPLWVAG DGKSSGEVVL NEAEYLRSFG GGIVGKPMGF RTEASRVSAV  300
VFMNHMKLVD IFMDATQWST VFCGIVSRAS TVEILSPGLP GNFNGALHVM SAEFQVPSPL  360
VPTRENYFVR YCKQQTDGSW AVADVSLDTL RPSPIPNTRR KPSGCLIQEL PNGYSKITWV  420
EHVEVDETGV PTMYRTLVNS GLAFGAKRWV ATLDRQSERF ATSIATTIPT GDLRVISSIE  480
GRKSMLKLAE RMVTSFCAGV GASSVHAWTA LPAAAGDEVR VVTRKSTDEP GRPPGVVLSA  540
ATSFWIPVSP KVVFDFLRKE KSRSEWDILS NGGLVQEMAH IANGRHSGNC VSLLRVNSAN  600
SSQSNMLILQ ESCTDSTGSY VIYAPVDTVA MNVVLSGCDP DYVALLPSGF AILPDGPGGG  660
GNNGGGILEL GSGGSLITVA FQILVDSVPT ARLSIGSVAT VNSLIKCTVE RIRAAVMREN  720
P*

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor that binds to the L1 box DNA sequence 5'-TAAATG[CT]A-3'. Plays a role in maintaining the identity of L1 cells, possibly by interacting with their L1 box or other target-gene promoters. Functionally redundant to ATML1. {ECO:0000269\|PubMed:12505995}.

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	LN681875	0.0	LN681875.1 Cucumis melo genomic scaffold, anchoredscaffold00007.
GenBank	LN713262	0.0	LN713262.1 Cucumis melo genomic chromosome, chr_8.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004134971.1	0.0	PREDICTED: homeobox-leucine zipper protein PROTODERMAL FACTOR 2
Refseq	XP_011658159.1	0.0	PREDICTED: homeobox-leucine zipper protein PROTODERMAL FACTOR 2
Swissprot	Q93V99	0.0	PDF2_ARATH; Homeobox-leucine zipper protein PROTODERMAL FACTOR 2
TrEMBL	A0A0A0KN23	0.0	A0A0A0KN23_CUCSA; Uncharacterized protein
STRING	XP_004134971.1	0.0	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF24703	3	3

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G04890.1	0.0	protodermal factor 2

Link Out ? help Back to Top
Phytozome	Cucsa.045360.1
Entrez Gene	101209093

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Ren Y, et al. An integrated genetic and cytogenetic map of the cucumber genome. PLoS ONE, 2009. 4(6): p. e5795 [PMID:19495411] Guo S, et al. Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types. BMC Genomics, 2010. 11: p. 384 [PMID:20565788] Li Z, et al. RNA-Seq improves annotation of protein-coding genes in the cucumber genome. BMC Genomics, 2011. 12: p. 540 [PMID:22047402] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444]