PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina

Family

HD-ZIP

Protein Properties

Length: 745aa MW: 81449 Da PI: 5.7423

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa02g011120.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	61.2	1.6e-19	63	118	1	56
TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 +++ +++t+ q++eLe++F+++++p+ ++r+eL++ l+L+ qVk+WFqN+R+++k Csa02g011120.1 63 KKRYHRHTQRQIQELESFFKECPHPDDKQRKELSRDLNLEPLQVKFWFQNKRTQMK 118 688999***********************************************998 PP
2	START	220.7	4.8e-69	253	473	1	206
HHHHHHHHHHHHHHHHC-TT-EEEE...EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEEEEE CS START 1 elaeeaaqelvkkalaeepgWvkss...esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWdetla....kaetle 83 ela +a++elv++a+a +p+Wv+ e++n++e+ ++f+++ + ++ea+r+s+vv+m++ +lve+l+d++ qW+ + +a tle Csa02g011120.1 253 ELAVAAMEELVRMAQAVDPLWVSTDnsvEILNEEEYFRTFPRGIGpkplgLRSEASRESAVVIMNHINLVEILMDVN-QWSCVFSgivsRALTLE 346 57899****************99999**********999****************************.************* PP EECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE CS START 84 vissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskvtwvehvd 171 v+s+g galq+m+ae+q++splvp R+ +fvRy++q+++g+w++vdvS+ds ++ + ++ R +++pSg+li++++ng+skvtw+eh++ Csa02g011120.1 347 VLSTGvagnynGALQVMTAEFQVPSPLVPtRENYFVRYCKQHSDGSWAVVDVSLDSLRPST---PILRTRRRPSGCLIQELPNGYSKVTWIEHME 438 ******************************************************976...7************************** PP --SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS START 172 lkgrlphwllrslvksglaegaktwvatlqrqcek 206 +++r++h+++r+lv+sgla+gak+wvatl+rqce+ Csa02g011120.1 439 VDDRSVHNMYRPLVHSGLAFGAKRWVATLERQCER 473 *******************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	1.2E-23	44	118	IPR009057	Homeodomain-like
SuperFamily	SSF46689	8.36E-19	51	120	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.957	60	120	IPR001356	Homeobox domain
SMART	SM00389	1.0E-17	61	124	IPR001356	Homeobox domain
CDD	cd00086	3.59E-18	63	121	No hit	No description
Pfam	PF00046	3.7E-17	63	118	IPR001356	Homeobox domain
PROSITE pattern	PS00027	0	95	118	IPR017970	Homeobox, conserved site
PROSITE profile	PS50848	44.99	244	476	IPR002913	START domain
SuperFamily	SSF55961	1.19E-35	246	475	No hit	No description
CDD	cd08875	1.24E-125	248	472	No hit	No description
SMART	SM00234	3.1E-78	253	473	IPR002913	START domain
Pfam	PF01852	1.9E-58	254	473	IPR002913	START domain
Gene3D	G3DSA:3.30.530.20	1.1E-7	350	473	IPR023393	START-like domain
SuperFamily	SSF55961	4.95E-26	492	731	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:0008289	Molecular Function	lipid binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 745 aa Download sequence Send to blast
MYHPNMFESH HMFDMTPKST SDNDLGITGS REDDFETKSG AEVTTENPSG EELQDPNQRP 60 NKKKRYHRHT QRQIQELESF FKECPHPDDK QRKELSRDLN LEPLQVKFWF QNKRTQMKAQ 120 SERHENQILK SDNDKLRAEN NRYKEALSNA TCPNCGGPAA IGEMSFDEQH LRIENARLRE 180 EIDRISAIAA KYVGKPLGSS FAPLAIHAPS RSLDLEVGNF GNQTGFGGEM YGTGDILRSV 240 SIPSDTDKPI IVELAVAAME ELVRMAQAVD PLWVSTDNSV EILNEEEYFR TFPRGIGPKP 300 LGLRSEASRE SAVVIMNHIN LVEILMDVNQ WSCVFSGIVS RALTLEVLST GVAGNYNGAL 360 QVMTAEFQVP SPLVPTRENY FVRYCKQHSD GSWAVVDVSL DSLRPSTPIL RTRRRPSGCL 420 IQELPNGYSK VTWIEHMEVD DRSVHNMYRP LVHSGLAFGA KRWVATLERQ CERLASSMAS 480 NIPGDLSVIT SPEGRKSMLK LAERMVMSFC SGVGASTAHA WTTMSTTGSD DVRVMTRKSM 540 DDPGRPPGIV LSAATSFWIP VAPKRVFDFL RDENSRKEWD ILSNGGMVQE MAHIANGHEP 600 GNCVSLLRVN SGNASQSNML ILQESCTDAS GSYVIYAPVD IVAMNVVLSG GDPDYVALLP 660 SGFAILPDGS VGGGDGSHQE VASSTSFGSC GGSLLTVAFQ ILVDSVPTAK LSLGSVATVN 720 SLIKCTVERI KAAVACDNGG AGGA*

Sequence ? help Back to Top

Protein Sequence Length: 745 aa Download sequence Send to blast

MYHPNMFESH HMFDMTPKST SDNDLGITGS REDDFETKSG AEVTTENPSG EELQDPNQRP  60
NKKKRYHRHT QRQIQELESF FKECPHPDDK QRKELSRDLN LEPLQVKFWF QNKRTQMKAQ  120
SERHENQILK SDNDKLRAEN NRYKEALSNA TCPNCGGPAA IGEMSFDEQH LRIENARLRE  180
EIDRISAIAA KYVGKPLGSS FAPLAIHAPS RSLDLEVGNF GNQTGFGGEM YGTGDILRSV  240
SIPSDTDKPI IVELAVAAME ELVRMAQAVD PLWVSTDNSV EILNEEEYFR TFPRGIGPKP  300
LGLRSEASRE SAVVIMNHIN LVEILMDVNQ WSCVFSGIVS RALTLEVLST GVAGNYNGAL  360
QVMTAEFQVP SPLVPTRENY FVRYCKQHSD GSWAVVDVSL DSLRPSTPIL RTRRRPSGCL  420
IQELPNGYSK VTWIEHMEVD DRSVHNMYRP LVHSGLAFGA KRWVATLERQ CERLASSMAS  480
NIPGDLSVIT SPEGRKSMLK LAERMVMSFC SGVGASTAHA WTTMSTTGSD DVRVMTRKSM  540
DDPGRPPGIV LSAATSFWIP VAPKRVFDFL RDENSRKEWD ILSNGGMVQE MAHIANGHEP  600
GNCVSLLRVN SGNASQSNML ILQESCTDAS GSYVIYAPVD IVAMNVVLSG GDPDYVALLP  660
SGFAILPDGS VGGGDGSHQE VASSTSFGSC GGSLLTVAFQ ILVDSVPTAK LSLGSVATVN  720
SLIKCTVERI KAAVACDNGG AGGA*

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa02g011120.1

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	AF424560	0.0	AF424560.1 Arabidopsis thaliana AT4g04890/T1J1_3 mRNA, complete cds.
GenBank	AY062575	0.0	AY062575.1 Arabidopsis thaliana Unknown protein (At4g04890; T1J1.3) mRNA, complete cds.
GenBank	BT000144	0.0	BT000144.1 Arabidopsis thaliana Unknown protein (At4g04890) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010432053.1	0.0	PREDICTED: homeobox-leucine zipper protein PROTODERMAL FACTOR 2-like
Refseq	XP_010432055.1	0.0	PREDICTED: homeobox-leucine zipper protein PROTODERMAL FACTOR 2-like
Swissprot	Q93V99	0.0	PDF2_ARATH; Homeobox-leucine zipper protein PROTODERMAL FACTOR 2
TrEMBL	R0FD46	0.0	R0FD46_9BRAS; Uncharacterized protein
STRING	XP_010432053.1	0.0	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM491	28	149

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

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] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444]