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: 766aa MW: 83681.2 Da PI: 5.732

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa10g021580.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	60.4	2.9e-19	62	117	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 Csa10g021580.1 62 KKRYHRHTQRQIQELESFFKECPHPDDKQRKELSRELSLEPLQVKFWFQNKRTQMK 117 688999***********************************************998 PP
2	START	208.6	2.3e-65	261	480	1	206
HHHHHHHHHHHHHHHHC-TT-EEEE...EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEEEEE CS START 1 elaeeaaqelvkkalaeepgWvkss...esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWdetla....kaetle 83 ela +a++elv++a+ ++p+Wv e++n++e+ ++f+++ + ++ea+r+s+v +m++ +l e+l+d++ qW+ + +a tle Csa10g021580.1 261 ELAVAAMEELVRMAQTGDPLWVPNDnsvEILNEEEYFRTFPRGIGpkpmgLRSEASRESTVFIMNHINLIEILMDVN-QWSSVFCgivsRALTLE 354 57899***************877777**********999****************************.**99999** 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 ++ p + R++++pSg+li++++ng+skvtwveh++ Csa10g021580.1 355 VLSTGvagnynGALQVMTAEFQVPSPLVPtRENYFVRYCKQHSDGIWAVVDVSLDSLRPSP----ITRSRRRPSGCLIQELQNGYSKVTWVEHTE 445 *******************************************************99....7************************* PP --SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS START 172 lkgrlphwllrslvksglaegaktwvatlqrqcek 206 +++r++h+++++lv++gla+gak+wvatl+rqce+ Csa10g021580.1 446 VDDRSVHNMYKPLVNTGLAFGAKRWVATLDRQCER 480 *******************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	3.1E-22	43	117	IPR009057	Homeodomain-like
SuperFamily	SSF46689	1.63E-18	51	119	IPR009057	Homeodomain-like
PROSITE profile	PS50071	17.006	59	119	IPR001356	Homeobox domain
SMART	SM00389	1.5E-17	60	123	IPR001356	Homeobox domain
CDD	cd00086	2.66E-18	62	120	No hit	No description
Pfam	PF00046	7.5E-17	62	117	IPR001356	Homeobox domain
PROSITE pattern	PS00027	0	94	117	IPR017970	Homeobox, conserved site
PROSITE profile	PS50848	44.647	252	483	IPR002913	START domain
SuperFamily	SSF55961	5.08E-35	254	482	No hit	No description
CDD	cd08875	9.17E-125	256	479	No hit	No description
SMART	SM00234	5.7E-77	261	480	IPR002913	START domain
Pfam	PF01852	8.9E-55	262	480	IPR002913	START domain
Gene3D	G3DSA:3.30.530.20	7.7E-6	360	479	IPR023393	START-like domain
SuperFamily	SSF55961	5.17E-23	501	679	No hit	No description
SuperFamily	SSF55961	5.17E-23	718	757	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: 766 aa Download sequence Send to blast
MYHPNMFESH HHMFDMTPKN SENDLGITGS QEDFETKSGA EVTMENPLEE ELQDPNQRPN 60 KKKRYHRHTQ RQIQELESFF KECPHPDDKQ RKELSRELSL EPLQVKFWFQ NKRTQMKAQH 120 ERHENQILKS ENDKLRADNN RYKDALSNAT CPNCGGPAAI GEMSFDEHHL RIENARLREE 180 IDRISAIAAK YVGKPLLANS SPFPQLTSSH HIPSRSLDLE VGNFGNNSNS QAGFVGEMYG 240 TSDILRSVSI PSEADKPMIV ELAVAAMEEL VRMAQTGDPL WVPNDNSVEI LNEEEYFRTF 300 PRGIGPKPMG LRSEASREST VFIMNHINLI EILMDVNQWS SVFCGIVSRA LTLEVLSTGV 360 AGNYNGALQV MTAEFQVPSP LVPTRENYFV RYCKQHSDGI WAVVDVSLDS LRPSPITRSR 420 RRPSGCLIQE LQNGYSKVTW VEHTEVDDRS VHNMYKPLVN TGLAFGAKRW VATLDRQCER 480 LASSMASNIP AGDLSVITSA EGRKSMLKLA ERMVMSFCSG VGASTAHAWT TLSTTGSDDV 540 RVMTRKSMDD PGRPPGIVLS AATSFWIPVA PKRVFDFLRD ENSRSEWDIL SNGGLVQEMA 600 HIANGRDPGN SVSLLRVNSG NSGQSNMLIL QESCTDASGS YVIYAPVDIM AMNVVLSGGD 660 PDYVALLPSG FAILPDGSAR VGGGSASTGA GGAGTEGGGG GEGNNLEVVT TTTGNNGGSL 720 LTVAFQILVD SVPTAKLSLG SVATVNSLIK CTVERIKAAL ACEGA*

Sequence ? help Back to Top

Protein Sequence Length: 766 aa Download sequence Send to blast

MYHPNMFESH HHMFDMTPKN SENDLGITGS QEDFETKSGA EVTMENPLEE ELQDPNQRPN  60
KKKRYHRHTQ RQIQELESFF KECPHPDDKQ RKELSRELSL EPLQVKFWFQ NKRTQMKAQH  120
ERHENQILKS ENDKLRADNN RYKDALSNAT CPNCGGPAAI GEMSFDEHHL RIENARLREE  180
IDRISAIAAK YVGKPLLANS SPFPQLTSSH HIPSRSLDLE VGNFGNNSNS QAGFVGEMYG  240
TSDILRSVSI PSEADKPMIV ELAVAAMEEL VRMAQTGDPL WVPNDNSVEI LNEEEYFRTF  300
PRGIGPKPMG LRSEASREST VFIMNHINLI EILMDVNQWS SVFCGIVSRA LTLEVLSTGV  360
AGNYNGALQV MTAEFQVPSP LVPTRENYFV RYCKQHSDGI WAVVDVSLDS LRPSPITRSR  420
RRPSGCLIQE LQNGYSKVTW VEHTEVDDRS VHNMYKPLVN TGLAFGAKRW VATLDRQCER  480
LASSMASNIP AGDLSVITSA EGRKSMLKLA ERMVMSFCSG VGASTAHAWT TLSTTGSDDV  540
RVMTRKSMDD PGRPPGIVLS AATSFWIPVA PKRVFDFLRD ENSRSEWDIL SNGGLVQEMA  600
HIANGRDPGN SVSLLRVNSG NSGQSNMLIL QESCTDASGS YVIYAPVDIM AMNVVLSGGD  660
PDYVALLPSG FAILPDGSAR VGGGSASTGA GGAGTEGGGG GEGNNLEVVT TTTGNNGGSL  720
LTVAFQILVD SVPTAKLSLG SVATVNSLIK CTVERIKAAL ACEGA*

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in cell specification and pattern formation during embryogenesis. 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 PDF2. {ECO:0000269\|PubMed:11439135, ECO:0000269\|PubMed:12505995}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa10g021580.1

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	AK229970	0.0	AK229970.1 Arabidopsis thaliana mRNA for L1 specific homeobox gene ATML1/ovule-specific homeobox protein A20, complete cds, clone: RAFL22-43-B20.
GenBank	AY091104	0.0	AY091104.1 Arabidopsis thaliana putative L1-specific homeobox gene ATML1/ovule-specific homeobox protein A20 (At4g21750) mRNA, complete cds.
GenBank	AY150491	0.0	AY150491.1 Arabidopsis thaliana putative L1-specific homeobox gene ATML1/ovule-specific homeobox protein A20 (At4g21750) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010434132.1	0.0	PREDICTED: homeobox-leucine zipper protein MERISTEM L1-like
Refseq	XP_010434133.1	0.0	PREDICTED: homeobox-leucine zipper protein MERISTEM L1-like
Swissprot	Q8RWU4	0.0	ATML1_ARATH; Homeobox-leucine zipper protein MERISTEM L1
TrEMBL	R0GNC9	0.0	R0GNC9_9BRAS; Uncharacterized protein
STRING	XP_010434132.1	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
AT4G21750.2	0.0	HD-ZIP family protein

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] Takada S,Takada N,Yoshida A Induction of epidermal cell fate in Arabidopsis shoots. Plant Signal Behav, 2013. 8(11): p. e26236 [PMID:23989220] Liang Z,Brown RC,Fletcher JC,Opsahl-Sorteberg HG Calpain-Mediated Positional Information Directs Cell Wall Orientation to Sustain Plant Stem Cell Activity, Growth and Development. Plant Cell Physiol., 2015. 56(9): p. 1855-66 [PMID:26220906] Katagiri Y, et al. The coordination of ploidy and cell size differs between cell layers in leaves. Development, 2016. 143(7): p. 1120-5 [PMID:26903507] Seeliger I, et al. The AP2-type transcription factors DORNRÖSCHEN and DORNRÖSCHEN-LIKE promote G1/S transition. Mol. Genet. Genomics, 2016. 291(5): p. 1835-49 [PMID:27277595] Schwarz EM,Roeder AH Transcriptomic Effects of the Cell Cycle Regulator LGO in Arabidopsis Sepals. Front Plant Sci, 2016. 7: p. 1744 [PMID:27920789] Meyer HM, et al. Fluctuations of the transcription factor ATML1 generate the pattern of giant cells in the Arabidopsis sepal. Elife, 2018. [PMID:28145865]