PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja

Family

HD-ZIP

Protein Properties

Length: 733aa MW: 80461 Da PI: 6.182

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Glyma.11G003400.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	58	1.6e-18	63	118	1	56
TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 ++ +++t+ q+ee+e++F++ ++p+ ++r+eL+++lgL+ qVk+WFqN+R+++k Glyma.11G003400.1.p 63 KKGYRRHTQRQIEEMEAFFKQFPHPDDKQRKELSRELGLEPLQVKFWFQNKRTQMK 118 5778899**********************************************999 PP
2	START	210.9	4.7e-66	250	470	1	206
HHHHHHHHHHHHHHHHC-TT-EEEE...EXCCTTEEEEEEESSS.......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S.... CS START 1 elaeeaaqelvkkalaeepgWvkss...esengdevlqkfeeskv......dsgealrasgvvdmvlallveellddkeqWdetla.... 77 ela +a++el ++a+a++p+Wv s e++n++e+l++f+ + ++ea+r+s+vv+m++ +l +l+d++ qW++ + Glyma.11G003400.1.p 250 ELAVAAMEELTRLAQAGDPLWVPSNhhsEILNEEEYLRTFPNRGLgpkplgLRSEASRESVVVIMNHINLIDILMDVN-QWSTVFCgivs 338 57899*********************************77666*****************************.**99999 PP EEEEEEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTC CS START 78 kaetlevissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksng 160 +a tlev+s+g galq+m++e+q++splvp R+ +fvRy++q+++g w++vdvS+d+ ++++ + R++++pSg+li++++ng Glyma.11G003400.1.p 339 RALTLEVLSTGvagnynGALQVMSSEFQVPSPLVPtRENYFVRYCKQQPDGIWAVVDVSLDNLRPNT----ISRSRRRPSGCLIQELPNG 424 **************************************************************9....69************* PP EEEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS START 161 hskvtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206 +skvtw+ehv++++r +h+++r+lv+sgla+gak+wvatl+rqce+ Glyma.11G003400.1.p 425 YSKVTWIEHVEVDDRAVHSIYRPLVNSGLAFGAKRWVATLDRQCER 470 ******************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	2.1E-20	48	118	IPR009057	Homeodomain-like
SuperFamily	SSF46689	6.68E-18	48	120	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.536	60	120	IPR001356	Homeobox domain
SMART	SM00389	3.7E-17	62	124	IPR001356	Homeobox domain
Pfam	PF00046	5.1E-16	63	118	IPR001356	Homeobox domain
CDD	cd00086	2.20E-17	63	121	No hit	No description
PROSITE pattern	PS00027	0	95	118	IPR017970	Homeobox, conserved site
PROSITE profile	PS50848	45.407	241	473	IPR002913	START domain
SuperFamily	SSF55961	4.53E-37	242	472	No hit	No description
CDD	cd08875	1.03E-123	245	469	No hit	No description
SMART	SM00234	1.3E-68	250	470	IPR002913	START domain
Pfam	PF01852	8.0E-56	251	470	IPR002913	START domain
Gene3D	G3DSA:3.30.530.20	8.5E-6	352	470	IPR023393	START-like domain
SuperFamily	SSF55961	6.18E-24	491	721	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:0009845	Biological Process	seed germination
GO:0009913	Biological Process	epidermal cell differentiation
GO:0048497	Biological Process	maintenance of floral organ identity
GO:0048825	Biological Process	cotyledon development
GO:0090627	Biological Process	plant epidermal cell differentiation
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: 733 aa Download sequence Send to blast
MFHANMFDSH PHLLDMSPHK TTACSESDLG KACRDDEYET KSITDAMDAP SGDDQDPNPR 60 PKKKGYRRHT QRQIEEMEAF FKQFPHPDDK QRKELSRELG LEPLQVKFWF QNKRTQMKTQ 120 HERNENAILK TENEKLRAEN NRYKEALSNA TCPNCGGSAA LGEMSFDEQH LRIENARLRE 180 EIDRISGIAA KYVGKPVTSS YSNLSSLNNN HVPVGKYGSQ SGTVGEMYGG SDLFRSLPAP 240 ADADKPMIVE LAVAAMEELT RLAQAGDPLW VPSNHHSEIL NEEEYLRTFP NRGLGPKPLG 300 LRSEASRESV VVIMNHINLI DILMDVNQWS TVFCGIVSRA LTLEVLSTGV AGNYNGALQV 360 MSSEFQVPSP LVPTRENYFV RYCKQQPDGI WAVVDVSLDN LRPNTISRSR RRPSGCLIQE 420 LPNGYSKVTW IEHVEVDDRA VHSIYRPLVN SGLAFGAKRW VATLDRQCER LASSMANNIP 480 AGDLCVITSA EGRKSMMKLA ERMVMSYCTG VGASTAHAWT TLSATGCDDV RVMTRKSTDE 540 PGRPPGIVLS AATSFWLPVP PNRVFDFLRD ENSRNEWDIL SNGGLVQELA HIANGRDPGN 600 CVSLLRVNSA NSSQSNMLIL QESCTDSTGS YVVYAPVDIV AMNVVLSGGD PDYVALLPSG 660 FAILPDGPPA LNGGPMHEVG SGGSLLTVGF QILVDSAPTA KLSLGSVATV NSLIKCTVER 720 IKVAVIRDNN NT*

Sequence ? help Back to Top

Protein Sequence Length: 733 aa Download sequence Send to blast

MFHANMFDSH PHLLDMSPHK TTACSESDLG KACRDDEYET KSITDAMDAP SGDDQDPNPR  60
PKKKGYRRHT QRQIEEMEAF FKQFPHPDDK QRKELSRELG LEPLQVKFWF QNKRTQMKTQ  120
HERNENAILK TENEKLRAEN NRYKEALSNA TCPNCGGSAA LGEMSFDEQH LRIENARLRE  180
EIDRISGIAA KYVGKPVTSS YSNLSSLNNN HVPVGKYGSQ SGTVGEMYGG SDLFRSLPAP  240
ADADKPMIVE LAVAAMEELT RLAQAGDPLW VPSNHHSEIL NEEEYLRTFP NRGLGPKPLG  300
LRSEASRESV VVIMNHINLI DILMDVNQWS TVFCGIVSRA LTLEVLSTGV AGNYNGALQV  360
MSSEFQVPSP LVPTRENYFV RYCKQQPDGI WAVVDVSLDN LRPNTISRSR RRPSGCLIQE  420
LPNGYSKVTW IEHVEVDDRA VHSIYRPLVN SGLAFGAKRW VATLDRQCER LASSMANNIP  480
AGDLCVITSA EGRKSMMKLA ERMVMSYCTG VGASTAHAWT TLSATGCDDV RVMTRKSTDE  540
PGRPPGIVLS AATSFWLPVP PNRVFDFLRD ENSRNEWDIL SNGGLVQELA HIANGRDPGN  600
CVSLLRVNSA NSSQSNMLIL QESCTDSTGS YVVYAPVDIV AMNVVLSGGD PDYVALLPSG  660
FAILPDGPPA LNGGPMHEVG SGGSLLTVGF QILVDSAPTA KLSLGSVATV NSLIKCTVER  720
IKVAVIRDNN NT*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: First expressed in the apical cell after the first asymmetric division of the zygote. Expressed in all proembryo cells until the eight-cell stage, and then restricted to the protoderm in the 16-cell proembryo. Not detected in the torpedo stage, but reappeared later in the L1 layer of the shoot apical meristem in the mature embryo. After germination, the L1 layer-specific expression pattern is maintained in the vegetative shoot apical meristem, inflorescence, floral meristems, and the young floral organ primordia. Finally, expressed in the protoderm of the ovule primordia and integuments and gradually restricted to the endothelium surrounding the embryo sac. {ECO:0000269\|PubMed:10571886, ECO:0000269\|PubMed:8989876}.

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	Glyma.11G003400.1.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	AP015043	1e-157	AP015043.1 Vigna angularis var. angularis DNA, chromosome 10, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_003538765.1	0.0	homeobox-leucine zipper protein MERISTEM L1
Refseq	XP_006590391.1	0.0	homeobox-leucine zipper protein MERISTEM L1
Refseq	XP_028188835.1	0.0	homeobox-leucine zipper protein MERISTEM L1-like
Refseq	XP_028188836.1	0.0	homeobox-leucine zipper protein MERISTEM L1-like
Swissprot	Q8RWU4	0.0	ATML1_ARATH; Homeobox-leucine zipper protein MERISTEM L1
TrEMBL	A0A445HV09	0.0	A0A445HV09_GLYSO; Homeobox-leucine zipper protein MERISTEM L1 isoform A
TrEMBL	K7LMB0	0.0	K7LMB0_SOYBN; Uncharacterized protein
STRING	GLYMA11G00570.3	0.0	(Glycine max)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1508	34	99
Representative plant	OGRP145	15	136

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G21750.2	0.0	HD-ZIP family protein

Link Out ? help Back to Top
Phytozome	Glyma.11G003400.1.p
Entrez Gene	100782240

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]