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

PSME_00001149-RA

Organism

Pseudotsuga menziesii

Taxonomic ID

3357

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Pseudotsuga

Family

HD-ZIP

Protein Properties

Length: 816aa MW: 90001.1 Da PI: 6.4734

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PSME_00001149-RA	genome	PRS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	64.8	1.2e-20	117	172	1	56
TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 r++ +++t+ q++e+e+lF+++++p+ ++r++L+ +lgL+ rqVk+WFqNrR+++k PSME_00001149-RA 117 RKRYHRHTARQIQEMEALFKECPHPDDKQRQRLSIELGLKPRQVKFWFQNRRTQMK 172 788999***********************************************998 PP
2	START	173.3	1.5e-54	320	540	7	206
HHHHHHHHHHC-TT-EEEE......EXCCTTEEEEEEESSS........SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEEEE CS START 7 aqelvkkalaeepgWvkss......esengdevlqkfeeskv.......dsgealrasgvvdmvlallveellddkeqWdetla....kaetl 82 +el+++a+ +ep+W k++ e++n de+ ++f+ + + ++ea r+s vv+m+ + l e ++d++ +W e+++ ka+t+ PSME_00001149-RA 320 VEELIRMAQTDEPLWLKDVnargmkEILNLDEYGRSFQWAMGfkhnnlnLKTEATRDSSVVIMNGVALIEAFMDVN-KWMEMFPsivtKAKTV 411 689**************99999999999999776669*****************************.************ PP EEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEEE CS START 83 evissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskvtwve 168 +v+s+g g lqlm+aelqalsplv+ R+++f+Ry+++ +g wv+vd Svds + s+ +vR +++pSg+li++++ng+ kvtwve PSME_00001149-RA 412 QVLSPGvpghrnGSLQLMYAELQALSPLVStREVYFLRYCQKRMEGFWVVVDLSVDSLHDT--SQFLVRYRKRPSGCLIQDMPNGYAKVTWVE 502 ********************************************************7..57************************ PP -EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS START 169 hvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206 h++ ++r +h ++++lv sg+ +g ++w+a l rqce+ PSME_00001149-RA 503 HAEIEDRAVHRIYKQLVDSGMTFGSQRWLANLTRQCER 540 **********************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	2.6E-21	97	172	IPR009057	Homeodomain-like
SuperFamily	SSF46689	5.13E-20	102	175	IPR009057	Homeodomain-like
PROSITE profile	PS50071	17.103	114	174	IPR001356	Homeobox domain
SMART	SM00389	4.7E-19	115	178	IPR001356	Homeobox domain
CDD	cd00086	3.48E-19	116	175	No hit	No description
Pfam	PF00046	3.6E-18	117	172	IPR001356	Homeobox domain
PROSITE pattern	PS00027	0	149	172	IPR017970	Homeobox, conserved site
PROSITE profile	PS50848	45.97	305	543	IPR002913	START domain
SuperFamily	SSF55961	2.1E-33	306	542	No hit	No description
CDD	cd08875	1.05E-110	309	539	No hit	No description
SMART	SM00234	6.9E-43	314	540	IPR002913	START domain
Pfam	PF01852	2.5E-45	320	540	IPR002913	START domain
Gene3D	G3DSA:3.30.530.20	1.9E-7	351	539	IPR023393	START-like domain
SuperFamily	SSF55961	1.1E-22	560	738	No hit	No description
SuperFamily	SSF55961	1.1E-22	769	808	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: 816 aa Download sequence Send to blast
MHKMYGGDCD VLVVNNMGGN IEPFMSPSSL FVAQRLLPQL PTTLHLHNQS VYSSSEGLSL 60 APPKGTREMK QLEECGQLKN KEEHESKSGS GNMDGASGED QDGADQDHEH DQQQTRRKRY 120 HRHTARQIQE MEALFKECPH PDDKQRQRLS IELGLKPRQV KFWFQNRRTQ MKAQQDRSDN 180 AILRVENENL RNENLALREA IKNGACPNCG GGATSLGEMS GFDEQHFRIE NTRLKEELDR 240 VSGMATKYMG RSMPHLTSIA TPPMLMSSLD LAMGNFGGKQ PAPPSVDFIS GPLSDGPTVN 300 CGTLTDLDKP LALELAINGV EELIRMAQTD EPLWLKDVNA RGMKEILNLD EYGRSFQWAM 360 GFKHNNLNLK TEATRDSSVV IMNGVALIEA FMDVNKWMEM FPSIVTKAKT VQVLSPGVPG 420 HRNGSLQLMY AELQALSPLV STREVYFLRY CQKRMEGFWV VVDLSVDSLH DTSQFLVRYR 480 KRPSGCLIQD MPNGYAKVTW VEHAEIEDRA VHRIYKQLVD SGMTFGSQRW LANLTRQCER 540 LASLMASNIS ARELGVIPSP EGRRSVMKLA QRMTNGFFAN ISSSISHTWT TLSSDDSVRI 600 TTRKNTEPGL PSGVVVSGAT SLWLPVPPQR LFEFLRDERM RSEWDVLSSG NMVQEVAHIA 660 NGSHPGNCIS LLRVNVSACS TSQNVELILQ ESCTDASGSV IVYAPVDVPA INIAMSGEDP 720 SYIALLPSGF AILPDGQNRP PTSSLLEGAN SSSNSSSSSG LDSPLTGGGS LLTVAFQVLV 780 SHLPTAKLGL DSVTTINNLI CNTVQQIKSA LHCADV

Sequence ? help Back to Top

Protein Sequence Length: 816 aa Download sequence Send to blast

MHKMYGGDCD VLVVNNMGGN IEPFMSPSSL FVAQRLLPQL PTTLHLHNQS VYSSSEGLSL  60
APPKGTREMK QLEECGQLKN KEEHESKSGS GNMDGASGED QDGADQDHEH DQQQTRRKRY  120
HRHTARQIQE MEALFKECPH PDDKQRQRLS IELGLKPRQV KFWFQNRRTQ MKAQQDRSDN  180
AILRVENENL RNENLALREA IKNGACPNCG GGATSLGEMS GFDEQHFRIE NTRLKEELDR  240
VSGMATKYMG RSMPHLTSIA TPPMLMSSLD LAMGNFGGKQ PAPPSVDFIS GPLSDGPTVN  300
CGTLTDLDKP LALELAINGV EELIRMAQTD EPLWLKDVNA RGMKEILNLD EYGRSFQWAM  360
GFKHNNLNLK TEATRDSSVV IMNGVALIEA FMDVNKWMEM FPSIVTKAKT VQVLSPGVPG  420
HRNGSLQLMY AELQALSPLV STREVYFLRY CQKRMEGFWV VVDLSVDSLH DTSQFLVRYR  480
KRPSGCLIQD MPNGYAKVTW VEHAEIEDRA VHRIYKQLVD SGMTFGSQRW LANLTRQCER  540
LASLMASNIS ARELGVIPSP EGRRSVMKLA QRMTNGFFAN ISSSISHTWT TLSSDDSVRI  600
TTRKNTEPGL PSGVVVSGAT SLWLPVPPQR LFEFLRDERM RSEWDVLSSG NMVQEVAHIA  660
NGSHPGNCIS LLRVNVSACS TSQNVELILQ ESCTDASGSV IVYAPVDVPA INIAMSGEDP  720
SYIALLPSGF AILPDGQNRP PTSSLLEGAN SSSNSSSSSG LDSPLTGGGS LLTVAFQVLV  780
SHLPTAKLGL DSVTTINNLI CNTVQQIKSA LHCADV

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	BT118071	0.0	BT118071.1 Picea glauca clone GQ04002_A11 mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024401280.1	0.0	homeobox-leucine zipper protein PROTODERMAL FACTOR 2-like
Refseq	XP_024401281.1	0.0	homeobox-leucine zipper protein PROTODERMAL FACTOR 2-like
Swissprot	Q93V99	0.0	PDF2_ARATH; Homeobox-leucine zipper protein PROTODERMAL FACTOR 2
TrEMBL	A0A0C9QWV4	0.0	A0A0C9QWV4_9SPER; TSA: Wollemia nobilis Ref_Wollemi_Transcript_2540_2939 transcribed RNA sequence
STRING	PP1S173_90V6.1	0.0	(Physcomitrella patens)

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]