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

Potri.003G050100.2

Common Name

HB6, POPTR_0003s04860g

Organism

Populus trichocarpa

Taxonomic ID

3694

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

HD-ZIP

Protein Properties

Length: 720aa MW: 79094.4 Da PI: 7.0929

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.003G050100.2	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	57.9	1.7e-18	17	75	3	57
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57 k ++t+eq+e+Le+l++ +++ps +r++L +++ +++ +q+kvWFqNrR +ek+ Potri.003G050100.2 17 KYVRYTPEQVEALERLYHDCPKPSSIRRQQLIRECpilsNIEPKQIKVWFQNRRCREKQ 75 5679*****************************************************97 PP
2	START	170	1.6e-53	161	369	2	205
HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..EE CS START 2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..ga 90 +aee+++e+++ka+ ++ Wv+++ +++g+++ +++ s+++ g +ra+g+v +++ v+e+l+d++ W ++++++++l+v+ ++ g+ Potri.003G050100.2 161 IAEETLTEFLSKATGTAVEWVQMPGMKPGPDSSGIVAISHGCAGVGARACGLVGLEPT-RVAEILKDRPSWFRDCRAVDVLNVLPTAngGT 250 789*****************************************************.8888888888************9999 PP EEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXX CS START 91 lqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgrlp 177 ++l +++l+a+++l+p Rdf+ +Ry+ l++g++v++++S+ ++q+ p+ +++vRae+lpSg+l++p+++g+s +++v+h+dl+ +++ Potri.003G050100.2 251 IELLYMQLYAPTTLAPgRDFWLLRYTSVLEDGSLVVCERSLKNTQNGPSmppVQHFVRAEMLPSGYLVRPCEGGGSIIHIVDHMDLEPWSV 341 *********************************************9988899********************************* PP HHHHHHHHHHHHHHHHHHHHHHTXXXXX CS START 178 hwllrslvksglaegaktwvatlqrqce 205 +++lr+l++s+++ ++kt++ +l+++++ Potri.003G050100.2 342 PEVLRPLYESSTVLAQKTTMVALRQLRQ 369 *******************9999876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50071	15.273	12	76	IPR001356	Homeobox domain
SMART	SM00389	1.2E-15	14	80	IPR001356	Homeobox domain
SuperFamily	SSF46689	1.2E-16	16	80	IPR009057	Homeodomain-like
CDD	cd00086	1.34E-16	17	77	No hit	No description
Pfam	PF00046	4.8E-16	18	75	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	2.9E-18	19	75	IPR009057	Homeodomain-like
CDD	cd14686	1.93E-6	69	108	No hit	No description
PROSITE profile	PS50848	24.897	151	366	IPR002913	START domain
CDD	cd08875	1.26E-76	155	371	No hit	No description
SuperFamily	SSF55961	9.48E-36	160	372	No hit	No description
Gene3D	G3DSA:3.30.530.20	5.0E-22	160	366	IPR023393	START-like domain
SMART	SM00234	6.7E-36	160	370	IPR002913	START domain
Pfam	PF01852	5.4E-51	161	369	IPR002913	START domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0008289	Molecular Function	lipid binding

Sequence ? help Back to Top
Protein Sequence Length: 720 aa Download sequence Send to blast
MEMSCKDGKQ PIMDNGKYVR YTPEQVEALE RLYHDCPKPS SIRRQQLIRE CPILSNIEPK 60 QIKVWFQNRR CREKQRKEAS RLQAVNRKLS AMNKLLMEEN DRLQKQVSQL VYENGYFRQH 120 THNTPLATKD TSCESVVTSG QHHLTPQHPP RDASPAGLLS IAEETLTEFL SKATGTAVEW 180 VQMPGMKPGP DSSGIVAISH GCAGVGARAC GLVGLEPTRV AEILKDRPSW FRDCRAVDVL 240 NVLPTANGGT IELLYMQLYA PTTLAPGRDF WLLRYTSVLE DGSLVVCERS LKNTQNGPSM 300 PPVQHFVRAE MLPSGYLVRP CEGGGSIIHI VDHMDLEPWS VPEVLRPLYE SSTVLAQKTT 360 MVALRQLRQI AQEASQSNVT NWGRRPAALR ALSQRLSRGF NEALNGFSDE GWSMIGNDGM 420 DDVTILVNSS PDKLMGSNLS FTNGFPAVSS AVLCAKASML LQNVPPAILL RFLREHRSEW 480 ADNNIDAYAA AAVKVGPFSL QGSRVGSFGG QVILPLAHTI EHEEFLEVIK LEGVGHSPED 540 PIMPRDVFLL QLCCGMDENA VGTCAELIFA PIDATFADDA PLLPSGFRII PLDSGKEASS 600 PNRTLDLAAA LEVGPAGNRA SSDHSANSGC TRSVMTIAFE FAFESHMQEH VASMTRQYIR 660 SIISSVQRVA LALSPHLGSQ AGLRSPLGTP EAQTLARWIC QSYRCLFGCG ATQIQWRRK*

Sequence ? help Back to Top

Protein Sequence Length: 720 aa Download sequence Send to blast

MEMSCKDGKQ PIMDNGKYVR YTPEQVEALE RLYHDCPKPS SIRRQQLIRE CPILSNIEPK  60
QIKVWFQNRR CREKQRKEAS RLQAVNRKLS AMNKLLMEEN DRLQKQVSQL VYENGYFRQH  120
THNTPLATKD TSCESVVTSG QHHLTPQHPP RDASPAGLLS IAEETLTEFL SKATGTAVEW  180
VQMPGMKPGP DSSGIVAISH GCAGVGARAC GLVGLEPTRV AEILKDRPSW FRDCRAVDVL  240
NVLPTANGGT IELLYMQLYA PTTLAPGRDF WLLRYTSVLE DGSLVVCERS LKNTQNGPSM  300
PPVQHFVRAE MLPSGYLVRP CEGGGSIIHI VDHMDLEPWS VPEVLRPLYE SSTVLAQKTT  360
MVALRQLRQI AQEASQSNVT NWGRRPAALR ALSQRLSRGF NEALNGFSDE GWSMIGNDGM  420
DDVTILVNSS PDKLMGSNLS FTNGFPAVSS AVLCAKASML LQNVPPAILL RFLREHRSEW  480
ADNNIDAYAA AAVKVGPFSL QGSRVGSFGG QVILPLAHTI EHEEFLEVIK LEGVGHSPED  540
PIMPRDVFLL QLCCGMDENA VGTCAELIFA PIDATFADDA PLLPSGFRII PLDSGKEASS  600
PNRTLDLAAA LEVGPAGNRA SSDHSANSGC TRSVMTIAFE FAFESHMQEH VASMTRQYIR  660
SIISSVQRVA LALSPHLGSQ AGLRSPLGTP EAQTLARWIC QSYRCLFGCG ATQIQWRRK*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Highly expressed the developing vascular elements and the adaxial portion of cotyledons. Expressed in developing ovules, stamens and carpels. Expressed in procambium and shoot meristem. {ECO:0000269\|PubMed:14701930, ECO:0000269\|PubMed:15705957}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in the regulation of meristem development to promote lateral organ formation. May regulates procambial and vascular tissue formation or maintenance, and vascular development in inflorescence stems. {ECO:0000269\|PubMed:15598805, ECO:0000269\|PubMed:15705957, ECO:0000269\|PubMed:16617092}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Potri.003G050100.2

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin. Repressed by miR165 and miR166. {ECO:0000269\|PubMed:15773855, ECO:0000269\|PubMed:16033795, ECO:0000269\|PubMed:16617092, ECO:0000269\|PubMed:17237362}.

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	AY919621	0.0	AY919621.1 Populus trichocarpa class III HD-Zip protein 6 (HB6) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002304217.1	0.0	homeobox-leucine zipper protein ATHB-15
Swissprot	Q9ZU11	0.0	ATB15_ARATH; Homeobox-leucine zipper protein ATHB-15
TrEMBL	Q5D1M1	0.0	Q5D1M1_POPTR; Class III HD-Zip protein 6
STRING	POPTR_0003s04860.1	0.0	(Populus trichocarpa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G52150.3	0.0	HD-ZIP family protein

Link Out ? help Back to Top
Phytozome	Potri.003G050100.2
Entrez Gene	7478415

Publications ? help Back to Top
Ko JH,Prassinos C,Han KH Developmental and seasonal expression of PtaHB1, a Populus gene encoding a class III HD-Zip protein, is closely associated with secondary growth and inversely correlated with the level of microRNA (miR166). New Phytol., 2006. 169(3): p. 469-78 [PMID:16411950] Yamada T,Sasaki Y,Hashimoto K,Nakajima K,Gasser CS CORONA, PHABULOSA and PHAVOLUTA collaborate with BELL1 to confine WUSCHEL expression to the nucellus in Arabidopsis ovules. Development, 2016. 143(3): p. 422-6 [PMID:26700684]