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

Csa04g046980.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

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: 867aa MW: 94754.7 Da PI: 6.3155

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa04g046980.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	47.2	3.6e-15	20	72	3	51
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHH CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNr 51 k ++t+eq+e+Le+++ ++++ps +r++L +++ +++ +q+kvWFqNr Csa04g046980.1 20 KYVRYTPEQVEALERVYTECPKPSSLRRQQLIRECpilsNIEPKQIKVWFQNR 72 5678************************************************9 PP
2	START	191.1	5.6e-60	175	383	2	205
HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..EEEEEE CS START 2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..galqlm 94 +aeea++e+++ka+ ++ Wv++ +++g++++ +++ s+++sg a+ra+g+v +++ v+e+l+d++ W ++++ ++tl vi g g+++l+ Csa04g046980.1 175 IAEEALAEFLSKATGTAVDWVQMIGMKPGPDSIGIVAISRNCSGIAARACGLVSLEPM-KVAEILKDRPSWLRDCRCVDTLSVIPAGngGTIELI 268 799*****************************************************.8888888888*************999** PP EEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXXHHHHHHHH CS START 95 vaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgrlphwllrslv 185 +++++a+++l++ Rdf+++Ry+ +l++g++v++++S++s + p+ sss+vRae++pSg+li+p+++g+s +++v+hvdl+++++++++r+l+ Csa04g046980.1 269 YTQMYAPTTLAAaRDFWTLRYSTCLEDGSYVVCERSLTSATGGPTgppSSSFVRAEMRPSGFLIRPCEGGGSILHIVDHVDLDAWSVPEVMRPLY 363 *************************************9999999******************************************* PP HHHHHHHHHHHHHHTXXXXX CS START 186 ksglaegaktwvatlqrqce 205 +s+ + ++k++va+l++ ++ Csa04g046980.1 364 ESSKILAQKMTVAALRHVRQ 383 *************98765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50071	12.438	15	72	IPR001356	Homeobox domain
SMART	SM00389	4.8E-9	17	83	IPR001356	Homeobox domain
SuperFamily	SSF46689	7.7E-13	19	85	IPR009057	Homeodomain-like
CDD	cd00086	7.93E-14	20	86	No hit	No description
Pfam	PF00046	9.3E-13	21	72	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	1.5E-14	23	72	IPR009057	Homeodomain-like
CDD	cd14686	2.67E-5	79	117	No hit	No description
PROSITE profile	PS50848	26.98	165	393	IPR002913	START domain
CDD	cd08875	9.68E-76	169	385	No hit	No description
Gene3D	G3DSA:3.30.530.20	2.2E-22	173	379	IPR023393	START-like domain
SMART	SM00234	1.1E-63	174	384	IPR002913	START domain
SuperFamily	SSF55961	3.71E-36	174	386	No hit	No description
Pfam	PF01852	3.0E-57	175	383	IPR002913	START domain
Pfam	PF08670	2.3E-48	720	865	IPR013978	MEKHLA

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009855	Biological Process	determination of bilateral symmetry
GO:0009944	Biological Process	polarity specification of adaxial/abaxial axis
GO:0010072	Biological Process	primary shoot apical meristem specification
GO:0080060	Biological Process	integument development
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: 867 aa Download sequence Send to blast
MMMVHTMNRE SPDNGLDSGK YVRYTPEQVE ALERVYTECP KPSSLRRQQL IRECPILSNI 60 EPKQIKVWFQ NRSFFLILRC REKQRKEAAR LQTVNRKLNA MNKLLMEEND RLQKQVSHLV 120 YENGHMKHQL HTASGTTTDN SCESVVVSGQ QHQQQNSNPQ HLQRDANNPA GLLSIAEEAL 180 AEFLSKATGT AVDWVQMIGM KPGPDSIGIV AISRNCSGIA ARACGLVSLE PMKVAEILKD 240 RPSWLRDCRC VDTLSVIPAG NGGTIELIYT QMYAPTTLAA ARDFWTLRYS TCLEDGSYVV 300 CERSLTSATG GPTGPPSSSF VRAEMRPSGF LIRPCEGGGS ILHIVDHVDL DAWSVPEVMR 360 PLYESSKILA QKMTVAALRH VRQIAQETSG EVQYGGGRQP AVLRTFSQRL CRGFNDAVNG 420 FVDDGWTPMG SDGAEDITVM INLSPGKFGG AQYGNSFLPS FGSGVLCAKA SMLLQSLSNQ 480 LESHSFIKNV PPAVLIRFLR EHRSEWADYG VDAYAAASLR ASPFAVPCAR AGGFPSNQVI 540 LPLAQTVEHE ESLEVVRLEG HAYSPEDMGL ARDMYLLQLC SGVDENVVGG CAQLVFAPID 600 ESFADDAPLL PSGFRVIPLE HKSTPNGASA NRTLDLASAL EGSTRQAGEA DPNGCNFRSV 660 ITIAFQFTFD NHSRDSVASM ARQYVRSIVG SIQRVALAIA PRPGSSISPI SVPTSPEALT 720 LVRWISRSYS LHTGAGLFGS DSQPSGDTLL HQLWNHTDAI LCCSLKTNAS PVFTFANQTG 780 LDMLETTLVA LQDIMLDKTL DESGRKALCS EFPKIMQQGY AHLPAGVCAS SMGRMVSYEQ 840 ATVWKVLEDD ESNHCLAFMF VNWSFV*

Sequence ? help Back to Top

Protein Sequence Length: 867 aa Download sequence Send to blast

MMMVHTMNRE SPDNGLDSGK YVRYTPEQVE ALERVYTECP KPSSLRRQQL IRECPILSNI  60
EPKQIKVWFQ NRSFFLILRC REKQRKEAAR LQTVNRKLNA MNKLLMEEND RLQKQVSHLV  120
YENGHMKHQL HTASGTTTDN SCESVVVSGQ QHQQQNSNPQ HLQRDANNPA GLLSIAEEAL  180
AEFLSKATGT AVDWVQMIGM KPGPDSIGIV AISRNCSGIA ARACGLVSLE PMKVAEILKD  240
RPSWLRDCRC VDTLSVIPAG NGGTIELIYT QMYAPTTLAA ARDFWTLRYS TCLEDGSYVV  300
CERSLTSATG GPTGPPSSSF VRAEMRPSGF LIRPCEGGGS ILHIVDHVDL DAWSVPEVMR  360
PLYESSKILA QKMTVAALRH VRQIAQETSG EVQYGGGRQP AVLRTFSQRL CRGFNDAVNG  420
FVDDGWTPMG SDGAEDITVM INLSPGKFGG AQYGNSFLPS FGSGVLCAKA SMLLQSLSNQ  480
LESHSFIKNV PPAVLIRFLR EHRSEWADYG VDAYAAASLR ASPFAVPCAR AGGFPSNQVI  540
LPLAQTVEHE ESLEVVRLEG HAYSPEDMGL ARDMYLLQLC SGVDENVVGG CAQLVFAPID  600
ESFADDAPLL PSGFRVIPLE HKSTPNGASA NRTLDLASAL EGSTRQAGEA DPNGCNFRSV  660
ITIAFQFTFD NHSRDSVASM ARQYVRSIVG SIQRVALAIA PRPGSSISPI SVPTSPEALT  720
LVRWISRSYS LHTGAGLFGS DSQPSGDTLL HQLWNHTDAI LCCSLKTNAS PVFTFANQTG  780
LDMLETTLVA LQDIMLDKTL DESGRKALCS EFPKIMQQGY AHLPAGVCAS SMGRMVSYEQ  840
ATVWKVLEDD ESNHCLAFMF VNWSFV*

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in the determination of adaxial-abaxial polarity in ovule primordium. Specifies adaxial leaf fates. {ECO:0000269\|PubMed:11395776, ECO:0000269\|PubMed:15328016, ECO:0000269\|PubMed:15598805}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa04g046980.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by miR165 and miR166. {ECO:0000269\|PubMed:14999284, ECO:0000269\|PubMed:16033795, 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	AJ441291	0.0	AJ441291.1 Arabidopsis thaliana mRNA for homeodomain-leucine zipper protein 14 (ATHB-14 gene).
GenBank	AY099791	0.0	AY099791.1 Arabidopsis thaliana homeodomain transcription factor (At2g34710) mRNA, complete cds.
GenBank	BT000335	0.0	BT000335.1 Arabidopsis thaliana homeodomain transcription factor (At2g34710) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010504942.1	0.0	PREDICTED: homeobox-leucine zipper protein ATHB-14
Swissprot	O04291	0.0	ATB14_ARATH; Homeobox-leucine zipper protein ATHB-14
TrEMBL	D7LH38	0.0	D7LH38_ARALL; Uncharacterized protein
STRING	XP_010504942.1	0.0	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4256	26	53

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G34710.1	0.0	HD-ZIP family protein

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Jia X, et al. Functional plasticity of miR165/166 in plant development revealed by small tandem target mimic. Plant Sci., 2015. 233: p. 11-21 [PMID:25711809] Müller CJ, et al. PHABULOSA Mediates an Auxin Signaling Loop to Regulate Vascular Patterning in Arabidopsis. Plant Physiol., 2016. 170(2): p. 956-70 [PMID:26637548] 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] Kim ES, et al. HAWAIIAN SKIRT regulates the quiescent center-independent meristem activity in Arabidopsis roots. Physiol Plant, 2016. 157(2): p. 221-33 [PMID:26968317] Husbands AY,Aggarwal V,Ha T,Timmermans MC In Planta Single-Molecule Pull-Down Reveals Tetrameric Stoichiometry of HD-ZIPIII:LITTLE ZIPPER Complexes. Plant Cell, 2016. 28(8): p. 1783-94 [PMID:27385814] Di Ruocco G, et al. Differential spatial distribution of miR165/6 determines variability in plant root anatomy. Development, 2018. [PMID:29158439] Wójcik AM,Nodine MD,Gaj MD miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis. Front Plant Sci, 2017. 8: p. 2024 [PMID:29321785] Hashimoto K,Miyashima S,Sato-Nara K,Yamada T,Nakajima K Functionally Diversified Members of the MIR165/6 Gene Family Regulate Ovule Morphogenesis in Arabidopsis thaliana. Plant Cell Physiol., 2018. 59(5): p. 1017-1026 [PMID:29462472]