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; Capsella

Family

HD-ZIP

Protein Properties

Length: 841aa MW: 92336.8 Da PI: 6.5054

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cagra.1508s0156.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	58.9	8.6e-19	20	78	3	57
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57 k ++t+eq+e+Le++++++++ps +r++L +++ +++ rq+kvWFqNrR +ek+ Cagra.1508s0156.1.p 20 KYVRYTPEQVEALERVYAECPKPSSLRRQQLIRECpilcNIEPRQIKVWFQNRRCREKQ 78 5678*****************************************************97 PP
2	START	172.2	3.4e-54	169	377	2	205
HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..E CS START 2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..g 89 +aee+++e++ ka ++ Wv++ +++g++++ +++ s+++sg a+ra+g+v +++ v+e+l+d++ W ++++++etl+vi +g g Cagra.1508s0156.1.p 169 IAEETLAEFLCKARGTAVDWVQMIGMKPGPDSIGIVAVSRNCSGIAARACGLVSLEPM-KVAEILKDRPSWFRDCRSVETLNVIPTGngG 257 7899****************************************************.8888888888***************** PP EEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SS CS START 90 alqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgr 175 +++l +++ +a+++l++ Rdf+++Ry+ +l++g++v++++S++s + p+ sss+vRa++l Sg+li+p+++g+s + +v+hvdl+ + Cagra.1508s0156.1.p 258 TIELVNTQIYAPTTLAAaRDFWTLRYSTTLEDGSYVVCERSLTSATGGPNgpmSSSFVRAKMLSSGFLIRPCDGGGSIIQIVDHVDLDVS 347 *********************************************99*********************************** PP XXHHHHHHHHHHHHHHHHHHHHHHTXXXXX CS START 176 lphwllrslvksglaegaktwvatlqrqce 205 +++++lr+l++s+ + ++k++va+l++ ++ Cagra.1508s0156.1.p 348 SVPEVLRPLYESSKILAQKMTVAALRHVRQ 377 ***********************98765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50071	15.451	15	79	IPR001356	Homeobox domain
SMART	SM00389	4.2E-16	17	83	IPR001356	Homeobox domain
SuperFamily	SSF46689	1.41E-16	19	81	IPR009057	Homeodomain-like
CDD	cd00086	5.82E-17	20	80	No hit	No description
Pfam	PF00046	2.5E-16	21	78	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	8.0E-19	22	78	IPR009057	Homeodomain-like
CDD	cd14686	3.21E-6	72	111	No hit	No description
PROSITE profile	PS50848	26.074	159	387	IPR002913	START domain
CDD	cd08875	3.41E-69	163	379	No hit	No description
Gene3D	G3DSA:3.30.530.20	4.1E-20	168	373	IPR023393	START-like domain
SMART	SM00234	1.1E-51	168	378	IPR002913	START domain
SuperFamily	SSF55961	9.06E-35	168	380	No hit	No description
Pfam	PF01852	2.2E-51	169	377	IPR002913	START domain
Pfam	PF08670	2.6E-49	693	839	IPR013978	MEKHLA

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009855	Biological Process	determination of bilateral symmetry
GO:0009880	Biological Process	embryonic pattern specification
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:0003677	Molecular Function	DNA binding
GO:0008289	Molecular Function	lipid binding

Sequence ? help Back to Top
Protein Sequence Length: 841 aa Download sequence Send to blast
MMAHSMDDRD SPDKGFDSGK YVRYTPEQVE ALERVYAECP KPSSLRRQQL IRECPILCNI 60 EPRQIKVWFQ NRRCREKQRK ESARLQTVNR KLSAMNKLLM EENDRLQKQV SHLVYENGFM 120 KHRIHTASGT TTDNSCESVV VSGQQRQQQN PTHQHPQRDA NNPANLLSIA EETLAEFLCK 180 ARGTAVDWVQ MIGMKPGPDS IGIVAVSRNC SGIAARACGL VSLEPMKVAE ILKDRPSWFR 240 DCRSVETLNV IPTGNGGTIE LVNTQIYAPT TLAAARDFWT LRYSTTLEDG SYVVCERSLT 300 SATGGPNGPM SSSFVRAKML SSGFLIRPCD GGGSIIQIVD HVDLDVSSVP EVLRPLYESS 360 KILAQKMTVA ALRHVRQIAQ ETSGEVQYSG GRQPAVLRTF SQRLCRGFND AVNGFADDGW 420 SPMSSDGAED ITIMINSSSA KFAGSQYGSS FLPSFGSGVL CAKASMLLQN VPPLVLIRFL 480 REHRAEWADY GVDAYSAASL RATPFAVPCV RTGGFPSNQV ILPLAQTLEH EEFLEVVRLG 540 GHAYSPEDMG LSRDMYLLQL CSGVDENVVG GCAQLVFAPI DESFADDAPL LPSGFRVIPL 600 EQKTNPNDHQ SASRTRDLAS SLDGSTKTDS ETNSRLVLTI AFQFTFDNHS RDNVATMARQ 660 YVRNVVGSIQ RVALAITPRP GSMQLPTSPE ALTLVRWITR SYSTHTGADL FGSDSQSCGG 720 DTLLKLLWNH SDAILCCSLK TNASPVFTFA NQAGLDMLET TLVALQDIML DKTLDDSGRK 780 ALCSEFAKIM QQGYANLPAG ICMSSMGRPV SYEQATVWKV VDDNESNHCL AFILVNWSFV 840 *

Sequence ? help Back to Top

Protein Sequence Length: 841 aa Download sequence Send to blast

MMAHSMDDRD SPDKGFDSGK YVRYTPEQVE ALERVYAECP KPSSLRRQQL IRECPILCNI  60
EPRQIKVWFQ NRRCREKQRK ESARLQTVNR KLSAMNKLLM EENDRLQKQV SHLVYENGFM  120
KHRIHTASGT TTDNSCESVV VSGQQRQQQN PTHQHPQRDA NNPANLLSIA EETLAEFLCK  180
ARGTAVDWVQ MIGMKPGPDS IGIVAVSRNC SGIAARACGL VSLEPMKVAE ILKDRPSWFR  240
DCRSVETLNV IPTGNGGTIE LVNTQIYAPT TLAAARDFWT LRYSTTLEDG SYVVCERSLT  300
SATGGPNGPM SSSFVRAKML SSGFLIRPCD GGGSIIQIVD HVDLDVSSVP EVLRPLYESS  360
KILAQKMTVA ALRHVRQIAQ ETSGEVQYSG GRQPAVLRTF SQRLCRGFND AVNGFADDGW  420
SPMSSDGAED ITIMINSSSA KFAGSQYGSS FLPSFGSGVL CAKASMLLQN VPPLVLIRFL  480
REHRAEWADY GVDAYSAASL RATPFAVPCV RTGGFPSNQV ILPLAQTLEH EEFLEVVRLG  540
GHAYSPEDMG LSRDMYLLQL CSGVDENVVG GCAQLVFAPI DESFADDAPL LPSGFRVIPL  600
EQKTNPNDHQ SASRTRDLAS SLDGSTKTDS ETNSRLVLTI AFQFTFDNHS RDNVATMARQ  660
YVRNVVGSIQ RVALAITPRP GSMQLPTSPE ALTLVRWITR SYSTHTGADL FGSDSQSCGG  720
DTLLKLLWNH SDAILCCSLK TNASPVFTFA NQAGLDMLET TLVALQDIML DKTLDDSGRK  780
ALCSEFAKIM QQGYANLPAG ICMSSMGRPV SYEQATVWKV VDDNESNHCL AFILVNWSFV  840
*

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. Binds to the DNA sequence 5'-GTAAT[GC]ATTAC-3'. {ECO:0000269\|PubMed:11395776, ECO:0000269\|PubMed:15598805, ECO:0000269\|PubMed:17900520, ECO:0000269\|PubMed:9747806}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00170	DAP	Transfer from AT1G30490	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Cagra.1508s0156.1.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin. 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	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AJ440967	0.0	AJ440967.1 Arabidopsis thaliana mRNA for homeodomain-leucine zipper protein (hb9 gene).
GenBank	AK226570	0.0	AK226570.1 Arabidopsis thaliana mRNA for HD-Zip protein, complete cds, clone: RAFL07-12-P11.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006306764.1	0.0	homeobox-leucine zipper protein ATHB-9
Swissprot	O04292	0.0	ATBH9_ARATH; Homeobox-leucine zipper protein ATHB-9
TrEMBL	R0GUM6	0.0	R0GUM6_9BRAS; Uncharacterized protein
STRING	Cagra.1508s0156.1.p	0.0	(Capsella grandiflora)
STRING	XP_006306764.1	0.0	(Capsella rubella)

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
AT1G30490.1	0.0	HD-ZIP family protein

Link Out ? help Back to Top
Phytozome	Cagra.1508s0156.1.p

Publications ? help Back to Top
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] 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] 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]