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

GSBRNA2T00054740001

Common Name

GSBRNA2T00054740001

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

HD-ZIP

Protein Properties

Length: 797aa MW: 88559.4 Da PI: 5.6473

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00054740001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	65.7	6.4e-21	112	167	1	56
TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 +++ +++t+ q+ee+e+lF++n++p+ ++r++L+++lgL+ rqVk+WFqNrR+++k GSBRNA2T00054740001 112 KKRYHRHTNRQIEEMEALFKQNPHPDDKQRQRLSHELGLKPRQVKFWFQNRRTQMK 167 688999***********************************************998 PP
2	START	130.9	1.5e-41	320	537	1	194
HHHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS................SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT CS START 1 elaeeaaqelvkkalaeepgWvkssesengdevlqkfeeskv...............dsgealrasgvvdmvlallveellddkeqWdet 75 e+a ++ qel k+ eep+W k + ++g evl ee+ ++ ea++a +vv+m++ +lv +l+ +W+e+ GSBRNA2T00054740001 320 EIAVSCVQELTKMCNTEEPLWIKKKSDKMGGEVLCLNEEEYKrlfpwpmenhnnkgdFRREASKANAVVIMNSITLVDAFLNAD-KWSEM 408 578899*****************888888877655444445799999****9**********************.*** PP -S....EEEEEEEECTT.....EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE..TTS-EEEEEEEEE-TTS--..-TTSEE-EESSEEEE CS START 76 la....kaetlevissg.....galqlmvaelqalsplvp.RdfvfvRyirq.lgagdwvivdvSvdseqkppe.sssvvRaellpSgil 153 + +a+t++ issg g l lm+aelq+lsplvp R+ +f+Ry +q + g w+ivd +d+ q+ + +++ + + pSg++ GSBRNA2T00054740001 409 FCsivaRAKTVQIISSGvsgasGSLLLMYAELQVLSPLVPtREAYFLRYVEQnAENGNWAIVDFPIDQIQPLSAnTPHEYK--RKPSGCI 496 99999*******************************************99***********999866444444..7** PP EEEECTCEEEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHH CS START 154 iepksnghskvtwvehvdlkgrlphwllrslvksglaegak 194 i++++ng+s+v wvehv++++r++h+++ vksg+a+ga+ GSBRNA2T00054740001 497 IQDMPNGYSQVKWVEHVEVNERHVHEIFAEYVKSGIAFGAS 537 ************************************996 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	4.18E-20	104	170	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	3.3E-21	106	175	IPR009057	Homeodomain-like
PROSITE profile	PS50071	17.75	109	169	IPR001356	Homeobox domain
SMART	SM00389	6.4E-19	110	173	IPR001356	Homeobox domain
CDD	cd00086	2.47E-19	112	170	No hit	No description
Pfam	PF00046	2.1E-18	112	167	IPR001356	Homeobox domain
PROSITE pattern	PS00027	0	144	167	IPR017970	Homeobox, conserved site
PROSITE profile	PS50848	36.659	311	536	IPR002913	START domain
SuperFamily	SSF55961	2.47E-26	312	534	No hit	No description
CDD	cd08875	3.30E-96	315	536	No hit	No description
SMART	SM00234	2.9E-20	320	550	IPR002913	START domain
Pfam	PF01852	2.3E-34	321	537	IPR002913	START domain
SuperFamily	SSF55961	2.88E-12	554	775	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: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: 797 aa Download sequence Send to blast
MLTMGEENVM TTDNRFASPQ PPSSSPATIQ NPNFNFNPFN SFSSVIPKEE HGMMSMSMLM 60 MMGDGGVEEM MENGSAGGSF GSGSEQAEDP KSGNEFDVAE LQDEEQPPPA KKKRYHRHTN 120 RQIEEMEALF KQNPHPDDKQ RQRLSHELGL KPRQVKFWFQ NRRTQMKAQQ DRAENVMLRA 180 DNDNLKAENS HLQAELRCLS CPSCGGPTVL GDIPFNELHI ENCRLREELD RLSSIASRYT 240 GRPMEPSQPM INPPLEVQHH QPSLELDMSV YAGNFQEQPC SDMMLLPPQD TACYLQVQTN 300 NNSNGNNMVL ADEEKVIAME IAVSCVQELT KMCNTEEPLW IKKKSDKMGG EVLCLNEEEY 360 KRLFPWPMEN HNNKGDFRRE ASKANAVVIM NSITLVDAFL NADKWSEMFC SIVARAKTVQ 420 IISSGVSGAS GSLLLMYAEL QVLSPLVPTR EAYFLRYVEQ NAENGNWAIV DFPIDQIQPL 480 SANTPHEYKR KPSGCIIQDM PNGYSQVKWV EHVEVNERHV HEIFAEYVKS GIAFGASLIP 540 SAEGRRNMMR LSQRMMKTFC VNISTSYGQS WTALSETTKD TVRITTRKMC EPGQPTGVVL 600 AAVSTTWLPF SHAKVFDLLR HQHHHSLLEV LFSGSSPHEV AHIANGSHPG NCISLLRINV 660 SSNSWHNVEL MLQENCIDNS GSLIVYSSVD VDSIKHAMNG KDPSGIPLLP LGFSVVPVNY 720 PDQVEGVSVN SHPLPSCLLT VGIQVLASNV PTAKPNLSTV TTINNHLCSI VNQITSVLSS 780 TLPPAGDDAV AKQEVI*

Sequence ? help Back to Top

Protein Sequence Length: 797 aa Download sequence Send to blast

MLTMGEENVM TTDNRFASPQ PPSSSPATIQ NPNFNFNPFN SFSSVIPKEE HGMMSMSMLM  60
MMGDGGVEEM MENGSAGGSF GSGSEQAEDP KSGNEFDVAE LQDEEQPPPA KKKRYHRHTN  120
RQIEEMEALF KQNPHPDDKQ RQRLSHELGL KPRQVKFWFQ NRRTQMKAQQ DRAENVMLRA  180
DNDNLKAENS HLQAELRCLS CPSCGGPTVL GDIPFNELHI ENCRLREELD RLSSIASRYT  240
GRPMEPSQPM INPPLEVQHH QPSLELDMSV YAGNFQEQPC SDMMLLPPQD TACYLQVQTN  300
NNSNGNNMVL ADEEKVIAME IAVSCVQELT KMCNTEEPLW IKKKSDKMGG EVLCLNEEEY  360
KRLFPWPMEN HNNKGDFRRE ASKANAVVIM NSITLVDAFL NADKWSEMFC SIVARAKTVQ  420
IISSGVSGAS GSLLLMYAEL QVLSPLVPTR EAYFLRYVEQ NAENGNWAIV DFPIDQIQPL  480
SANTPHEYKR KPSGCIIQDM PNGYSQVKWV EHVEVNERHV HEIFAEYVKS GIAFGASLIP  540
SAEGRRNMMR LSQRMMKTFC VNISTSYGQS WTALSETTKD TVRITTRKMC EPGQPTGVVL  600
AAVSTTWLPF SHAKVFDLLR HQHHHSLLEV LFSGSSPHEV AHIANGSHPG NCISLLRINV  660
SSNSWHNVEL MLQENCIDNS GSLIVYSSVD VDSIKHAMNG KDPSGIPLLP LGFSVVPVNY  720
PDQVEGVSVN SHPLPSCLLT VGIQVLASNV PTAKPNLSTV TTINNHLCSI VNQITSVLSS  780
TLPPAGDDAV AKQEVI*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in shoot apical meristem (SAM) with higher levels in L1 cells and the epidermal layer of young leaves. Expressed in the L1 of apical inflorescence meristems, early flower primordia, carpel and stamen filament epidermis, ovule primordia, nucellus and chalaze. {ECO:0000269\|PubMed:16778018}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00054740001

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	AC189245	0.0	AC189245.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB017K02, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013693979.1	0.0	homeobox-leucine zipper protein HDG5-like
Refseq	XP_013693980.1	0.0	homeobox-leucine zipper protein HDG5-like
Refseq	XP_013693981.1	0.0	homeobox-leucine zipper protein HDG5-like
Refseq	XP_022543731.1	0.0	homeobox-leucine zipper protein HDG5-like
Swissprot	Q9FJS2	0.0	HDG5_ARATH; Homeobox-leucine zipper protein HDG5
TrEMBL	A0A078H7S3	0.0	A0A078H7S3_BRANA; BnaA06g35810D protein
STRING	Bra024984.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4356	25	48

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G46880.1	0.0	homeobox-7

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] Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] Lung SC, et al. Arabidopsis ACYL-COA-BINDING PROTEIN1 interacts with STEROL C4-METHYL OXIDASE1-2 to modulate gene expression of homeodomain-leucine zipper IV transcription factors. New Phytol., 2018. 218(1): p. 183-200 [PMID:29288621]