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

RrC13422_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

HD-ZIP

Protein Properties

Length: 407aa MW: 46899.1 Da PI: 7.1147

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC13422_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	58.5	1.1e-18	28	79	5	56
SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 5 ttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 ++++++q+++Le++F+++++p+ ++r +L ++l+L+ +q+k+WFqN+R++ k RrC13422_p1 28 HRHSTYQIQRLEAYFKECPHPDDSQRHKLGEELKLKPKQIKFWFQNKRTQAK 79 67899********************************************988 PP
2	START	92.3	9.4e-30	231	407	2	163
HHHHHHHHHHHHHHHC-TT-EEEE.......EXCCTTEEEEEEESSS...SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEEEEEEEC CS START 2 laeeaaqelvkkalaeepgWvkss.......esengdevlqkfeeskv..dsgealrasgvvdmvlallveellddkeqWdetla....kaetlevis 86 ++ +a +e+++++ e p+W kss ++en++++ +k++ k+ ++e +++++vv+m++ +lv +ld+ +W + + +a+t+ v++ RrC13422_p1 231 MMVSAVTEVIRLIHTEGPMWIKSSiddrlviDQENYEKSFTKISHLKSpsTRIESSKEVVVVPMDARNLVDMFLDTE-KWARVFStivnEAKTIHVLE 327 577899***********************************88888999**********************.999999999999999988 PP TT.....EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEE CS START 87 sg.....galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghsk 163 s ++ qlm+ +l lsplvp R+f+++R+++q +++ wvi+dvS + + e + + ++pSg+li+ ++ng sk RrC13422_p1 328 SMdtqrqNFSQLMYEQLHILSPLVPpREFMILRCCQQIEEDLWVIADVSCHHVNIDFE---SPTCSKRPSGCLIQAVPNGLSK 407 87788********************************************9998764...566888***********997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	1.38E-16	7	80	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	3.7E-18	8	81	IPR009057	Homeodomain-like
PROSITE profile	PS50071	15.273	21	81	IPR001356	Homeobox domain
SMART	SM00389	4.0E-15	23	85	IPR001356	Homeobox domain
CDD	cd00086	3.37E-14	28	81	No hit	No description
Pfam	PF00046	4.4E-16	28	79	IPR001356	Homeobox domain
PROSITE profile	PS50848	29.725	221	407	IPR002913	START domain
SuperFamily	SSF55961	2.2E-21	222	406	No hit	No description
CDD	cd08875	2.47E-69	225	407	No hit	No description
Pfam	PF01852	2.0E-23	232	407	IPR002913	START domain
Gene3D	G3DSA:3.30.530.20	3.9E-7	270	403	IPR023393	START-like domain

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

Sequence ? help Back to Top
Protein Sequence Length: 407 aa Download sequence Send to blast
MEFNHDSSSS NELETSMNTT NGDNKIYHRH STYQIQRLEA YFKECPHPDD SQRHKLGEEL 60 KLKPKQIKFW FQNKRTQAKA QIEKAINTSL RAENIRIRRE NEVMQEALKT VTCPPCGGPR 120 LGKEDRQLYL QKLHAQNAYL KGQREQILDF VNNNGGHSIP SVSSFAYRQG PSSYESTSSN 180 PHVSYGTSSN HPIQPPSLER EPYTREHLNI AQQLQHFQPL SQMEKMTMSE MMVSAVTEVI 240 RLIHTEGPMW IKSSIDDRLV IDQENYEKSF TKISHLKSPS TRIESSKEVV VVPMDARNLV 300 DMFLDTEKWA RVFSTIVNEA KTIHVLESMD TQRQNFSQLM YEQLHILSPL VPPREFMILR 360 CCQQIEEDLW VIADVSCHHV NIDFESPTCS KRPSGCLIQA VPNGLSK

Sequence ? help Back to Top

Protein Sequence Length: 407 aa Download sequence Send to blast

MEFNHDSSSS NELETSMNTT NGDNKIYHRH STYQIQRLEA YFKECPHPDD SQRHKLGEEL  60
KLKPKQIKFW FQNKRTQAKA QIEKAINTSL RAENIRIRRE NEVMQEALKT VTCPPCGGPR  120
LGKEDRQLYL QKLHAQNAYL KGQREQILDF VNNNGGHSIP SVSSFAYRQG PSSYESTSSN  180
PHVSYGTSSN HPIQPPSLER EPYTREHLNI AQQLQHFQPL SQMEKMTMSE MMVSAVTEVI  240
RLIHTEGPMW IKSSIDDRLV IDQENYEKSF TKISHLKSPS TRIESSKEVV VVPMDARNLV  300
DMFLDTEKWA RVFSTIVNEA KTIHVLESMD TQRQNFSQLM YEQLHILSPL VPPREFMILR  360
CCQQIEEDLW VIADVSCHHV NIDFESPTCS KRPSGCLIQA VPNGLSK

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor that binds to the DNA sequence 5'-GCATTAAATGCGCA-3'. {ECO:0000269\|PubMed:16778018}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013619236.1	0.0	PREDICTED: homeobox-leucine zipper protein HDG9-like
Refseq	XP_022551076.1	0.0	homeobox-leucine zipper protein HDG9-like isoform X1
Swissprot	Q9FFI0	1e-165	HDG9_ARATH; Homeobox-leucine zipper protein HDG9
TrEMBL	A0A3N6R7D8	0.0	A0A3N6R7D8_BRACR; Uncharacterized protein
STRING	Bo2g013570.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM8468	15	31

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G17320.1	1e-159	homeodomain GLABROUS 9

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]