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

Rsa1.0_00601.1_g00013.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

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

Family

HB-other

Protein Properties

Length: 1720aa MW: 193128 Da PI: 5.0657

Description

HB-other family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00601.1_g00013.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	58	1.6e-18	42	97	2	57
T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS Homeobox 2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 kR+ t+ ql++Le+++ ++ yps+++r+eL++kl+L++rq ++WF+ rR k+kk Rsa1.0_00601.1_g00013.1 42 PKRQMKTPFQLQTLEQVYSEETYPSEATRAELSEKLDLSDRQLQMWFCHRRLKDKK 97 69****************************************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	7.5E-17	23	97	IPR009057	Homeodomain-like
SuperFamily	SSF46689	4.19E-16	34	97	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.325	38	98	IPR001356	Homeobox domain
SMART	SM00389	5.8E-18	40	102	IPR001356	Homeobox domain
Pfam	PF00046	3.4E-16	42	97	IPR001356	Homeobox domain
CDD	cd00086	4.80E-14	43	97	No hit	No description
PROSITE profile	PS50827	18.014	580	639	IPR018501	DDT domain
SMART	SM00571	4.4E-24	580	639	IPR018501	DDT domain
Pfam	PF02791	9.1E-18	581	636	IPR018501	DDT domain
Pfam	PF05066	4.4E-15	762	829	IPR007759	HB1/Asxl, restriction endonuclease HTH domain
Pfam	PF15612	5.8E-6	968	1010	IPR028942	WHIM1 domain
Pfam	PF15613	1.3E-11	1126	1198	IPR028941	WHIM2 domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0010228	Biological Process	vegetative to reproductive phase transition of meristem
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 1720 aa Download sequence Send to blast
MGSDGEEDHQ IRNVAGESNH NNNKNKKMKK VVVVDTKDSP KPKRQMKTPF QLQTLEQVYS 60 EETYPSEATR AELSEKLDLS DRQLQMWFCH RRLKDKKDGQ VKKPPPKPSS SASLPPPAFS 120 SVNHLPPAPE LDSSGSDDSG SASASGSGCS PYSEQQQQPR RDFARSGSSN SRPEYEPPPP 180 PPQPRSSVMV RRAVVCIEAQ LGEPLRDDGP ILGLEFDPLP PGAFGTPIAF SLFFGRGQTI 240 VAMQTHQGHP YESKMYEPHD VRPRRSQAAT SSYHEQQSLN DPSSFTPDMY GRYSESHARG 300 VDYETSRPRS SSFMQQGNGP LPKSYGNASR NCSTSQQDMP SPILPSARGD GFLLERESSG 360 LRAEDPYLLS DGVRMSNDVH RKGKINDGRL GRGSGQKDLE KLELQRKRNE ERMKKEMERY 420 ERERRKEEER LMRERLKEEE RLQREQRREM ERREKFLQRE NERAERNKQK EEIRREKEAI 480 RRKIAVEKAT ARRIAKEAMD LIEDEQLELM DLAAASKGLS SVIQLDHDTL QNLDLYRGMV 540 SLPNYEIDLA STGFDSLSTF PPKALQLKMP FTISPWKDSE ENVGNLLMVW RFLISFSDVL 600 DLWPFTLDEF IQALHDYDSR LLGEIHITLL RSVIRDIEDV ARTPYSGIGN NQYTTANPEG 660 GHPQIVEGAY AWGFDIRSWK KHLNPLTWPE ILRQLGLSSG FGPRLKKNNS RVTHTGDKDE 720 AKGCEDIIST LRSGSAAETA FASMLEKGLL APRKSRHRLT PGTVKFAAFH VLSLEGSKGL 780 TVIELADKIQ KSGLRDLRTS KTPEASISVA LTRDVKLFER IAPSTYCVRA PYVKDPADGE 840 AILAEARKKI RAFENGLAGP EDVNDLEKDE DFECDIDEDP EVDELAALPS ASKNADLGEA 900 NGLPGKGGEI MFSDVKTDVK SEVEKGVSSP PTSSMKSIVP QCHSEQRKDT ALYSVDNTNA 960 VVGDSNQGQS WVLGLSEGDY CHLSVKERLE ALVVLVGIAN EGNSIRASLE DRLEAANSLK 1020 KQMWAEAQLD NSCMRDVLKF DIQNLSSSKT ETTREMDSFN RDPSQLIDET KTPLEVVSND 1080 LHKLSTERVS FNQEGNISQE NFSSKRSRSQ LKSYISHKAE EVYPYRSLPL GQDRRHNRYW 1140 HVAASASKSD PCSGLIFVEL HDGRWRLIDS AEAFDTLVAS LDMRGVRESH LRIMLLKIEG 1200 AFKENACKKN CAVNHSPTDS VIPSSAILGS CSDSMGASTS IRVELGRDDK EIKSFLKRFH 1260 AFQRWMWTET YSSLPSCARK YGKKRCELLA TCEVCVASYL SEYTHCTSCH QRLDMADNSE 1320 RKIIDSGLTA SPLPFGVRLL KALLVYLEAS VPDEAFESFW TEEKRKNWGF RLNASSSPEE 1380 LVQVLTYLEN AIKKESLSSN FVSAKELLGA DDQGSVDVFP WIPNTVSAVA LRLSDLDASI 1440 VYVKPEKPEP VLEDESEQIS LFPGNSLLKG KGPKEQEDQD EVVPNSGKKS NKRRVIFGSG 1500 SSRKVKKKKV QGASGRFVAA RSNVAASRSM MSVELNHQVP GRGKRTVRKR PERNDEDNYR 1560 LVSRMADIVR PTSEEVEDEE EEEEQTFRGI DEDWAGETPR EMDEEWASET PNRVMTPMQV 1620 DDESDDNSVG VQSEDDDDDD EGQFVSYSQR NKWGFDWNSN PNEAMEGVEE EVVGVEQVQR 1680 EYVAEMTESS EEEDDDVPAA SNAAANNYDR ESEDYSSSDS

Sequence ? help Back to Top

Protein Sequence Length: 1720 aa Download sequence Send to blast

MGSDGEEDHQ IRNVAGESNH NNNKNKKMKK VVVVDTKDSP KPKRQMKTPF QLQTLEQVYS  60
EETYPSEATR AELSEKLDLS DRQLQMWFCH RRLKDKKDGQ VKKPPPKPSS SASLPPPAFS  120
SVNHLPPAPE LDSSGSDDSG SASASGSGCS PYSEQQQQPR RDFARSGSSN SRPEYEPPPP  180
PPQPRSSVMV RRAVVCIEAQ LGEPLRDDGP ILGLEFDPLP PGAFGTPIAF SLFFGRGQTI  240
VAMQTHQGHP YESKMYEPHD VRPRRSQAAT SSYHEQQSLN DPSSFTPDMY GRYSESHARG  300
VDYETSRPRS SSFMQQGNGP LPKSYGNASR NCSTSQQDMP SPILPSARGD GFLLERESSG  360
LRAEDPYLLS DGVRMSNDVH RKGKINDGRL GRGSGQKDLE KLELQRKRNE ERMKKEMERY  420
ERERRKEEER LMRERLKEEE RLQREQRREM ERREKFLQRE NERAERNKQK EEIRREKEAI  480
RRKIAVEKAT ARRIAKEAMD LIEDEQLELM DLAAASKGLS SVIQLDHDTL QNLDLYRGMV  540
SLPNYEIDLA STGFDSLSTF PPKALQLKMP FTISPWKDSE ENVGNLLMVW RFLISFSDVL  600
DLWPFTLDEF IQALHDYDSR LLGEIHITLL RSVIRDIEDV ARTPYSGIGN NQYTTANPEG  660
GHPQIVEGAY AWGFDIRSWK KHLNPLTWPE ILRQLGLSSG FGPRLKKNNS RVTHTGDKDE  720
AKGCEDIIST LRSGSAAETA FASMLEKGLL APRKSRHRLT PGTVKFAAFH VLSLEGSKGL  780
TVIELADKIQ KSGLRDLRTS KTPEASISVA LTRDVKLFER IAPSTYCVRA PYVKDPADGE  840
AILAEARKKI RAFENGLAGP EDVNDLEKDE DFECDIDEDP EVDELAALPS ASKNADLGEA  900
NGLPGKGGEI MFSDVKTDVK SEVEKGVSSP PTSSMKSIVP QCHSEQRKDT ALYSVDNTNA  960
VVGDSNQGQS WVLGLSEGDY CHLSVKERLE ALVVLVGIAN EGNSIRASLE DRLEAANSLK  1020
KQMWAEAQLD NSCMRDVLKF DIQNLSSSKT ETTREMDSFN RDPSQLIDET KTPLEVVSND  1080
LHKLSTERVS FNQEGNISQE NFSSKRSRSQ LKSYISHKAE EVYPYRSLPL GQDRRHNRYW  1140
HVAASASKSD PCSGLIFVEL HDGRWRLIDS AEAFDTLVAS LDMRGVRESH LRIMLLKIEG  1200
AFKENACKKN CAVNHSPTDS VIPSSAILGS CSDSMGASTS IRVELGRDDK EIKSFLKRFH  1260
AFQRWMWTET YSSLPSCARK YGKKRCELLA TCEVCVASYL SEYTHCTSCH QRLDMADNSE  1320
RKIIDSGLTA SPLPFGVRLL KALLVYLEAS VPDEAFESFW TEEKRKNWGF RLNASSSPEE  1380
LVQVLTYLEN AIKKESLSSN FVSAKELLGA DDQGSVDVFP WIPNTVSAVA LRLSDLDASI  1440
VYVKPEKPEP VLEDESEQIS LFPGNSLLKG KGPKEQEDQD EVVPNSGKKS NKRRVIFGSG  1500
SSRKVKKKKV QGASGRFVAA RSNVAASRSM MSVELNHQVP GRGKRTVRKR PERNDEDNYR  1560
LVSRMADIVR PTSEEVEDEE EEEEQTFRGI DEDWAGETPR EMDEEWASET PNRVMTPMQV  1620
DDESDDNSVG VQSEDDDDDD EGQFVSYSQR NKWGFDWNSN PNEAMEGVEE EVVGVEQVQR  1680
EYVAEMTESS EEEDDDVPAA SNAAANNYDR ESEDYSSSDS

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	90	97	RRLKDKKD
2	1491	1508	KRRVIFGSGSSRKVKKKK

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional regulator required for the maintenance of the plant vegetative phase. In association with CHR11 or CHR17 may prevent the early activation of the vegetative-to-reproductive transition by regulating key genes that contribute to flower timing, such as FT, SEP1, SEP3, AGL8/FUL, SOC1 and FLC. {ECO:0000269\|PubMed:22694359}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_00601.1_g00013.1

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_018432575.1	0.0	PREDICTED: homeobox-DDT domain protein RLT1 isoform X1
Swissprot	F4HY56	0.0	RLT1_ARATH; Homeobox-DDT domain protein RLT1
TrEMBL	M4EVS5	0.0	M4EVS5_BRARP; Uncharacterized protein
STRING	Bra032908.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM8347	22	36

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G28420.1	0.0	homeobox-1