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

XP_009109718.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

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

Family

HB-other

Protein Properties

Length: 1572aa MW: 177109 Da PI: 5.0103

Description

HB-other family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009109718.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	59.9	4.2e-19	39	95	1	57
TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS Homeobox 1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 ++kR+ t+ ql++Lee+++++ yps+++r+eL++kl+L++rq ++WF+ rR k+kk XP_009109718.1 39 KSKRQMKTPFQLQTLEEVYAEETYPSEATRAELSEKLDLSDRQLQMWFCHRRLKDKK 95 689****************************************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	5.13E-16	35	95	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.309	36	96	IPR001356	Homeobox domain
SMART	SM00389	1.7E-18	38	100	IPR001356	Homeobox domain
CDD	cd00086	8.97E-15	39	95	No hit	No description
Pfam	PF00046	9.4E-17	39	95	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	6.3E-17	41	95	IPR009057	Homeodomain-like
SMART	SM00571	6.0E-24	503	562	IPR018501	DDT domain
PROSITE profile	PS50827	17.54	503	562	IPR018501	DDT domain
Pfam	PF02791	1.5E-17	504	559	IPR018501	DDT domain
Pfam	PF05066	3.6E-13	685	752	IPR007759	HB1/Asxl, restriction endonuclease HTH domain
Pfam	PF15612	1.4E-6	860	902	IPR028942	WHIM1 domain
Pfam	PF15613	9.6E-12	994	1066	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:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 1572 aa Download sequence Send to blast
MEMGSDEEDQ IKNVNVGDVN KNKKKKIDTF NNKDSLSSKS KRQMKTPFQL QTLEEVYAEE 60 TYPSEATRAE LSEKLDLSDR QLQMWFCHRR LKDKKDGQAK KPVQPAATPA LSSVNELPAA 120 DDRSGSGSGS GCSPYSESRR NFESGSGSSG ADLGEYEKGG YEPPRLSVMV RRAVVCVEAQ 180 LGEPLREDGP VLGMEFDQLP PGAFGTPIAM QTHQGHLYES KMYEPHDVRP PRSAARSFHE 240 QQSLDDPSSY TPEINGRYSE SHARGMDYET SRSKSSSFMH GNGPVPRPYG THGNASLNGS 300 TSQQDMSSPI VPSAHGDSFL LERKVNDGRV GRGSGQKDPE KLEIQRKKYQ ERMRKEMERH 360 ERERRKEEER LMRERIKEEE KLQREQRREM ERREKFLQRE NERAEKQKQK DEIRRERDAI 420 RRKIAIEKAT ARRIARESMD LIEDEQLELM DLAAASKGLP SVLQLDHDTL QNLELYRDSL 480 SAFPPKALQL KMPFTISPWK DSEENVGNLL MVWRFLISFS DVLDLWPFTL DEFIQAFHDY 540 DSRLLGEIHI TLLRSIIRDI EDVARTPYSG IGNNQYTTAN PEGGHPQIVE GAYAWGFDIR 600 SWKNHLNPLT WPEILRQLAL SSGFGPKLKN KSSHVTQTAH KDEAKGCEDN ISTIRSGSAA 660 ESAFASMLEK GLLAPRKSRH RLTPGTVKFA ALHVLSLEGS KGLTLIELAD KIQKSGLRDL 720 STSKTPEASI SVALTRDVKL FERIAPCTYC VRAPYVKDPA DGDAILAEAR KKIKAFENGL 780 TGPEDLNDLE RDEDFECDVD EDPEVDDLAT PARASNGLSG KGEDAMFSDV KSIVPQYHSK 840 DSAVSSVDDN NDVVEDSNQG QSWIQGLTEG DYCHLSVEER LEALVALVGI VNEGNSLRAS 900 LEDRMEAANS LKKQMWAEAQ LDNSCMRDVL KLGRDPSQRM DESKPMEAVS NDLHKSERGF 960 INQEATQENC SSKRSRSQLK SYIGDKAEEV YPYRSLPLGQ DRHRNRYWHF AASASKTDPC 1020 SGLIFVELHD GKWRLIDSEE AFDFLVASLD MRGIRESHLR IMLLKIEGSF KENAYKAKSV 1080 VNHSPADSVS PSSAIFGSNS DSMEASTSIR VELGRNDREK ESLSKRFHDF QRWMWTETYS 1140 SLPSCARKHG KKRCELLATC EVCVASYLSE YTHCTSCHRR LSMFDSSERK ILDSALTASP 1200 LPFGARLLKA LLVFLEACVP DEALESFWTE DKRKDWGFRL NASSSPEELL QVLISLESAI 1260 KKESLSSSFV SAKELSGVAD DSGSVDVFPW IPKTISAVAL RLLDLDASII YVKPEKPELI 1320 SEDDKEQISI FPGKSLTKGK GAKEQEDQDE VIVSNSGKKS KKRRVRFGRV SNRNVKRKKV 1380 QESPDRFVAG RSDVSVDRNL GSVALNHHQV PGRGKRTVRK RPERNDEDNY RLVSRMADIV 1440 RPNSEDVEEE EEDEQTFRDI NEDWASETPR EMEVMTPMQV DDESDNSVGV ESEDDDEGQF 1500 VVYDQRNKWG LDWNSNPNEA MEDDEEVVGV EQVEREDVAE MSESSEDDDA PANNAAANNY 1560 ESGSEDYSSS DS

Sequence ? help Back to Top

Protein Sequence Length: 1572 aa Download sequence Send to blast

MEMGSDEEDQ IKNVNVGDVN KNKKKKIDTF NNKDSLSSKS KRQMKTPFQL QTLEEVYAEE  60
TYPSEATRAE LSEKLDLSDR QLQMWFCHRR LKDKKDGQAK KPVQPAATPA LSSVNELPAA  120
DDRSGSGSGS GCSPYSESRR NFESGSGSSG ADLGEYEKGG YEPPRLSVMV RRAVVCVEAQ  180
LGEPLREDGP VLGMEFDQLP PGAFGTPIAM QTHQGHLYES KMYEPHDVRP PRSAARSFHE  240
QQSLDDPSSY TPEINGRYSE SHARGMDYET SRSKSSSFMH GNGPVPRPYG THGNASLNGS  300
TSQQDMSSPI VPSAHGDSFL LERKVNDGRV GRGSGQKDPE KLEIQRKKYQ ERMRKEMERH  360
ERERRKEEER LMRERIKEEE KLQREQRREM ERREKFLQRE NERAEKQKQK DEIRRERDAI  420
RRKIAIEKAT ARRIARESMD LIEDEQLELM DLAAASKGLP SVLQLDHDTL QNLELYRDSL  480
SAFPPKALQL KMPFTISPWK DSEENVGNLL MVWRFLISFS DVLDLWPFTL DEFIQAFHDY  540
DSRLLGEIHI TLLRSIIRDI EDVARTPYSG IGNNQYTTAN PEGGHPQIVE GAYAWGFDIR  600
SWKNHLNPLT WPEILRQLAL SSGFGPKLKN KSSHVTQTAH KDEAKGCEDN ISTIRSGSAA  660
ESAFASMLEK GLLAPRKSRH RLTPGTVKFA ALHVLSLEGS KGLTLIELAD KIQKSGLRDL  720
STSKTPEASI SVALTRDVKL FERIAPCTYC VRAPYVKDPA DGDAILAEAR KKIKAFENGL  780
TGPEDLNDLE RDEDFECDVD EDPEVDDLAT PARASNGLSG KGEDAMFSDV KSIVPQYHSK  840
DSAVSSVDDN NDVVEDSNQG QSWIQGLTEG DYCHLSVEER LEALVALVGI VNEGNSLRAS  900
LEDRMEAANS LKKQMWAEAQ LDNSCMRDVL KLGRDPSQRM DESKPMEAVS NDLHKSERGF  960
INQEATQENC SSKRSRSQLK SYIGDKAEEV YPYRSLPLGQ DRHRNRYWHF AASASKTDPC  1020
SGLIFVELHD GKWRLIDSEE AFDFLVASLD MRGIRESHLR IMLLKIEGSF KENAYKAKSV  1080
VNHSPADSVS PSSAIFGSNS DSMEASTSIR VELGRNDREK ESLSKRFHDF QRWMWTETYS  1140
SLPSCARKHG KKRCELLATC EVCVASYLSE YTHCTSCHRR LSMFDSSERK ILDSALTASP  1200
LPFGARLLKA LLVFLEACVP DEALESFWTE DKRKDWGFRL NASSSPEELL QVLISLESAI  1260
KKESLSSSFV SAKELSGVAD DSGSVDVFPW IPKTISAVAL RLLDLDASII YVKPEKPELI  1320
SEDDKEQISI FPGKSLTKGK GAKEQEDQDE VIVSNSGKKS KKRRVRFGRV SNRNVKRKKV  1380
QESPDRFVAG RSDVSVDRNL GSVALNHHQV PGRGKRTVRK RPERNDEDNY RLVSRMADIV  1440
RPNSEDVEEE EEDEQTFRDI NEDWASETPR EMEVMTPMQV DDESDNSVGV ESEDDDEGQF  1500
VVYDQRNKWG LDWNSNPNEA MEDDEEVVGV EQVEREDVAE MSESSEDDDA PANNAAANNY  1560
ESGSEDYSSS DS

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	88	95	RRLKDKKD
2	1361	1378	KRRVRFGRVSNRNVKRKK

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Highly expressed in growing tissues such as inflorescence and flower meristems, young leaves and floral organs. Expressed in roots, rosette and cauline leaves, stems, flowers, inflorescences and siliques. {ECO:0000269\|PubMed:22694359}.

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	XP_009109718.1

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_009109718.1	0.0	PREDICTED: homeobox-DDT domain protein RLT1-like isoform X1
Swissprot	F4HY56	0.0	RLT1_ARATH; Homeobox-DDT domain protein RLT1
TrEMBL	M4D316	0.0	M4D316_BRARP; Uncharacterized protein
STRING	Bra010869.1-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