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

RrC1065_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

GRAS

Protein Properties

Length: 607aa MW: 68996.8 Da PI: 5.128

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC1065_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	370.3	2.5e-113	237	602	1	374
GRAS 1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfshltaN 99 +++lL++cA+av+s d+++a + L++++e++s++gd++qRl +f+eAL+ar+++ + k+ ++ +++ l+a+k f++ +P+l +++ taN RrC1065_p1 237 MRNLLMQCAQAVASFDQSRAFEKLKEIREHSSSHGDATQRLGYHFAEALEARITG----TTKTPGFDVLGRTPMVDILKAYKEFVQSCPTLAMCYYTAN 331 579**************************************************....444444444444559********************* PP GRAS 100 qaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAeelgvpfefnvlvakrledleleeLrv 196 ++I e +++++++Hi+Df+i +G+QWp+L+qaL++Rp+gpp+lR+Tg++ p++g +e++eetg+rL++f++++ vpfe+n+ +ak++++++l+eL + RrC1065_p1 332 RTIFELASKATTLHIVDFGILYGFQWPCLIQALSTRPGGPPKLRVTGIELPQPGfrPSERVEETGRRLKRFCDKFSVPFEYNF-IAKAWDTITLDELVI 429 *************************************************9*************************.7********** PP GRAS 197 kpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerikvErellgreiv 295 ++gE+++Vn++l+l++++de+vsl+s+rd+ L l+++++P+++v++e + +ns+ Fl+rf ea+ ++s+lfd++e+++++e++ + ++ RrC1065_p1 430 NSGETTVVNCILRLQYTPDETVSLNSPRDTALTLFRDINPDLFVFAEINGMYNSPFFLTRFREAMFHCSSLFDMFESNISEENDCSLFRNVY-----VM 523 **************************************************************************98888777766655.....99 PP GRAS 296 nvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374 +v++cegaer++r et+++W+ r+ +aGF+p++l+++++k+ k l+r+ + + + ++++++++++gWk+r L+++S+W+ RrC1065_p1 524 SVISCEGAERFARPETYKQWQVRILRAGFRPARLNKQIMKEGKELVRERYHKDFVIDNDNHWMFQGWKGRVLYALSCWK 602 **********************************************888***********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50985	59.495	211	582	IPR005202	Transcription factor GRAS
Pfam	PF03514	8.7E-111	237	602	IPR005202	Transcription factor GRAS

Sequence ? help Back to Top
Protein Sequence Length: 607 aa Download sequence Send to blast
MDAILQVPVD GFRLDNGSGS CCKPRNNLDS GTSRFTCFKE SESQNLSSPT ESTESQNPCS 60 TEESTVCSTN HPVLKYINDM LMEEDIEEQS CMLEDSLALQ AAERSFFEVL HQDQTPPPPP 120 PSDQISGDQD NCSLENFSSI TSLLHQPTLG FTEISEESTR RYRLRGDDDE EHDLESERRS 180 KLPAISAVDE LAEKLEEVLL VCQKNDHGEA ATPNKTGRAK GSLNRSKAQK SDQPVDMRNL 240 LMQCAQAVAS FDQSRAFEKL KEIREHSSSH GDATQRLGYH FAEALEARIT GTTKTPGFDV 300 LGRTPMVDIL KAYKEFVQSC PTLAMCYYTA NRTIFELASK ATTLHIVDFG ILYGFQWPCL 360 IQALSTRPGG PPKLRVTGIE LPQPGFRPSE RVEETGRRLK RFCDKFSVPF EYNFIAKAWD 420 TITLDELVIN SGETTVVNCI LRLQYTPDET VSLNSPRDTA LTLFRDINPD LFVFAEINGM 480 YNSPFFLTRF REAMFHCSSL FDMFESNISE ENDCSLFRNV YVMSVISCEG AERFARPETY 540 KQWQVRILRA GFRPARLNKQ IMKEGKELVR ERYHKDFVID NDNHWMFQGW KGRVLYALSC 600 WKPAKKQ

Sequence ? help Back to Top

Protein Sequence Length: 607 aa Download sequence Send to blast

MDAILQVPVD GFRLDNGSGS CCKPRNNLDS GTSRFTCFKE SESQNLSSPT ESTESQNPCS  60
TEESTVCSTN HPVLKYINDM LMEEDIEEQS CMLEDSLALQ AAERSFFEVL HQDQTPPPPP  120
PSDQISGDQD NCSLENFSSI TSLLHQPTLG FTEISEESTR RYRLRGDDDE EHDLESERRS  180
KLPAISAVDE LAEKLEEVLL VCQKNDHGEA ATPNKTGRAK GSLNRSKAQK SDQPVDMRNL  240
LMQCAQAVAS FDQSRAFEKL KEIREHSSSH GDATQRLGYH FAEALEARIT GTTKTPGFDV  300
LGRTPMVDIL KAYKEFVQSC PTLAMCYYTA NRTIFELASK ATTLHIVDFG ILYGFQWPCL  360
IQALSTRPGG PPKLRVTGIE LPQPGFRPSE RVEETGRRLK RFCDKFSVPF EYNFIAKAWD  420
TITLDELVIN SGETTVVNCI LRLQYTPDET VSLNSPRDTA LTLFRDINPD LFVFAEINGM  480
YNSPFFLTRF REAMFHCSSL FDMFESNISE ENDCSLFRNV YVMSVISCEG AERFARPETY  540
KQWQVRILRA GFRPARLNKQ IMKEGKELVR ERYHKDFVID NDNHWMFQGW KGRVLYALSC  600
WKPAKKQ

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5hyz_A	5e-40	241	602	8	375	GRAS family transcription factor containing protein, expressed
Search in ModeBase

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

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_018471716.1	0.0	PREDICTED: scarecrow-like protein 30 isoform X1
Swissprot	Q9SNB8	0.0	SCL30_ARATH; Scarecrow-like protein 30
TrEMBL	A0A0D3A8U7	0.0	A0A0D3A8U7_BRAOL; Uncharacterized protein
STRING	Bo1g070830.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3646	25	61

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G46600.1	0.0	GRAS family protein

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] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444]