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_016478621.1

Organism

Nicotiana tabacum

Taxonomic ID

4097

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana

Family

GRAS

Protein Properties

Length: 517aa MW: 57663.3 Da PI: 6.6097

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_016478621.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	447.4	9.6e-137	151	516	1	369
GRAS 1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfsh 95 l+++L++cA+avs+gdl aq l+a+l++++s +g+p+qRl ay++e+L arla s+s+++k+l+++e + s e l+++++++e++P++kf++ XP_016478621.1 151 LKHVLIACAKAVSDGDLLTAQVLIAELRQMVSVSGEPIQRLGAYILEGLVARLAASGSSICKSLRCKEPA---SFELLSYMHMLYEICPYFKFGY 242 689****************************************************************9...9***************** PP GRAS 96 ltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAeelgvpfefnvlvakrled 188 + aN aI ea++ e+rvHiiDf+i qG QW++L+qa+a+Rp+gpp++R+Tg+++++s + l+ +g+rL+k+A++++vpfef++ +a + +d XP_016478621.1 243 MSANGAIAEAMKDENRVHIIDFQIAQGSQWVTLIQAFAARPGGPPHIRVTGIDDSTSAyaRGGGLNIVGQRLSKLAKAFKVPFEFHA-AAISGSD 336 **************************************************998899999********************.8999* PP GRAS 189 leleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseeri 283 +++e+L ++pgEalaVn+++ lh+++desvs+e++rd++L++vk+l+Pkvv++veqe+++n++ F+ rfle+l+yy+a+f+s++++lpr ++eri XP_016478621.1 337 VQVENLGIQPGEALAVNFAFTLHHMPDESVSTENHRDRLLRMVKNLNPKVVTLVEQESNTNTAAFFPRFLETLDYYTAMFESIDMTLPRGHKERI 431 ********************************************************************************************* PP GRAS 284 kvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvs 369 +vE+++l+r++vn++aceg er+erhe l+kW++r+++aGF+p+pls+ +++++k+ll+ +++ yr+ee++g+l+lgW++r Lv+ XP_016478621.1 432 NVEQHCLARDVVNIIACEGIERVERHELLGKWKSRFRMAGFSPYPLSSLVNATIKRLLESYSD-KYRLEERDGALYLGWMNRDLVA 516 **********************************************************5.5*****************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50985	71.24	125	502	IPR005202	Transcription factor GRAS
Pfam	PF03514	3.3E-134	151	516	IPR005202	Transcription factor GRAS

Sequence ? help Back to Top
Protein Sequence Length: 517 aa Download sequence Send to blast
MQASRRLRRS SMSNTLYYQP VQKAEAYCLP QFQTLDNHLS YINGSHGVYH SPSTASFSSN 60 GSSICHQESQ PYLSDVCQSS EMTNYGSPSS GSCITDGVND FMHKLKELES VMLGPDSDFL 120 ESYDNSLPSS IASTEINSWR QMMEAIPRRD LKHVLIACAK AVSDGDLLTA QVLIAELRQM 180 VSVSGEPIQR LGAYILEGLV ARLAASGSSI CKSLRCKEPA SFELLSYMHM LYEICPYFKF 240 GYMSANGAIA EAMKDENRVH IIDFQIAQGS QWVTLIQAFA ARPGGPPHIR VTGIDDSTSA 300 YARGGGLNIV GQRLSKLAKA FKVPFEFHAA AISGSDVQVE NLGIQPGEAL AVNFAFTLHH 360 MPDESVSTEN HRDRLLRMVK NLNPKVVTLV EQESNTNTAA FFPRFLETLD YYTAMFESID 420 MTLPRGHKER INVEQHCLAR DVVNIIACEG IERVERHELL GKWKSRFRMA GFSPYPLSSL 480 VNATIKRLLE SYSDKYRLEE RDGALYLGWM NRDLVAX

Sequence ? help Back to Top

Protein Sequence Length: 517 aa Download sequence Send to blast

MQASRRLRRS SMSNTLYYQP VQKAEAYCLP QFQTLDNHLS YINGSHGVYH SPSTASFSSN  60
GSSICHQESQ PYLSDVCQSS EMTNYGSPSS GSCITDGVND FMHKLKELES VMLGPDSDFL  120
ESYDNSLPSS IASTEINSWR QMMEAIPRRD LKHVLIACAK AVSDGDLLTA QVLIAELRQM  180
VSVSGEPIQR LGAYILEGLV ARLAASGSSI CKSLRCKEPA SFELLSYMHM LYEICPYFKF  240
GYMSANGAIA EAMKDENRVH IIDFQIAQGS QWVTLIQAFA ARPGGPPHIR VTGIDDSTSA  300
YARGGGLNIV GQRLSKLAKA FKVPFEFHAA AISGSDVQVE NLGIQPGEAL AVNFAFTLHH  360
MPDESVSTEN HRDRLLRMVK NLNPKVVTLV EQESNTNTAA FFPRFLETLD YYTAMFESID  420
MTLPRGHKER INVEQHCLAR DVVNIIACEG IERVERHELL GKWKSRFRMA GFSPYPLSSL  480
VNATIKRLLE SYSDKYRLEE RDGALYLGWM NRDLVAX

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5hyz_A	8e-58	155	515	8	369	GRAS family transcription factor containing protein, expressed
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in phytochrome A (phyA) signal transduction. {ECO:0000269\|PubMed:10817761}.

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	BT014572	0.0	BT014572.1 Lycopersicon esculentum clone 134027R, mRNA sequence.
GenBank	HG975519	0.0	HG975519.1 Solanum lycopersicum chromosome ch07, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016478621.1	0.0	PREDICTED: scarecrow-like transcription factor PAT1
Swissprot	Q9LDL7	0.0	PAT1_ARATH; Scarecrow-like transcription factor PAT1
TrEMBL	A0A1S4APW1	0.0	A0A1S4APW1_TOBAC; scarecrow-like transcription factor PAT1
STRING	XP_009605526.1	0.0	(Nicotiana tomentosiformis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA681	24	111

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G48150.2	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] Heyman J, et al. The heterodimeric transcription factor complex ERF115-PAT1 grants regeneration competence. Nat Plants, 2016. 2(11): p. 16165 [PMID:27797356]