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

RrC1955_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

E2F/DP

Protein Properties

Length: 1044aa MW: 116430 Da PI: 4.7028

Description

E2F/DP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC1955_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	E2F_TDP	66.6	3.3e-21	133	221	2	71
E2F_TDP 2 keksLrlltqkflklleksee.givtln...evakeLvse................dvknkrRRiYDilNVLealnliekkekneirwkg 71 ++++Lr++++k+l+ +++ + + +t + +va+eLv+e d+kn+rRR+YD+lNVL+a+++i+k +k+ei+w+g RrC1955_p1 133 TGRGLRQFSMKVLQTCSSLCKiRYLTGEstfQVADELVAEfalpnndgtppdqqqyDEKNIRRRVYDALNVLMAMDIISK-DKKEIQWRG 221 689************977777776542337********************************************.*****98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.10	6.8E-34	128	227	IPR011991	Winged helix-turn-helix DNA-binding domain
SMART	SM01372	3.2E-26	132	221	IPR003316	E2F/DP family, winged-helix DNA-binding domain
SuperFamily	SSF46785	4.22E-14	135	222	IPR011991	Winged helix-turn-helix DNA-binding domain
Pfam	PF02319	9.3E-18	135	221	IPR003316	E2F/DP family, winged-helix DNA-binding domain
CDD	cd14458	1.16E-34	226	337	IPR014889	Transcription factor DP, C-terminal
SMART	SM01138	2.7E-56	236	387	IPR014889	Transcription factor DP, C-terminal
Pfam	PF08781	4.6E-39	241	362	IPR014889	Transcription factor DP, C-terminal
SuperFamily	SSF144074	1.33E-38	241	355	No hit	No description
SuperFamily	SSF81296	3.87E-15	959	1041	IPR014756	Immunoglobulin E-set
CDD	cd02859	3.55E-19	961	1042	No hit	No description
Pfam	PF16561	7.0E-16	962	1035	IPR032640	AMP-activated protein kinase, glycogen-binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005667	Cellular Component	transcription factor complex
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 1044 aa Download sequence Send to blast
MTTTSGSNSN HNNRHDDGSV TNNNNNNNPS TRSWGTVVSA QSVSTSGGSM GSPSSRSEQT 60 TTLATTTTTT SATDSAFLQL NNLDIQGDDA ASQGPSGDLF RLLSPVKVVK NIFCISSGKK 120 KKSRQRATGP DKTGRGLRQF SMKVLQTCSS LCKIRYLTGE STFQVADELV AEFALPNNDG 180 TPPDQQQYDE KNIRRRVYDA LNVLMAMDII SKDKKEIQWR GLPRTSLSDI EELKLSLIYA 240 CKAERLSVRN RIEKKIAYAQ ELEEQYVGLQ NLIRRNEHLY SSGNPPSGGV ALPFILVQTR 300 PHATVEVEIS EDMQLVHFDF NSTPFELHDD NFVLKTMKFC EQPPFNNGTH NNSQQQTSHS 360 FLLENNNEGT TSTDPAPPQP AESSHPQLPQ HHQLHSQPQI IPTPVTNNDV AQATSPPVSR 420 NKWYLLRGFS LSVIDAAWQL GSPTAMATLS FFSSLASLHN RNPMFYHQQP QLLFVPHLNN 480 LKKKKKNAFI CFACSIKQTR VRKRVKSNEE LRNEILEFVA LAGLPPGHVP SMKELSAHQR 540 VDLANVVRRR GYKFIRELLA NSETEDCTEL TSPSGISLED SLTEEGQDEE ALDGSLSTER 600 PSSNEIYSNA TDASVSLDHL TNRFPDEVDE AYSSPEDDEC VSVSNDESSL AAVSSMESSI 660 SDLDDSNHSA NITESKSKIE SVELSNIADT ESSSSEDDTS SSSEREADSV LVAEEVNDVE 720 EDSSLLSYDH YTSQYLNHTT KTVVESVATE SLSGENTTLA NAENFQQIDH MAEKRSDNSL 780 VEPDDKGWML GLPSSSASIE EKTTRFIQNG YLDTVDDGMF NDDENDRLNE ETNKGDEYSQ 840 RSVSMAPNGS ALAYEEVTHA TQVNNSKRNS DQRHGNAELD KDSHDEDMKR ENQVEITRLR 900 FMLRQKELEL SRLKEQIEKE KLSLSVLQRK AETEIQKAQM LVSQKDVELQ EAEESLSGLQ 960 EVEIEYCGDG NVVEVTGSFN GWEHRVGLEL ETSKSTGKQK CWSTLLWLYP GTYEIKFIVD 1020 GQWITDPRRD SVTRGHVTNN ILKR

Sequence ? help Back to Top

Protein Sequence Length: 1044 aa Download sequence Send to blast

MTTTSGSNSN HNNRHDDGSV TNNNNNNNPS TRSWGTVVSA QSVSTSGGSM GSPSSRSEQT  60
TTLATTTTTT SATDSAFLQL NNLDIQGDDA ASQGPSGDLF RLLSPVKVVK NIFCISSGKK  120
KKSRQRATGP DKTGRGLRQF SMKVLQTCSS LCKIRYLTGE STFQVADELV AEFALPNNDG  180
TPPDQQQYDE KNIRRRVYDA LNVLMAMDII SKDKKEIQWR GLPRTSLSDI EELKLSLIYA  240
CKAERLSVRN RIEKKIAYAQ ELEEQYVGLQ NLIRRNEHLY SSGNPPSGGV ALPFILVQTR  300
PHATVEVEIS EDMQLVHFDF NSTPFELHDD NFVLKTMKFC EQPPFNNGTH NNSQQQTSHS  360
FLLENNNEGT TSTDPAPPQP AESSHPQLPQ HHQLHSQPQI IPTPVTNNDV AQATSPPVSR  420
NKWYLLRGFS LSVIDAAWQL GSPTAMATLS FFSSLASLHN RNPMFYHQQP QLLFVPHLNN  480
LKKKKKNAFI CFACSIKQTR VRKRVKSNEE LRNEILEFVA LAGLPPGHVP SMKELSAHQR  540
VDLANVVRRR GYKFIRELLA NSETEDCTEL TSPSGISLED SLTEEGQDEE ALDGSLSTER  600
PSSNEIYSNA TDASVSLDHL TNRFPDEVDE AYSSPEDDEC VSVSNDESSL AAVSSMESSI  660
SDLDDSNHSA NITESKSKIE SVELSNIADT ESSSSEDDTS SSSEREADSV LVAEEVNDVE  720
EDSSLLSYDH YTSQYLNHTT KTVVESVATE SLSGENTTLA NAENFQQIDH MAEKRSDNSL  780
VEPDDKGWML GLPSSSASIE EKTTRFIQNG YLDTVDDGMF NDDENDRLNE ETNKGDEYSQ  840
RSVSMAPNGS ALAYEEVTHA TQVNNSKRNS DQRHGNAELD KDSHDEDMKR ENQVEITRLR  900
FMLRQKELEL SRLKEQIEKE KLSLSVLQRK AETEIQKAQM LVSQKDVELQ EAEESLSGLQ  960
EVEIEYCGDG NVVEVTGSFN GWEHRVGLEL ETSKSTGKQK CWSTLLWLYP GTYEIKFIVD  1020
GQWITDPRRD SVTRGHVTNN ILKR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1cf7_B	8e-25	126	226	1	93	PROTEIN (TRANSCRIPTION FACTOR DP-2)
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Involved in starch granule initiation in leaf chloroplasts. {ECO:0000269\|PubMed:28684429}.

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	AB493733	7e-96	AB493733.1 Arabidopsis thaliana At5g03415 mRNA for hypothetical protein, partial cds, clone: RAAt5g03415.
GenBank	AJ294532	7e-96	AJ294532.1 Arabidopsis thaliana mRNA for DP-like protein (dpb gene).
GenBank	AK228148	7e-96	AK228148.1 Arabidopsis thaliana mRNA for transcription factor - like protein, complete cds, clone: RAFL14-61-J08.
GenBank	AY086018	7e-96	AY086018.1 Arabidopsis thaliana clone 206791 mRNA, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018446207.1	0.0	PREDICTED: uncharacterized protein LOC108817884 isoform X1
Refseq	XP_018446214.1	0.0	PREDICTED: uncharacterized protein LOC108817886 isoform X1
Swissprot	F4KFB3	0.0	PTST3_ARATH; Protein PTST homolog 3, chloroplastic
TrEMBL	A0A3P6DQ26	0.0	A0A3P6DQ26_BRACM; Uncharacterized protein
STRING	Bra009530.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM10443	3	4

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G03415.1	1e-143	Transcription factor DP

Publications ? help Back to Top
Seung D, et al. Homologs of PROTEIN TARGETING TO STARCH Control Starch Granule Initiation in Arabidopsis Leaves. Plant Cell, 2017. 29(7): p. 1657-1677 [PMID:28684429]