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

RrC12344_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

ZF-HD

Protein Properties

Length: 347aa MW: 37564.4 Da PI: 7.8159

Description

ZF-HD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC12344_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	ZF-HD_dimer	111.2	5.5e-35	54	111	3	59
ZF-HD_dimer 3 kvrYkeClkNhAaslGghavDGCgEfmpsegee.gtaaalkCaACgCHRnFHRrevee 59 +v+YkeClkNhAa++Ggha+DGCgEfmps++++ +++++lkCaACgCHRnFHRr++++ RrC12344_p1 54 TVTYKECLKNHAAAIGGHALDGCGEFMPSPSSTpTDPTSLKCAACGCHRNFHRRDPDD 111 799***************************99******************9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04770	6.1E-29	55	109	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
TIGRFAMs	TIGR01566	1.5E-31	56	108	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
ProDom	PD125774	2.0E-15	57	107	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
PROSITE profile	PS51523	27.805	57	108	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
SuperFamily	SSF46689	1.43E-17	195	266	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	1.1E-28	197	268	IPR009057	Homeodomain-like
TIGRFAMs	TIGR01565	1.5E-25	208	265	IPR006455	Homeodomain, ZF-HD class

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0044212	Molecular Function	transcription regulatory region DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 347 aa Download sequence Send to blast
MLEVGGAMDM TPKSPEPESE TPTRIQPAKP ISFSNGIIKR HHHIHHHHNH TITTVTYKEC 60 LKNHAAAIGG HALDGCGEFM PSPSSTPTDP TSLKCAACGC HRNFHRRDPD DSSLTSPVPP 120 PSLPPSSATA AIEYQPHHRH HPPPPAPPLP RSPTSSSPPP ISSSYMLLAL SGNNKPGGNS 180 LPFSDLNFAA ANNLSTHHHQ QHHTPGSRKR FRTKFSQHQK DKMHEFADRI GWKIQKRDED 240 EVREFCRDVG VDKGVLKVWM HNNKNTFSTT RRDQPFSGDT TVQKIDNGVA VSGGDNIVIN 300 NNSNNNADDV GVNGGNGLEH EIHRGGGDGR FESDSGGAAA NGSSSTS

Sequence ? help Back to Top

Protein Sequence Length: 347 aa Download sequence Send to blast

MLEVGGAMDM TPKSPEPESE TPTRIQPAKP ISFSNGIIKR HHHIHHHHNH TITTVTYKEC  60
LKNHAAAIGG HALDGCGEFM PSPSSTPTDP TSLKCAACGC HRNFHRRDPD DSSLTSPVPP  120
PSLPPSSATA AIEYQPHHRH HPPPPAPPLP RSPTSSSPPP ISSSYMLLAL SGNNKPGGNS  180
LPFSDLNFAA ANNLSTHHHQ QHHTPGSRKR FRTKFSQHQK DKMHEFADRI GWKIQKRDED  240
EVREFCRDVG VDKGVLKVWM HNNKNTFSTT RRDQPFSGDT TVQKIDNGVA VSGGDNIVIN  300
NNSNNNADDV GVNGGNGLEH EIHRGGGDGR FESDSGGAAA NGSSSTS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wh7_A	4e-20	207	266	16	75	ZF-HD homeobox family protein
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Putative transcription factor.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00387	DAP	Transfer from AT3G28920	Download

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC189594	0.0	AC189594.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH013N10, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018478108.1	0.0	PREDICTED: zinc-finger homeodomain protein 9-like
Swissprot	Q9LHF0	1e-116	ZHD9_ARATH; Zinc-finger homeodomain protein 9
TrEMBL	A0A397Z3A3	1e-161	A0A397Z3A3_BRACM; Uncharacterized protein
STRING	Bra025363.1-P	1e-161	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2220	25	75

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G28920.1	2e-84	homeobox protein 34

Publications ? help Back to Top
Li B, et al. Network-Guided Discovery of Extensive Epistasis between Transcription Factors Involved in Aliphatic Glucosinolate Biosynthesis. Plant Cell, 2018. 30(1): p. 178-195 [PMID:29317470]