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

Pavir.6KG318100.1.p

Organism

Panicum virgatum

Taxonomic ID

38727

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum

Family

ZF-HD

Protein Properties

Length: 297aa MW: 30559 Da PI: 7.0952

Description

ZF-HD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.6KG318100.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	ZF-HD_dimer	102.5	2.8e-32	72	126	4	59
ZF-HD_dimer 4 vrYkeClkNhAaslGghavDGCgEfmpsegeegtaaalkCaACgCHRnFHRrevee 59 +rY+eClkNhA+ +GghavDGCgEfm++ geeg+++al+CaACgCHRnFHR+e+e+ Pavir.6KG318100.1.p 72 ARYRECLKNHAVGIGGHAVDGCGEFMAA-GEEGSIDALRCAACGCHRNFHRKESES 126 79***********************9.999******************9875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04770	4.8E-29	72	124	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
TIGRFAMs	TIGR01566	8.3E-30	73	123	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
ProDom	PD125774	4.0E-25	73	126	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
PROSITE profile	PS51523	27.963	74	123	IPR006456	ZF-HD homeobox protein, Cys/His-rich dimerisation domain
SuperFamily	SSF46689	1.59E-21	220	294	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	1.1E-32	223	295	IPR009057	Homeodomain-like
TIGRFAMs	TIGR01565	3.8E-26	233	289	IPR006455	Homeodomain, ZF-HD class

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 297 aa Download sequence Send to blast
MDFDEHDGDG DEEMTPMPVT SSYDAPMQPG LGLVGGGGGG TPKPGDSGEG SFRTPGSGGG 60 GGGGRGGGGG GARYRECLKN HAVGIGGHAV DGCGEFMAAG EEGSIDALRC AACGCHRNFH 120 RKESESPTGG VSPADPAAAA ITAYGAAAHH HPFSPYYRTP TGYLLHHHQQ LAAAAAAAGH 180 MQRPLALPST SQSGRDEGDD MSGLIGPMMV APMVGMSLGS GGGPSGSGSG SGKKRFRTKF 240 TQEQKDRMLA FAEQLGWRIQ KHDEAAVQQF CEEVGVRRHV LKVWMHNNKH TLGKKP*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wh7_A	5e-29	234	291	18	75	ZF-HD homeobox family protein
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	62	70	GGRGGGGGG

Functional Description ? help Back to Top
Source	Description
UniProt	Putative transcription factor. {ECO:0000250}.
UniProt	Putative transcription factor. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.6KG318100.1.p

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	AK109528	1e-163	AK109528.1 Oryza sativa Japonica Group cDNA clone:002-116-C04, full insert sequence.
GenBank	AP004643	1e-163	AP004643.3 Oryza sativa Japonica Group genomic DNA, chromosome 8, BAC clone:OJ1113_A10.
GenBank	AP014964	1e-163	AP014964.1 Oryza sativa Japonica Group DNA, chromosome 8, cultivar: Nipponbare, complete sequence.
GenBank	CP012616	1e-163	CP012616.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 8 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001149424.2	1e-144	uncharacterized protein LOC100283050
Swissprot	A2YWA6	1e-120	ZHD2_ORYSI; Zinc-finger homeodomain protein 2
Swissprot	Q6ZB90	1e-120	ZHD2_ORYSJ; Zinc-finger homeodomain protein 2
TrEMBL	A0A1D6KLI5	1e-143	A0A1D6KLI5_MAIZE; ZF-HD protein dimerization region containing protein
TrEMBL	A0A317YC70	1e-143	A0A317YC70_MAIZE; Zinc-finger homeodomain protein 2
STRING	Pavir.Fa00642.1.p	1e-158	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP3950	32	69

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G14440.2	7e-50	homeobox protein 31

Link Out ? help Back to Top
Phytozome	Pavir.6KG318100.1.p

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764]