PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Protein Features |

Gene Ontology |

Orthologous Group |

Publication

Basic Information? help Back to Top

TF ID

Pahal.A00387.1

Organism

Panicum hallii

Taxonomic ID

206008

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

C3H

Protein Properties

Length: 442aa MW: 50579.1 Da PI: 9.3725

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pahal.A00387.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	22.1	2.7e-07	33	56	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 ykt+lC ++r G C++ d+C+FaHg Pahal.A00387.1 33 YKTKLCALWQR-GGCSR-DTCSFAHG 56 9********.*.*****8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1000.10	9.0E-12	27	62	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	8.24E-5	31	61	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	11.582	32	58	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.5E-5	33	56	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 442 aa Download sequence Send to blast
MRDRSVDREF PSRERGDRPP PGMLGPPRRG PAYKTKLCAL WQRGGCSRDT CSFAHGHAEL 60 RRFPGSRTSF PPRAGRRDYR GGDFRERFDR RRSPHRRHSP DRDSRGHRPL HDRRPTSQER 120 ESSYSRSPSR KSIRRHEKNP DDGETNSSRS LSISDKNDDR KKETLLSADD KEDQEIQLKQ 180 IRQDMELLRE DKSHLEIILD EKNAEVRKIS SRVNDLDLQI RKEKEECHRM TSKIKKFIKA 240 HARFLKAQEE LKRSQARFER LGDLLASDIL KRGANEEVSS VNVDEDPNGP YERSPNAATA 300 KKRSTPYSTS EEAKAVKKRR DRDLEFDKSS KGTEPTKALY LKKKLWEDEK DKIGNVVSSA 360 NTDKVKDSPV KHVLPSTGMA AHAVDDLFEA VELEDRHDPI NASVENDAGD GTRSPAMPPQ 420 PPPVVNAYEQ YEGDDEEVDV E*

Sequence ? help Back to Top

Protein Sequence Length: 442 aa Download sequence Send to blast

MRDRSVDREF PSRERGDRPP PGMLGPPRRG PAYKTKLCAL WQRGGCSRDT CSFAHGHAEL  60
RRFPGSRTSF PPRAGRRDYR GGDFRERFDR RRSPHRRHSP DRDSRGHRPL HDRRPTSQER  120
ESSYSRSPSR KSIRRHEKNP DDGETNSSRS LSISDKNDDR KKETLLSADD KEDQEIQLKQ  180
IRQDMELLRE DKSHLEIILD EKNAEVRKIS SRVNDLDLQI RKEKEECHRM TSKIKKFIKA  240
HARFLKAQEE LKRSQARFER LGDLLASDIL KRGANEEVSS VNVDEDPNGP YERSPNAATA  300
KKRSTPYSTS EEAKAVKKRR DRDLEFDKSS KGTEPTKALY LKKKLWEDEK DKIGNVVSSA  360
NTDKVKDSPV KHVLPSTGMA AHAVDDLFEA VELEDRHDPI NASVENDAGD GTRSPAMPPQ  420
PPPVVNAYEQ YEGDDEEVDV E*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	300	319	KKRSTPYSTSEEAKAVKKRR

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	BT040240	0.0	BT040240.1 Zea mays full-length cDNA clone ZM_BFc0072P19 mRNA, complete cds.
GenBank	EU962039	0.0	EU962039.1 Zea mays clone 239776 zinc finger C-x8-C-x5-C-x3-H type family protein mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025808086.1	0.0	zinc finger CCCH domain-containing protein 13-like isoform X1
Swissprot	Q6H7U2	0.0	C3H13_ORYSJ; Zinc finger CCCH domain-containing protein 13
TrEMBL	A0A2S3GLV1	0.0	A0A2S3GLV1_9POAL; Uncharacterized protein
STRING	Pavir.Aa03280.1.p	0.0	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP3882	29	43

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G21810.1	2e-20	C3H family protein

Link Out ? help Back to Top
Phytozome	Pahal.A00387.1

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]