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.7NG069200.1.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

C3H

Protein Properties

Length: 163aa MW: 17869.1 Da PI: 8.0625

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.7NG069200.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	41.1	2.9e-13	28	53	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 ++++C+f+++tG Ck+G+ CkF+H++ Pavir.7NG069200.1.p 28 DQPECQFYMKTGDCKFGAVCKFHHPR 53 689*********************96 PP
2	zf-CCCH	38.8	1.6e-12	73	98	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 +++++C+f++r+G Ck+G++CkF H+ Pavir.7NG069200.1.p 73 PGEPICSFYSRYGMCKFGPNCKFDHS 98 5899*********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	14.53	26	54	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.7E-5	26	53	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	7.6E-10	28	53	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.22E-6	29	55	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.1E-5	32	54	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	6.02E-7	71	98	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.14	72	100	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	7.9E-7	72	99	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	7.3E-9	74	98	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.6E-5	77	99	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: 163 aa Download sequence Send to blast
MFSSYQAGSV PVGLYAVQRE NVFPERPDQP ECQFYMKTGD CKFGAVCKFH HPRERIIPTP 60 NCALSSLGLP LRPGEPICSF YSRYGMCKFG PNCKFDHSIG TVMYGHASSP SSEVSTSRLM 120 LAHVPSHPEV SPDNGSGMSR RITRSDSQQI SSGERSTERE AS*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.7NG069200.1.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	BT034178	1e-148	BT034178.1 Zea mays full-length cDNA clone ZM_BFc0032H13 mRNA, complete cds.
GenBank	BT060843	1e-148	BT060843.1 Zea mays full-length cDNA clone ZM_BFb0059K13 mRNA, complete cds.
GenBank	BT064219	1e-148	BT064219.1 Zea mays full-length cDNA clone ZM_BFc0149L04 mRNA, complete cds.
GenBank	BT085745	1e-148	BT085745.1 Zea mays full-length cDNA clone ZM_BFc0056E16 mRNA, complete cds.
GenBank	EU956984	1e-148	EU956984.1 Zea mays clone 1579587 zinc finger CCCH type domain-containing protein ZFN-like mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025827472.1	1e-108	zinc finger CCCH domain-containing protein 63 isoform X1
Refseq	XP_025827474.1	1e-108	zinc finger CCCH domain-containing protein 63 isoform X2
Swissprot	Q2R4J4	8e-96	C3H63_ORYSJ; Zinc finger CCCH domain-containing protein 63
TrEMBL	A0A2S3IE39	1e-107	A0A2S3IE39_9POAL; Uncharacterized protein
TrEMBL	A0A2T8I903	1e-107	A0A2T8I903_9POAL; Uncharacterized protein
TrEMBL	A0A3L6PK25	1e-106	A0A3L6PK25_PANMI; Zinc finger CCCH domain-containing protein 63 isoform X2
STRING	Pavir.Ha00517.1.p	1e-117	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1153	38	132

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G16540.3	3e-54	zinc finger nuclease 3

Link Out ? help Back to Top
Phytozome	Pavir.7NG069200.1.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]