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 |

3D Structure |

Gene Ontology |

Orthologous Group |

Publication

Basic Information? help Back to Top

TF ID

Pahal.C01848.1

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: 327aa MW: 35505.1 Da PI: 7.5003

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pahal.C01848.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	47.5	3e-15	253	277	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ktelC+ + +tG C+yGd+C+FaHg Pahal.C01848.1 253 KTELCNKWEETGACPYGDQCQFAHG 277 9***********************8 PP
2	zf-CCCH	19.7	1.5e-06	290	315	1	26
--S---SGGGGTS.--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartG.tCkyGdrCkFaHg 26 ykte Cr ++ G C+yG rC+F H+ Pahal.C01848.1 290 YKTEVCRMVLA-GvVCPYGHRCHFRHS 315 9********.66********997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1000.10	3.5E-18	247	284	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.7E-10	248	283	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.488	251	279	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.1E-8	251	278	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.6E-12	253	277	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.6E-11	285	315	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	6.28E-8	286	316	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	4.8E-4	289	316	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.131	289	317	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: 327 aa Download sequence Send to blast
MEVVLAPTQP DGLHAAFGPK EPCGFGDRRF SSPSLLTNGD DLFYGYASPS SPFGFSRVLS 60 TPSPRAASLS RGSSDSGSVV HDGNDAAAAA AAERRQRLAR LALQYQEVVT RFELCLSYLA 120 DTSNEAAALR RENDELRIAN EDLARRIKMV GGKLVDEFSG LSLAEEHPIP LGPLTPLPAA 180 PAIPKSISVR SPGYLKMNQS GKHRPSKPTK LGSQRVFVGM DNGVNGEGEL KGGEEQQPNS 240 GLEFEVYNQG MLKTELCNKW EETGACPYGD QCQFAHGIAE LRPVIRHPRY KTEVCRMVLA 300 GVVCPYGHRC HFRHSITPTD LFPRQP*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1rgo_A	5e-22	253	315	5	67	Butyrate response factor 2
Search in ModeBase

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC098571	2e-96	AC098571.2 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OJ1126_B10, complete sequence.
GenBank	AC098832	2e-96	AC098832.3 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OJ1268_B08, complete sequence.
GenBank	AK106354	2e-96	AK106354.1 Oryza sativa Japonica Group cDNA clone:002-102-A03, full insert sequence.
GenBank	AP014961	2e-96	AP014961.1 Oryza sativa Japonica Group DNA, chromosome 5, cultivar: Nipponbare, complete sequence.
GenBank	CP012613	2e-96	CP012613.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025808834.1	0.0	zinc finger CCCH domain-containing protein 39-like
Swissprot	Q6L5G1	1e-119	C3H39_ORYSJ; Zinc finger CCCH domain-containing protein 39
TrEMBL	A0A2S3H9C9	0.0	A0A2S3H9C9_9POAL; Uncharacterized protein
STRING	Si022648m	0.0	(Setaria italica)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP2775	37	84

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G66810.1	2e-55	C3H family protein

Link Out ? help Back to Top
Phytozome	Pahal.C01848.1

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] Cheng CH, et al. A fine physical map of the rice chromosome 5. Mol. Genet. Genomics, 2005. 274(4): p. 337-45 [PMID:16261349]