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

Pahal.C04219.1

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: 287aa MW: 31892.3 Da PI: 8.0753

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pahal.C04219.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	17.8	5.8e-06	1	19	8	26
GGGGTS--TTTTT-SS-SS CS zf-CCCH 8 ffartGtCkyGdrCkFaHg 26 +++ G Ck+G Ck+ H Pahal.C04219.1 1 YYSTPGGCKFGKACKYLHL 19 7999**************5 PP
2	zf-CCCH	34.3	3.9e-11	43	67	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C+f++rtG Ck+ +CkF+H+ Pahal.C04219.1 43 GEKECPFYMRTGSCKFATNCKFHHP 67 7899********************9 PP
3	zf-CCCH	23.9	7e-08	189	215	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 +++++C++f ++G+Cky +C+F+H++ Pahal.C04219.1 189 PGQPECQHFVKSGFCKYRMKCRFHHPK 215 5789*********************96 PP
4	zf-CCCH	26.1	1.5e-08	235	260	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 +++ C ++ r+G CkyG++C F+H++ Pahal.C04219.1 235 DQPVCTYYGRFGVCKYGPSCMFNHPF 260 6899********************95 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	95	1	20	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	10.39	1	21	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.9E-5	41	68	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.896	41	69	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	4.97E-6	43	69	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	6.3E-8	43	67	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	4.6E-4	47	66	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.807	188	216	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.01	188	215	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.27E-5	192	216	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0036	233	260	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.267	233	261	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	7.85E-6	234	261	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	6.4E-6	235	260	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: 287 aa Download sequence Send to blast
YYSTPGGCKF GKACKYLHLE GKEGKAEVEN VELNFLGLPL RPGEKECPFY MRTGSCKFAT 60 NCKFHHPDPS NVPSKEPVLE HENGDNPQQN VQGPSQPSVP IWPEQRALNE QHVPFLAPAP 120 SYTAGMIPPQ GMYHSPDWTG YHQVPVNPYY PPAVPFPHFP APHMNHPMYK AADIPGHQQL 180 PSDEYPERPG QPECQHFVKS GFCKYRMKCR FHHPKSRQPA PLTGLSPIGL PIKPDQPVCT 240 YYGRFGVCKY GPSCMFNHPF NFGPPVPAAG PPLPGQYHPT PGNFTV*

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	BT039234	0.0	BT039234.1 Zea mays full-length cDNA clone ZM_BFc0001O03 mRNA, complete cds.
GenBank	BT068392	0.0	BT068392.1 Zea mays full-length cDNA clone ZM_BFb0150F03 mRNA, complete cds.
GenBank	BT070061	0.0	BT070061.1 Zea mays full-length cDNA clone ZM_BFb0370P20 mRNA, complete cds.
GenBank	EU969866	0.0	EU969866.1 Zea mays clone 336566 zinc finger CCCH type domain-containing protein ZFN-like 6 mRNA, complete cds.
GenBank	JX428472	0.0	JX428472.1 Zea mays subsp. mays clone pUT3068 C3H54 transcription factor mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025807655.1	0.0	zinc finger CCCH domain-containing protein 65-like isoform X1
Swissprot	Q2QTY2	1e-161	C3H65_ORYSJ; Zinc finger CCCH domain-containing protein 65
TrEMBL	A0A2S3HD32	0.0	A0A2S3HD32_9POAL; Uncharacterized protein
STRING	Pavir.Cb01040.1.p	1e-175	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP7928	35	48

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G48440.1	1e-58	C3H family protein

Link Out ? help Back to Top
Phytozome	Pahal.C04219.1

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]