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

Oropetium_20150105_19479A

Organism

Oropetium thomaeum

Taxonomic ID

1148796

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Cynodonteae; Tripogoninae; Oropetium

Family

C3H

Protein Properties

Length: 416aa MW: 45151.4 Da PI: 7.7577

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Oropetium_20150105_19479A	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	38.8	1.5e-12	119	143	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 ++ C+++ +tG Ck+G+rC+F+H++ Oropetium_20150105_19479A 119 EPVCSYYEKTGKCKFGARCRFNHPK 143 789********************96 PP
2	zf-CCCH	26.6	1e-08	200	222	4	26
---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHg 26 C+f+++tG C +G+ C+++H+ Oropetium_20150105_19479A 200 IDCSFYMKTGSCMFGSICRYNHP 222 58********************9 PP
3	zf-CCCH	34.3	4.1e-11	285	308	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 + C+f+++tG+Cky d+C+F+H+ Oropetium_20150105_19479A 285 QTVCDFYMKTGYCKYTDKCRFHHP 308 678********************8 PP
4	zf-CCCH	38	2.7e-12	340	363	4	27
---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHgp 27 e C f++++GtCk+G +C+F H+p Oropetium_20150105_19479A 340 EVCAFYMKSGTCKFGVQCRFDHPP 363 78********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	11.901	62	90	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.5	63	89	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.986	116	144	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.3E-6	116	143	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.92E-6	117	144	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	8.2E-10	119	143	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.2E-6	121	142	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.441	196	224	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	3.0E-4	196	223	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	7.33E-5	200	223	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.3E-6	200	222	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.22E-7	281	310	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.652	282	310	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	4.7E-7	282	309	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	8.4E-9	285	308	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.3E-6	287	308	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.263	336	364	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	6.3E-6	336	363	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.79E-6	338	365	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.1E-5	340	363	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.2E-9	340	363	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0003723	Molecular Function	RNA binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 416 aa Download sequence Send to blast
MSDSFYQYTG GGLPGAGGGS APSRQYSDYE VDLIASRYAD VPLSNLSPAE VQNVEVEDSY 60 PEQPEPDCPH FTKSSECSLK SKCKFNHPKE KVNEFKAGTT MKEGSLIADG AVLPVRPSEP 120 VCSYYEKTGK CKFGARCRFN HPKDTEVAPL LGRQTIYTAT FDEELYNDVA DTSIPAKANT 180 PAAPAEAHNA KGLPIRPGQI DCSFYMKTGS CMFGSICRYN HPDRPALDAA LPAQMVQGIL 240 PTPASIAPAA VLNPVVIFHP GFDIHATTPV PVEPDPIVYP QRSGQTVCDF YMKTGYCKYT 300 DKCRFHHPID RSVPRPNKSW DPPQTMTLTL AGLPRREDAE VCAFYMKSGT CKFGVQCRFD 360 HPPPEEAIAK LAGEKKGGKK VARLKKAVAA WAAAAKEDGK KAEEGLSIVL AKPKP*

Sequence ? help Back to Top

Protein Sequence Length: 416 aa Download sequence Send to blast

MSDSFYQYTG GGLPGAGGGS APSRQYSDYE VDLIASRYAD VPLSNLSPAE VQNVEVEDSY  60
PEQPEPDCPH FTKSSECSLK SKCKFNHPKE KVNEFKAGTT MKEGSLIADG AVLPVRPSEP  120
VCSYYEKTGK CKFGARCRFN HPKDTEVAPL LGRQTIYTAT FDEELYNDVA DTSIPAKANT  180
PAAPAEAHNA KGLPIRPGQI DCSFYMKTGS CMFGSICRYN HPDRPALDAA LPAQMVQGIL  240
PTPASIAPAA VLNPVVIFHP GFDIHATTPV PVEPDPIVYP QRSGQTVCDF YMKTGYCKYT  300
DKCRFHHPID RSVPRPNKSW DPPQTMTLTL AGLPRREDAE VCAFYMKSGT CKFGVQCRFD  360
HPPPEEAIAK LAGEKKGGKK VARLKKAVAA WAAAAKEDGK KAEEGLSIVL AKPKP*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Oropetium_20150105_19479A

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025815023.1	1e-152	zinc finger CCCH domain-containing protein 8-like isoform X3
Swissprot	Q5ZDJ6	1e-129	C3H8_ORYSJ; Zinc finger CCCH domain-containing protein 8
TrEMBL	A0A3L6SUD3	1e-155	A0A3L6SUD3_PANMI; Zinc finger CCCH domain-containing protein 8-like
STRING	Pavir.Eb01915.1.p	1e-154	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP5816	37	57

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G12680.1	3e-61	floral homeotic protein (HUA1)

Link Out ? help Back to Top
Phytozome	Oropetium_20150105_19479A

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] Zhu RS,Xu ZF,Lin MC Ab initio studies of alkyl radical reactions: Combination and disproportionation reactions of CH3 with C2H5, and the decomposition of chemically activated C3H8. J Chem Phys, 2004. 120(14): p. 6566-73 [PMID:15267548]