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

Bradi2g09340.2.p

Organism

Brachypodium distachyon

Taxonomic ID

15368

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium

Family

C3H

Protein Properties

Length: 376aa MW: 40101.6 Da PI: 8.505

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Bradi2g09340.2.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	40	6.3e-13	9	35	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 ++++lC +++++GtCk+G++Ck++H++ Bradi2g09340.2.p 9 PGQPLCEYYMKNGTCKFGSNCKYNHPR 35 589**********************96 PP
2	zf-CCCH	34.7	2.9e-11	55	79	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C+++ +tG+Ck+G++CkF+H+ Bradi2g09340.2.p 55 GEKECSYYIKTGHCKFGSTCKFHHP 79 7899********************9 PP
3	zf-CCCH	38.7	1.7e-12	209	235	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 +++++C+++++tGtCk+G++Ck++H++ Bradi2g09340.2.p 209 PGQPECHHYMKTGTCKFGATCKYSHPQ 235 5789*********************97 PP
4	zf-CCCH	31	4.4e-10	260	280	6	26
-SGGGGTS--TTTTT-SS-SS CS zf-CCCH 6 CrffartGtCkyGdrCkFaHg 26 C ++++ G+Ck+G+rCkF H+ Bradi2g09340.2.p 260 CVYYSQHGFCKFGPRCKFDHP 280 99******************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	2.0E-7	8	35	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	16.99	8	36	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.8E-10	10	35	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.01E-6	11	36	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	5.9E-6	13	36	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.3E-4	53	80	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.521	53	81	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	6.8E-8	55	79	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.14E-6	56	80	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	5.9E-4	59	78	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.676	208	236	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.3E-6	208	235	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.7E-10	210	235	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.06E-5	212	235	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	7.4E-4	214	234	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.474	254	282	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.2E-5	254	281	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.4E-6	257	284	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.9E-7	259	280	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.0E-4	260	279	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: 376 aa Download sequence Send to blast
MGVEYPERPG QPLCEYYMKN GTCKFGSNCK YNHPREGGPV QPVALNTSGY PLRPGEKECS 60 YYIKTGHCKF GSTCKFHHPD GPELGVVSET PSMYPPAQPL PMSSPLTYPP LASWQLGRPS 120 VLPGSFYQGS YPPMVHPSAV IPMQGWNPYM SSMNQLASAG GQQNVQAGPL YGLSHQGPSS 180 SVAYGSNYAP LPSSTWPSSN KQVAFPERPG QPECHHYMKT GTCKFGATCK YSHPQYLSAP 240 NSNCMLSPLG LPIRPGAQQC VYYSQHGFCK FGPRCKFDHP LGTLSYSPSA SSLTDVPVAP 300 YPLSLPVAPM APSPSSSGLR PEYILTLEPS VNQPASPGTA FGPAGSVPKI CAPHMLLRPP 360 TSTTVATVTN HGGGF*

Sequence ? help Back to Top

Protein Sequence Length: 376 aa Download sequence Send to blast

MGVEYPERPG QPLCEYYMKN GTCKFGSNCK YNHPREGGPV QPVALNTSGY PLRPGEKECS  60
YYIKTGHCKF GSTCKFHHPD GPELGVVSET PSMYPPAQPL PMSSPLTYPP LASWQLGRPS  120
VLPGSFYQGS YPPMVHPSAV IPMQGWNPYM SSMNQLASAG GQQNVQAGPL YGLSHQGPSS  180
SVAYGSNYAP LPSSTWPSSN KQVAFPERPG QPECHHYMKT GTCKFGATCK YSHPQYLSAP  240
NSNCMLSPLG LPIRPGAQQC VYYSQHGFCK FGPRCKFDHP LGTLSYSPSA SSLTDVPVAP  300
YPLSLPVAPM APSPSSSGLR PEYILTLEPS VNQPASPGTA FGPAGSVPKI CAPHMLLRPP  360
TSTTVATVTN HGGGF*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Bradi2g09340.2.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	AK355379	0.0	AK355379.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, complete cds, clone: NIASHv1019O17.
GenBank	AK361294	0.0	AK361294.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, complete cds, clone: NIASHv1137A21.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_003566542.2	0.0	uncharacterized protein LOC100827764
Swissprot	Q5NAV3	0.0	C3H5_ORYSJ; Zinc finger CCCH domain-containing protein 5
TrEMBL	A0A0Q3ITE3	0.0	A0A0Q3ITE3_BRADI; Uncharacterized protein
TrEMBL	A0A0Q3QQF8	0.0	A0A0Q3QQF8_BRADI; Uncharacterized protein
STRING	BRADI2G09340.1	0.0	(Brachypodium distachyon)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G47850.3	3e-95	C3H family protein

Link Out ? help Back to Top
Phytozome	Bradi2g09340.2.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]