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

MLOC_65550.1

Organism

Hordeum vulgare

Taxonomic ID

4513

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Triticodae; Triticeae; Hordeinae; Hordeum

Family

C3H

Protein Properties

Length: 222aa MW: 24169.4 Da PI: 8.5393

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
MLOC_65550.1	genome	IBSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	25.9	1.7e-08	1	18	10	27
GGTS--TTTTT-SS-SSS CS zf-CCCH 10 artGtCkyGdrCkFaHgp 27 +++GtCk+G++Ck++H++ MLOC_65550.1 1 MKNGTCKFGSNCKYNHPR 18 89**************96 PP
2	zf-CCCH	36.1	1.1e-11	39	63	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 +++C+++ +tG+Ck+G++CkF+H++ MLOC_65550.1 39 EKECSYYIKTGHCKFGSTCKFHHPE 63 689********************96 PP
3	zf-CCCH	39.7	8.1e-13	193	219	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 +++++C+++++tGtCk+G++Ck++H++ MLOC_65550.1 193 PGQPECHHYMKTGTCKFGSTCKYNHPQ 219 5789*********************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	12.127	1	19	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	29	1	18	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.2E-6	1	18	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.014	36	64	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	3.3E-4	36	63	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	7.33E-7	37	63	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.2E-8	39	63	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.1E-4	42	63	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.197	192	220	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.5E-5	192	219	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.3E-10	194	219	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	5.1E-6	195	219	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	7.6E-4	198	218	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: 222 aa Download sequence Send to blast
MKNGTCKFGS NCKYNHPREG GSVQPVVLNS SGYPLRLGEK ECSYYIKTGH CKFGSTCKFH 60 HPEGPELGVV SEPPNMYPPV QQLPVSSPLP YPPLASWQLG RPSVLPGSFF PGSYPPMMHP 120 SAVMPMQGWN PYMSPMNQVA PAGGQQTVQA GPLYGLSHQG PPSAVAYGSN YASLSSSTWP 180 SSDKQEVVFP ERPGQPECHH YMKTGTCKFG STCKYNHPQY LS

Cis-element ? help Back to Top
Source	Link
PlantRegMap	MLOC_65550.1

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_020190679.1	1e-145	zinc finger CCCH domain-containing protein 5-like
Swissprot	Q5NAV3	1e-109	C3H5_ORYSJ; Zinc finger CCCH domain-containing protein 5
TrEMBL	A0A287KRE7	1e-159	A0A287KRE7_HORVV; Uncharacterized protein
STRING	MLOC_65550.2	1e-160	(Hordeum vulgare)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G47850.3	2e-53	C3H family protein

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]