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_65550.3

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: 309aa MW: 33642 Da PI: 7.9721

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
MLOC_65550.3	genome	IBSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	32.3	1.6e-10	35	61	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 +++++C +++rtG C yG++C+++H++ MLOC_65550.3 35 PGEANCVYYLRTGACGYGETCRYNHPR 61 57899********************96 PP
2	zf-CCCH	39	1.3e-12	83	109	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 +++++C +++++GtCk+G++Ck++H++ MLOC_65550.3 83 PGQPPCEYYMKNGTCKFGSNCKYNHPR 109 5899*********************96 PP
3	zf-CCCH	35.5	1.6e-11	130	154	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 +++C+++ +tG+Ck+G++CkF+H++ MLOC_65550.3 130 EKECSYYIKTGHCKFGSTCKFHHPE 154 689********************96 PP
4	zf-CCCH	37.3	4.5e-12	284	309	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 +++++C+++++tGtCk+G++Ck++H+ MLOC_65550.3 284 PGQPECHHYMKTGTCKFGSTCKYNHP 309 5789*********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	13.291	34	62	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.9E-5	34	61	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	9.7E-8	36	61	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.92E-6	38	63	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.3E-4	40	61	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	17.093	82	110	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	3.4E-7	82	109	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.8E-10	84	109	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.11E-6	85	110	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.3E-5	87	110	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	3.3E-4	127	154	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.014	127	155	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.19E-6	128	154	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.5E-8	130	154	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.7E-4	133	154	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.178	283	309	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.11	283	309	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.3E-9	285	309	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.04E-5	286	308	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: 309 aa Download sequence Send to blast
MSLRAAAFCV LAESMWRLGL AGGEEAAGEG LPERPGEANC VYYLRTGACG YGETCRYNHP 60 RDRAAAFDGG IRTTRTVEYP ERPGQPPCEY YMKNGTCKFG SNCKYNHPRE GGSVQPVVLN 120 SSGYPLRLGE KECSYYIKTG HCKFGSTCKF HHPEGPELGV VSEPPNMYPP VQQLPVSSPL 180 PYPPLASWQL GRPSVLPGSF FPGSYPPMMH PSAVMPMQGW NPYMSPMNQV APAGGQQTVQ 240 AGPLYGLSHQ GPPSAVAYGS NYASLSSSTW PSSDKQEVVF PERPGQPECH HYMKTGTCKF 300 GSTCKYNHP

Cis-element ? help Back to Top
Source	Link
PlantRegMap	MLOC_65550.3

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	0.0	zinc finger CCCH domain-containing protein 5-like
Swissprot	Q5NAV3	1e-150	C3H5_ORYSJ; Zinc finger CCCH domain-containing protein 5
TrEMBL	A0A287KRE8	0.0	A0A287KRE8_HORVV; Uncharacterized protein
STRING	MLOC_65550.2	0.0	(Hordeum vulgare)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G47850.3	1e-77	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]