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_65550.2

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: 330aa MW: 35594.9 Da PI: 7.209

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
MLOC_65550.2	genome	IBSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	32.2	1.8e-10	52	78	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 +++++C +++rtG C yG++C+++H++ MLOC_65550.2 52 PGEANCVYYLRTGACGYGETCRYNHPR 78 57899********************96 PP
2	zf-CCCH	38.9	1.5e-12	100	126	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 +++++C +++++GtCk+G++Ck++H++ MLOC_65550.2 100 PGQPPCEYYMKNGTCKFGSNCKYNHPR 126 5899*********************96 PP
3	zf-CCCH	35.4	1.8e-11	147	171	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 +++C+++ +tG+Ck+G++CkF+H++ MLOC_65550.2 147 EKECSYYIKTGHCKFGSTCKFHHPE 171 689********************96 PP
4	zf-CCCH	39	1.4e-12	301	327	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 +++++C+++++tGtCk+G++Ck++H++ MLOC_65550.2 301 PGQPECHHYMKTGTCKFGSTCKYNHPQ 327 5789*********************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	1.9E-5	51	78	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.291	51	79	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.1E-7	53	78	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	4.19E-6	55	80	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.5E-4	57	78	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	17.093	99	127	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	3.4E-7	99	126	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.1E-10	101	126	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.44E-6	102	127	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.4E-5	104	127	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.014	144	172	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	3.3E-4	144	171	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.31E-6	145	171	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.8E-8	147	171	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.9E-4	150	171	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.197	300	328	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.5E-5	300	327	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.0E-10	302	327	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	9.03E-6	303	327	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: 330 aa Download sequence Send to blast
MMESYAASPK DGGGGGAEGG RADAATGLEE SMWRLGLAGG EEAAGEGLPE RPGEANCVYY 60 LRTGACGYGE TCRYNHPRDR AAAFDGGIRT TRTVEYPERP GQPPCEYYMK NGTCKFGSNC 120 KYNHPREGGS VQPVVLNSSG YPLRLGEKEC SYYIKTGHCK FGSTCKFHHP EGPELGVVSE 180 PPNMYPPVQQ LPVSSPLPYP PLASWQLGRP SVLPGSFFPG SYPPMMHPSA VMPMQGWNPY 240 MSPMNQVAPA GGQQTVQAGP LYGLSHQGPP SAVAYGSNYA SLSSSTWPSS DKQEVVFPER 300 PGQPECHHYM KTGTCKFGST CKYNHPQYLS

Cis-element ? help Back to Top
Source	Link
PlantRegMap	MLOC_65550.2

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-154	C3H5_ORYSJ; Zinc finger CCCH domain-containing protein 5
TrEMBL	A0A287KRE7	0.0	A0A287KRE7_HORVV; Uncharacterized protein
STRING	MLOC_65550.2	0.0	(Hordeum vulgare)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP2761	38	89

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]