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_58450.2

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: 402aa MW: 42999.3 Da PI: 9.8011

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
MLOC_58450.2	genome	IBSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	44.6	2.4e-14	327	352	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 yktelC+ + +tG C yGd+C+FaHg MLOC_58450.2 327 YKTELCNKWEETGACLYGDQCQFAHG 352 9************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1000.10	1.4E-17	323	358	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.22E-10	324	358	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	6.1E-9	326	353	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.309	326	354	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	9.2E-11	327	352	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	4.2E-11	360	390	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	4.58E-8	360	392	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	3.1E-4	364	391	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.249	364	392	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: 402 aa Download sequence Send to blast
MQEAPLVPAH PVPFGFWPRP VCFFYAGCTP FVPCPSPSPL GSPVVPIPTP SPRGTTFVPI 60 PGPSPLGSPF IANPGPSPRA TTFAPSPRPS PRATPVTPCT RTSSRGSPFT PSPRAQPGGT 120 PWSSSSSSGS RVDDAAATEH RLRLARLALQ YQDATNRYEL CLSHLADAAR EAAALRLENS 180 ELRVANNDLA GRFAMLGGNQ ASAVALAGQL RGVHLGQMQV QVPAVASPPV LPMPMARPRP 240 ASPAEKHTVM PKSISIRSTG YLKMAKDGKH RVTKPMDVGS QRMFVGVDVG GAKAEEHKGG 300 TDGGEKRAHV VKSAAGLEFE VYSQGMYKTE LCNKWEETGA CLYGDQCQFA HGIAELRPII 360 RHPRYKTQVC RMVIGGGLCP YGHRCHFRHS ITPADNIPLL YP

Sequence ? help Back to Top

Protein Sequence Length: 402 aa Download sequence Send to blast

MQEAPLVPAH PVPFGFWPRP VCFFYAGCTP FVPCPSPSPL GSPVVPIPTP SPRGTTFVPI  60
PGPSPLGSPF IANPGPSPRA TTFAPSPRPS PRATPVTPCT RTSSRGSPFT PSPRAQPGGT  120
PWSSSSSSGS RVDDAAATEH RLRLARLALQ YQDATNRYEL CLSHLADAAR EAAALRLENS  180
ELRVANNDLA GRFAMLGGNQ ASAVALAGQL RGVHLGQMQV QVPAVASPPV LPMPMARPRP  240
ASPAEKHTVM PKSISIRSTG YLKMAKDGKH RVTKPMDVGS QRMFVGVDVG GAKAEEHKGG  300
TDGGEKRAHV VKSAAGLEFE VYSQGMYKTE LCNKWEETGA CLYGDQCQFA HGIAELRPII  360
RHPRYKTQVC RMVIGGGLCP YGHRCHFRHS ITPADNIPLL YP

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1rgo_A	1e-22	327	390	4	67	Butyrate response factor 2
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	MLOC_58450.2

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	AC098571	1e-95	AC098571.2 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OJ1126_B10, complete sequence.
GenBank	AC098832	1e-95	AC098832.3 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OJ1268_B08, complete sequence.
GenBank	AK106354	1e-95	AK106354.1 Oryza sativa Japonica Group cDNA clone:002-102-A03, full insert sequence.
GenBank	AP014961	1e-95	AP014961.1 Oryza sativa Japonica Group DNA, chromosome 5, cultivar: Nipponbare, complete sequence.
GenBank	CP012613	1e-95	CP012613.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_020179183.1	0.0	zinc finger CCCH domain-containing protein 39-like
Swissprot	Q6L5G1	1e-107	C3H39_ORYSJ; Zinc finger CCCH domain-containing protein 39
TrEMBL	A0A287GPQ1	0.0	A0A287GPQ1_HORVV; Uncharacterized protein
STRING	MLOC_58450.2	0.0	(Hordeum vulgare)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP2775	37	84

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G66810.1	5e-48	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] Cheng CH, et al. A fine physical map of the rice chromosome 5. Mol. Genet. Genomics, 2005. 274(4): p. 337-45 [PMID:16261349]