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

Sobic.006G254600.1.p

Common Name

Sb06g031850, SORBIDRAFT_06g031850

Organism

Sorghum bicolor

Taxonomic ID

4558

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum

Family

C3H

Protein Properties

Length: 451aa MW: 48831.8 Da PI: 6.5734

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.006G254600.1.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	18.6	3.4e-06	402	425	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 t++C +f C+ G++C+F H+ Sobic.006G254600.1.p 402 TKPCAYFNSARGCRNGANCTFLHD 425 899********************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	13.704	399	427	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	4.71E-5	401	428	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.3E-4	402	425	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.4E-6	402	427	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: 451 aa Download sequence Send to blast
MMGSRRSKRV SWATGANLCK VRLFLSEDSP SQAGLRPQDN LQAKGSWLMH AAGPSSDDSL 60 PPGFESLQPT SDLKIDISQI PLIRWRCPPQ ILYNPDWLVV AGEESEEVAL QNERIFGALE 120 AIYPRPSNIP PNPLVTPDVK DSQFDDSRTQ LVPLIPVEED DASDQLEEPP VGLPSSHHQS 180 DKYDSAIFRA PPASDAPFTQ PNGSINATRS GAPVEPDAVA AASAAYTAIM QSNQMGNMID 240 QDLLIKILSD PAQIERLMKE YGALKHEQST NSSVVPMVQG PPPQMTASVP VSFPDHSTTF 300 HNVNPTLPPP PVLNHLPPAI PSGTMNAPAS SSQAISFPSG PARGLNYYQS LIHQHGGERQ 360 EPLQQHGRQF AMHHQPVASQ ASATDIVSSG TMAARDNKQR PTKPCAYFNS ARGCRNGANC 420 TFLHDMSAAR KEQPKGSKRI KLDSRIAGRY *

Sequence ? help Back to Top

Protein Sequence Length: 451 aa Download sequence Send to blast

MMGSRRSKRV SWATGANLCK VRLFLSEDSP SQAGLRPQDN LQAKGSWLMH AAGPSSDDSL  60
PPGFESLQPT SDLKIDISQI PLIRWRCPPQ ILYNPDWLVV AGEESEEVAL QNERIFGALE  120
AIYPRPSNIP PNPLVTPDVK DSQFDDSRTQ LVPLIPVEED DASDQLEEPP VGLPSSHHQS  180
DKYDSAIFRA PPASDAPFTQ PNGSINATRS GAPVEPDAVA AASAAYTAIM QSNQMGNMID  240
QDLLIKILSD PAQIERLMKE YGALKHEQST NSSVVPMVQG PPPQMTASVP VSFPDHSTTF  300
HNVNPTLPPP PVLNHLPPAI PSGTMNAPAS SSQAISFPSG PARGLNYYQS LIHQHGGERQ  360
EPLQQHGRQF AMHHQPVASQ ASATDIVSSG TMAARDNKQR PTKPCAYFNS ARGCRNGANC  420
TFLHDMSAAR KEQPKGSKRI KLDSRIAGRY *

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.006G254600.1.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	BT060814	0.0	BT060814.1 Zea mays full-length cDNA clone ZM_BFb0053I10 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002448705.1	0.0	zinc finger CCCH domain-containing protein 30
Swissprot	Q7XM16	1e-180	C3H30_ORYSJ; Zinc finger CCCH domain-containing protein 30
TrEMBL	C5Y9Y4	0.0	C5Y9Y4_SORBI; Uncharacterized protein
STRING	Sb06g031850.1	0.0	(Sorghum bicolor)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP8680	10	13
Representative plant	OGRP2129	6	8

Link Out ? help Back to Top
Phytozome	Sobic.006G254600.1.p
Entrez Gene	8070281

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]