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.009G205100.2.p

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: 341aa MW: 36739.6 Da PI: 7.4787

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.009G205100.2.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	22.1	2.7e-07	181	206	3	26
S---SGGGGTS...--TTTTT-SS-SS CS zf-CCCH 3 telCrffartG...tCkyGdrCkFaHg 26 e+C++f+r C++G+ C+FaHg Sobic.009G205100.2.p 181 GEPCPDFRR-RpgaACPRGPACPFAHG 206 589**99.558***********9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	0.017	178	207	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.389	178	208	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.0E-5	179	210	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.5E-5	182	206	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	28	216	239	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: 341 aa Download sequence Send to blast
MPSMPPPPDP TAGARRRRPR PSRASAPPIK PASPTPRLLT SAKARSPPPH SSLFFPSTTV 60 PAATSGGSEA VSAGMVSREQ HTHSYEHLVL DPASLPLGVS WADPAAVEIP PQLLAALGEY 120 LSAARGGGGE EDAEADDEFM MYEFKVRRCA RARSHDWTAC PYAHPGEAAR RRDPRRVAYT 180 GEPCPDFRRR PGAACPRGPA CPFAHGTFEL WLHPSRYRTR PCRAGVACRR RVCFFAHTAA 240 ELRAGAKDEC SPLSLSLSPK STLAPLWESP PVSPVEAGRR WVDAIDEPSL DAADAEMEEL 300 MLAMRELSFR KAQAASSAPV LPAVTEEDGP DLGWVSELVM *

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.009G205100.2.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	EU953602	0.0	EU953602.1 Zea mays clone 1437892 CCCH transcription factor mRNA, complete cds.
GenBank	EU955047	0.0	EU955047.1 Zea mays clone 1505137 CCCH transcription factor mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_021303637.1	0.0	zinc finger CCCH domain-containing protein 37-like
Swissprot	Q65X92	1e-135	C3H37_ORYSJ; Zinc finger CCCH domain-containing protein 37
TrEMBL	A0A1Z5R4P2	0.0	A0A1Z5R4P2_SORBI; Uncharacterized protein
STRING	GRMZM2G004795_P01	1e-138	(Zea mays)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP11209	19	26
Representative plant	OGRP12864	2	2

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G44260.1	1e-30	C3H family protein

Link Out ? help Back to Top
Phytozome	Sobic.009G205100.2.p

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]