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

Sof012906

Organism

Saccharum officinarum

Taxonomic ID

4547

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Saccharinae; Saccharum; Saccharum officinarum complex

Family

C3H

Protein Properties

Length: 223aa MW: 24563.7 Da PI: 8.5346

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PUT-157a-Saccharum_officinarum-23417	PU_ref	plantGDB	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	36.7	7e-12	8	33	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 +++ C f++ tGtCkyG++CkF H++ Sof012906 8 GQKDCAFYMSTGTCKYGETCKFDHPQ 33 7889********************97 PP
2	zf-CCCH	38.2	2.3e-12	110	134	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 ++ C+f+ +tG Ck+G++CkF+H++ Sof012906 110 EPVCSFYVKTGKCKFGANCKFNHPK 134 789********************96 PP
3	zf-CCCH	39.2	1.2e-12	190	215	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 ++++ C+f+++tG CkyG+ C+F+H+ Sof012906 190 PGEVDCSFYMKTGSCKYGSICRFNHP 215 57899********************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	7.8E-6	6	33	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.49E-6	6	33	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.765	6	34	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	6.0E-10	8	33	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.6E-5	12	32	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.13	56	82	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.361	56	83	IPR000571	Zinc finger, CCCH-type
Pfam	PF14608	0.2	69	81	No hit	No description
SMART	SM00356	1.1E-6	107	134	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	16.286	107	135	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	8.11E-7	107	135	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	7.7E-10	110	134	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.5E-5	112	132	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.1E-6	189	216	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.901	189	217	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.4E-10	191	215	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.16E-5	193	216	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	8.7E-5	195	214	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: 223 aa Download sequence Send to blast
XTYPQRPGQK DCAFYMSTGT CKYGETCKFD HPQWVPEGGV PNWKEVPNVE DSYPERPGEP 60 DCPYLLSSRC KFKSKCKFNH PKKMVNALAT GTDSESLIAD SAIFPVRPSE PVCSFYVKTG 120 KCKFGANCKF NHPKPKDTKT PPLIAKETIY TATTDAAVHI GAADDSVPAK KHVPTAPAEA 180 HNAKGLPIRP GEVDCSFYMK TGSCKYGSIC RFNHPDRPGL FFS

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Sof.13395	0.0	crown\| inflorescence\| meristem\| root

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_021312416.1	1e-145	zinc finger CCCH domain-containing protein 8-like isoform X1
Swissprot	Q5ZDJ6	4e-98	C3H8_ORYSJ; Zinc finger CCCH domain-containing protein 8
TrEMBL	A0A2R4QNG4	1e-156	A0A2R4QNG4_9POAL; Zinc finger-like protein
STRING	Sb03g027910.1	1e-144	(Sorghum bicolor)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G12680.1	4e-69	floral homeotic protein (HUA1)

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] Zhu RS,Xu ZF,Lin MC Ab initio studies of alkyl radical reactions: Combination and disproportionation reactions of CH3 with C2H5, and the decomposition of chemically activated C3H8. J Chem Phys, 2004. 120(14): p. 6566-73 [PMID:15267548]