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

Sof001355

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: 539aa MW: 58708 Da PI: 6.9245

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
gnl\|UG\|Sof#S17390379	PU_unref	Unigene	View CDS
PUT-157a-Saccharum_officinarum-40137	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	34.8	2.7e-11	107	132	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 ++++ C++++++GtC++G +CkF+H+ Sof001355 107 PGEPDCSYYLKFGTCRFGIKCKFNHP 132 5789*********************8 PP
2	zf-CCCH	25.3	2.6e-08	250	272	3	25
S---SGGGGTS--TTTTT-SS-S CS zf-CCCH 3 telCrffartGtCkyGdrCkFaH 25 +e+C++++ G Ck+G Ck+ H Sof001355 250 QEECKYYSTPGGCKFGKACKYLH 272 589******************** PP
3	zf-CCCH	33.3	8.5e-11	297	321	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C++++rtG Ck+ +CkF+H+ Sof001355 297 GEKECPYYMRTGSCKFATNCKFHHP 321 7899********************9 PP
4	zf-CCCH	22.4	2.2e-07	443	469	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 +++++C++f ++G+Cky +C+F+H++ Sof001355 443 PGQPECQHFIKSGFCKYRMKCRFHHPR 469 5789*********************96 PP
5	zf-CCCH	23.6	8.7e-08	489	514	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 +++ C ++ r+G+CkyG+ C F+H++ Sof001355 489 DQPMCTYYGRYGFCKYGPACMFNHPF 514 6799********************95 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	4.2E-5	106	133	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.774	106	134	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.6E-8	108	132	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	7.06E-5	111	134	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0046	247	274	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.84	247	275	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	7.59E-5	251	275	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	7.8E-6	251	272	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.3E-4	253	274	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.9E-5	295	322	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.793	295	323	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.3E-7	297	321	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.03E-5	298	323	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	5.6E-4	301	320	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.11	442	469	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.807	442	470	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	5.49E-5	446	471	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.032	487	514	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.493	487	515	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.44E-5	488	515	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.2E-4	493	514	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: 539 aa Download sequence Send to blast
MADADAKPPP HDAAASLVPS ISPSSVGAGD AADEDEIEKQ LAGLGIAVAG NSSGFPEPSG 60 WDDGPVPVPI TAAVLVGGDE GADEKAPAPA PAPTGAVDVK VRFPRRPGEP DCSYYLKFGT 120 CRFGIKCKFN HPARKKKSSR VRGSGSNSSS NKASSPDDDQ APREEYEGLV PDISDSMGFD 180 DKGSLSSSEN HRKMSYEVID MKRGKLEPKE KICEEPEKGI YFMKLDETNV TTQKGAKDKR 240 KETFAEGNAQ EECKYYSTPG GCKFGKACKY LHREGKEGKT EVEKAELNFL GLPLRPGEKE 300 CPYYMRTGSC KFATNCKFHH PDPTNAPSKE PGLEHENADT PLQNVQGSSQ PSLQIWPDQR 360 TLNEQHVPFL APAPSYGGGM VPPQGMYPSP DWSGYHQVPL NPYYPPGVPF PHFPAAHMNH 420 PMYKAADIPG NQPLPSDEYP ERPGQPECQH FIKSGFCKYR MKCRFHHPRS RQSAPLTGLS 480 PIGLPIKPDQ PMCTYYGRYG FCKYGPACMF NHPFNFGPPV PAAGPALPGQ YTIPGNFTV

Sequence ? help Back to Top

Protein Sequence Length: 539 aa Download sequence Send to blast

MADADAKPPP HDAAASLVPS ISPSSVGAGD AADEDEIEKQ LAGLGIAVAG NSSGFPEPSG  60
WDDGPVPVPI TAAVLVGGDE GADEKAPAPA PAPTGAVDVK VRFPRRPGEP DCSYYLKFGT  120
CRFGIKCKFN HPARKKKSSR VRGSGSNSSS NKASSPDDDQ APREEYEGLV PDISDSMGFD  180
DKGSLSSSEN HRKMSYEVID MKRGKLEPKE KICEEPEKGI YFMKLDETNV TTQKGAKDKR  240
KETFAEGNAQ EECKYYSTPG GCKFGKACKY LHREGKEGKT EVEKAELNFL GLPLRPGEKE  300
CPYYMRTGSC KFATNCKFHH PDPTNAPSKE PGLEHENADT PLQNVQGSSQ PSLQIWPDQR  360
TLNEQHVPFL APAPSYGGGM VPPQGMYPSP DWSGYHQVPL NPYYPPGVPF PHFPAAHMNH  420
PMYKAADIPG NQPLPSDEYP ERPGQPECQH FIKSGFCKYR MKCRFHHPRS RQSAPLTGLS  480
PIGLPIKPDQ PMCTYYGRYG FCKYGPACMF NHPFNFGPPV PAAGPALPGQ YTIPGNFTV

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Sof.7903	0.0	callus\| crown\| inflorescence\| leaf\| root

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002442111.1	0.0	zinc finger CCCH domain-containing protein 65 isoform X1
Swissprot	Q2QTY2	0.0	C3H65_ORYSJ; Zinc finger CCCH domain-containing protein 65
TrEMBL	A0A1Z5R5T8	0.0	A0A1Z5R5T8_SORBI; Uncharacterized protein
STRING	Sb08g012360.1	0.0	(Sorghum bicolor)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G48440.1	7e-56	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]