PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Protein Features |

Gene Ontology |

Orthologous Group |

Publication

Basic Information? help Back to Top

TF ID

Itr_sc000016.1_g00029.1

Organism

Ipomoea trifida

Taxonomic ID

35884

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea

Family

C3H

Protein Properties

Length: 441aa MW: 50118.2 Da PI: 8.5485

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Itr_sc000016.1_g00029.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	21.7	3.5e-07	3	26	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 k++lC+ffar tC G+ C F+H+ Itr_sc000016.1_g00029.1 3 KRVLCKFFAR-RTCLKGEHCEFSHD 26 99******.***********5 PP
2	zf-CCCH	22.9	1.5e-07	34	54	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 +C f+++ G+C yG+rC++ H+ Itr_sc000016.1_g00029.1 34 ICTFYQK-GICVYGSRCRYEHV 54 7****.*********997 PP
3	zf-CCCH	18.7	3e-06	144	165	4	26
---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHg 26 ++C+ fa+ G C++G++C+ +Hg Itr_sc000016.1_g00029.1 144 SICS-FAAAGNCPRGEKCPHIHG 165 6788.**************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	14.155	1	28	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0014	1	27	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	4.19E-6	3	26	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	7.0E-4	3	29	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.976	29	56	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	7.9E-4	30	55	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.83E-5	31	53	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.0E-4	34	54	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	9.2E-4	34	53	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.662	140	167	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0068	141	166	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	6.8E-4	145	165	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF57850	1.06E-12	196	273	No hit	No description
Gene3D	G3DSA:3.30.40.10	1.1E-9	202	268	IPR013083	Zinc finger, RING/FYVE/PHD-type
CDD	cd00162	2.07E-4	208	268	No hit	No description
SMART	SM00184	1.1E-7	209	266	IPR001841	Zinc finger, RING-type
Pfam	PF00097	3.1E-7	209	266	IPR018957	Zinc finger, C3HC4 RING-type
PROSITE profile	PS50089	12.43	209	267	IPR001841	Zinc finger, RING-type
PROSITE pattern	PS00518	0	233	242	IPR017907	Zinc finger, RING-type, conserved site
PROSITE profile	PS50103	13.704	296	325	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.042	296	324	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005515	Molecular Function	protein binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 441 aa Download sequence Send to blast
MSKRVLCKFF ARRTCLKGEH CEFSHDWQDP PNNICTFYQK GICVYGSRCR YEHVRISQLQ 60 SSAPSSSVLA RQHLLSSSDP TPANYETVVG GVGLGTGITT EHLNSSKRDH YPKKPGWNQK 120 TGPQDSRDDE KNVKLKSLNA ADQSICSFAA AGNCPRGEKC PHIHGDLCSS CGKHCLHPFR 180 PQEREEHIKK CEKLQKHLEA LKHSQEIDCS VCLERVLSKP TAAERKFGIL SECDHPFCIS 240 CIRNWRSSSP SSGFDVNSAL RACPICRKLS YFVIPSVIWY STKEEKQEII ASYKTKLRSI 300 DCKHFDFGSG TCPFGSSCFY KHAYRDGRLE EVVLRQLGYD DGTTIIVKNI RLSDLLSNLQ 360 MSTITVGFGN RYMSQTAKLY HIGIRRYWDF LLKHKESILP SLGLEFEPMT SHFEELFRAT 420 RPQERASVIW IQGADTVLNM W

Sequence ? help Back to Top

Protein Sequence Length: 441 aa Download sequence Send to blast

MSKRVLCKFF ARRTCLKGEH CEFSHDWQDP PNNICTFYQK GICVYGSRCR YEHVRISQLQ  60
SSAPSSSVLA RQHLLSSSDP TPANYETVVG GVGLGTGITT EHLNSSKRDH YPKKPGWNQK  120
TGPQDSRDDE KNVKLKSLNA ADQSICSFAA AGNCPRGEKC PHIHGDLCSS CGKHCLHPFR  180
PQEREEHIKK CEKLQKHLEA LKHSQEIDCS VCLERVLSKP TAAERKFGIL SECDHPFCIS  240
CIRNWRSSSP SSGFDVNSAL RACPICRKLS YFVIPSVIWY STKEEKQEII ASYKTKLRSI  300
DCKHFDFGSG TCPFGSSCFY KHAYRDGRLE EVVLRQLGYD DGTTIIVKNI RLSDLLSNLQ  360
MSTITVGFGN RYMSQTAKLY HIGIRRYWDF LLKHKESILP SLGLEFEPMT SHFEELFRAT  420
RPQERASVIW IQGADTVLNM W

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019159343.1	0.0	PREDICTED: E3 ubiquitin-protein ligase makorin-like isoform X1
Refseq	XP_019159344.1	0.0	PREDICTED: E3 ubiquitin-protein ligase makorin-like isoform X1
Swissprot	E0X9N4	1e-162	C3H69_ARATH; Putative RING-type E3 ubiquitin transferase C3H69
TrEMBL	A0A484LHK0	0.0	A0A484LHK0_9ASTE; Uncharacterized protein
STRING	XP_009627500.1	0.0	(Nicotiana tomentosiformis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA3386	21	49

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G08505.2	1e-154	C3H family protein

Publications ? help Back to Top
Wang CT,Ho CH,Hseu MJ,Chen CM The subtelomeric region of the Arabidopsis thaliana chromosome IIIR contains potential genes and duplicated fragments from other chromosomes. Plant Mol. Biol., 2010. 74(1-2): p. 155-66 [PMID:20652368]