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 |

Function |

Orthologous Group |

Publication

Basic Information? help Back to Top

TF ID

cra_locus_2010_iso_3

Organism

Catharanthus roseus

Taxonomic ID

4058

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Apocynaceae; Rauvolfioideae; Vinceae; Catharanthinae; Catharanthus

Family

C3H

Protein Properties

Length: 466aa MW: 51601.9 Da PI: 6.3338

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
cra_locus_2010_iso_3	genome	MPGR	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	23.9	7.2e-08	85	105	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 +C f+++ G C yG+rC++ H+ cra_locus_2010_iso_3_len_2141_ver_3 85 ICTFYQK-GACAYGSRCRYEHV 105 7****.*********997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	1.28E-7	52	77	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.047	52	79	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.8E-5	52	78	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.746	80	107	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.27E-5	82	104	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.6E-4	82	106	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	6.3E-4	85	104	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.0E-5	85	105	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.343	192	219	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0023	193	218	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF57850	1.77E-13	249	325	No hit	No description
Gene3D	G3DSA:3.30.40.10	3.3E-10	254	320	IPR013083	Zinc finger, RING/FYVE/PHD-type
CDD	cd00162	1.04E-4	260	320	No hit	No description
SMART	SM00184	6.8E-8	261	318	IPR001841	Zinc finger, RING-type
PROSITE profile	PS50089	12.475	261	319	IPR001841	Zinc finger, RING-type
Pfam	PF00097	1.9E-7	261	318	IPR018957	Zinc finger, C3HC4 RING-type
PROSITE pattern	PS00518	0	285	294	IPR017907	Zinc finger, RING-type, conserved site
PROSITE profile	PS50103	13.225	348	377	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.12	348	376	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: 466 aa Download sequence Send to blast
ENIADXGTVM TFYGHCFRQS NRQSPIFALE LAEPKFMSSD SFLGVNLAGT MSKKRVLCKF 60 FAHGACLKGE HCEYSHDWKD PSNNICTFYQ KGACAYGSRC RYEHVKVYQS QSSASSSSKT 120 YPSQYTCSDS IHAARPPGPV LGTVGHVLGV SSEAPVINRS FLPSGEPAWA ENSGHGGIPE 180 FSGIGESRSL NPADHPICSF AAAGNCPRGE MCPHIHGDMC PICGKHCLHP FRPQEREDHM 240 KTCFQRQKHL EALKHSQEIE CSVCLERVLS KPTAAERKFG ILSECDHPFC ISCIRNWRSS 300 SSSAGMDVNS AVRACPICRK LSYFVIPSVI WYANKDEKEE IVDSYKAKLR SIDCKHFDFG 360 NGSCPFGTSC FYKHTVKPGS SLWDSTLMPD LYGSRILDVD EAESSSDEEN RDVLRELFKH 420 YRPRLPIGVE ADDSSSEDLD VDDALAPFLM LGALDMSDLS GEDNVM

Sequence ? help Back to Top

Protein Sequence Length: 466 aa Download sequence Send to blast

ENIADXGTVM TFYGHCFRQS NRQSPIFALE LAEPKFMSSD SFLGVNLAGT MSKKRVLCKF  60
FAHGACLKGE HCEYSHDWKD PSNNICTFYQ KGACAYGSRC RYEHVKVYQS QSSASSSSKT  120
YPSQYTCSDS IHAARPPGPV LGTVGHVLGV SSEAPVINRS FLPSGEPAWA ENSGHGGIPE  180
FSGIGESRSL NPADHPICSF AAAGNCPRGE MCPHIHGDMC PICGKHCLHP FRPQEREDHM  240
KTCFQRQKHL EALKHSQEIE CSVCLERVLS KPTAAERKFG ILSECDHPFC ISCIRNWRSS  300
SSSAGMDVNS AVRACPICRK LSYFVIPSVI WYANKDEKEE IVDSYKAKLR SIDCKHFDFG  360
NGSCPFGTSC FYKHTVKPGS SLWDSTLMPD LYGSRILDVD EAESSSDEEN RDVLRELFKH  420
YRPRLPIGVE ADDSSSEDLD VDDALAPFLM LGALDMSDLS GEDNVM

Functional Description ? help Back to Top
Source	Description
UniProt	E3 ubiquitin ligase catalyzing the covalent attachment of ubiquitin moieties onto substrate proteins. {ECO:0000250}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_027113706.1	0.0	putative RING-type E3 ubiquitin transferase C3H69 isoform X1
Refseq	XP_027113707.1	0.0	putative RING-type E3 ubiquitin transferase C3H69 isoform X1
Refseq	XP_027113708.1	0.0	putative RING-type E3 ubiquitin transferase C3H69 isoform X1
Swissprot	E0X9N4	1e-140	C3H69_ARATH; Putative RING-type E3 ubiquitin transferase C3H69
Swissprot	Q5ZA07	1e-140	C3H41_ORYSJ; E3 ubiquitin-protein ligase makorin
TrEMBL	A0A068UHT2	0.0	A0A068UHT2_COFCA; Uncharacterized protein
STRING	cassava4.1_008853m	1e-170	(Manihot esculenta)

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

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] 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] Sahi VP, et al. A molecular insight into Darwin's "plant brain hypothesis" through expression pattern study of the MKRN gene in plant embryo compared with mouse embryo. Plant Signal Behav, 2012. 7(3): p. 375-81 [PMID:22499205] Wadekar HB,Sahi VP,Morita EH,Abe S MKRN expression pattern during embryonic and post-embryonic organogenesis in rice (Oryza sativa L. var. Nipponbare). Planta, 2013. 237(4): p. 1083-95 [PMID:23262670]