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

GSBRNA2T00085368001

Common Name

GSBRNA2T00085368001

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

C3H

Protein Properties

Length: 431aa MW: 48275.5 Da PI: 8.5289

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00085368001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	36.7	7.1e-12	290	315	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 y +C+++ +tG+C yGd+CkF H+ GSBRNA2T00085368001 290 YQPDICKDYKETGYCGYGDSCKFLHD 315 66789********************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	2.22E-9	288	321	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	8.4E-8	289	316	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.009	289	317	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.4E-9	290	315	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	5.9E-13	290	320	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:3.30.40.10	3.3E-13	349	406	IPR013083	Zinc finger, RING/FYVE/PHD-type
Pfam	PF13920	6.9E-9	364	406	No hit	No description
SuperFamily	SSF57850	5.3E-13	364	407	No hit	No description
PROSITE profile	PS50089	10.601	365	403	IPR001841	Zinc finger, RING-type
SMART	SM00184	5.2E-5	365	402	IPR001841	Zinc finger, RING-type
CDD	cd00162	1.73E-8	365	406	No hit	No description
PROSITE pattern	PS00518	0	380	389	IPR017907	Zinc finger, RING-type, conserved site

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: 431 aa Download sequence Send to blast
MAGHKWNEET RSGTTHGSHI KWVLRRITTA QNLNPTTKAT VQNGAQGLRT EKCERRRGSS 60 SRRTSPARIS ELPKGRGANF NFDLTMSDSG GEPKTSQQEE ASQPESQSQS QSKQVCTFFK 120 KPSKAKNLRK RPAADADEQD ADSKSETSIL NNLKKAAKPD NKLFFSSGPS KTSSTTTGEA 180 PEKAVVFHYD SSKEIQVQND SRATATLETE TDFNQDARAI RERVLKRADE ALKGNKNKAS 240 DEKLYTGIHG YTDHKAGFRR EQTISSEKAG GSHGPLRASA HIRVSARFDY QPDICKDYKE 300 TGYCGYGDSC KFLHDRGDYK PGWQIEKEWE EAEKIRKRNK AMGVEDEDDD DADSEEDEDA 360 LPFACFICRE AFVDPVVTKC KHYFCEHCAL KHHTKNKKCF VCNQPTMGIF NAAHEIKKRM 420 AEERSKAQGL *

Sequence ? help Back to Top

Protein Sequence Length: 431 aa Download sequence Send to blast

MAGHKWNEET RSGTTHGSHI KWVLRRITTA QNLNPTTKAT VQNGAQGLRT EKCERRRGSS  60
SRRTSPARIS ELPKGRGANF NFDLTMSDSG GEPKTSQQEE ASQPESQSQS QSKQVCTFFK  120
KPSKAKNLRK RPAADADEQD ADSKSETSIL NNLKKAAKPD NKLFFSSGPS KTSSTTTGEA  180
PEKAVVFHYD SSKEIQVQND SRATATLETE TDFNQDARAI RERVLKRADE ALKGNKNKAS  240
DEKLYTGIHG YTDHKAGFRR EQTISSEKAG GSHGPLRASA HIRVSARFDY QPDICKDYKE  300
TGYCGYGDSC KFLHDRGDYK PGWQIEKEWE EAEKIRKRNK AMGVEDEDDD DADSEEDEDA  360
LPFACFICRE AFVDPVVTKC KHYFCEHCAL KHHTKNKKCF VCNQPTMGIF NAAHEIKKRM  420
AEERSKAQGL *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5z56_M	1e-68	114	429	13	326	RING finger protein 113A
5z58_M	1e-68	114	429	13	326	RING finger protein 113A
6ff4_t	1e-68	114	429	13	326	RING finger protein 113A
6ff7_t	1e-68	114	429	13	326	RING finger protein 113A
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.4825	0.0	seed

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00085368001

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013698314.1	0.0	zinc finger CCCH domain-containing protein 1-like
Refseq	XP_013698315.1	0.0	zinc finger CCCH domain-containing protein 1-like
Swissprot	Q8GX84	0.0	C3H1_ARATH; Zinc finger CCCH domain-containing protein 1
TrEMBL	A0A078FQN8	0.0	A0A078FQN8_BRANA; BnaC05g00630D protein
STRING	Bo5g002540.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM11099	26	34

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G01350.1	0.0	C3H family protein

Publications ? help Back to Top
Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293]