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

Rsa1.0_01609.1_g00001.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 504aa MW: 55887.8 Da PI: 7.7895

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_01609.1_g00001.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.2	1.4e-05	97	119	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Rsa1.0_01609.1_g00001.1 97 FVCEICNKGFQRDQNLQLHRRGH 119 89*******************88 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.14E-6	96	119	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.7E-5	96	119	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.949	97	119	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.017	97	119	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	8.0E-5	97	119	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	99	119	IPR007087	Zinc finger, C2H2
SMART	SM00355	170	139	169	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	1.14E-6	169	194	No hit	No description
SMART	SM00355	180	174	194	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 504 aa Download sequence Send to blast
MMNEDILLHQ QVHQQQEENM SNLTSASGDQ ASVSSGNRTE VSGSNYFPHH HQQEEQQQFI 60 VPESQPQKKR RNQPGNPDPE SEVIALSPKT LMATNRFVCE ICNKGFQRDQ NLQLHRRGHN 120 LPWKLKQRSN KEVIRKKVYV CPEESCVHND PSRALGDLTG IKKHFCRKHG EKKWKCDKCS 180 KKYAVQSDCK AHSKTCGTKE YRCDCGTLFS RRDSFITHRA FCEALAEETA REVVIPQNQN 240 HQPNPLMIQQ SSSSSSHHHQ AQPTVNISSC SSSSHNIINS LHFETNHNGT NNSNTNSNHL 300 HTFPMKIEQQ QSNDHIISYH QHIIPPWLTS PNPNPSNGGG GLFSLAASPA MSATALLQKA 360 AQMGSTKSPP LPPNTDSERP AHHNNNLTTK MASMMTSPSG FISSNNSNNQ VLFQDYNASE 420 FDHHGGEEAF DDTFGGFLRT NVDTTTTSGS DKNKSGGGGG EGLTRDFLGL RPLMSHNEIL 480 SFAGLGNCIN GSASDQLHPK PWQG

Sequence ? help Back to Top

Protein Sequence Length: 504 aa Download sequence Send to blast

MMNEDILLHQ QVHQQQEENM SNLTSASGDQ ASVSSGNRTE VSGSNYFPHH HQQEEQQQFI  60
VPESQPQKKR RNQPGNPDPE SEVIALSPKT LMATNRFVCE ICNKGFQRDQ NLQLHRRGHN  120
LPWKLKQRSN KEVIRKKVYV CPEESCVHND PSRALGDLTG IKKHFCRKHG EKKWKCDKCS  180
KKYAVQSDCK AHSKTCGTKE YRCDCGTLFS RRDSFITHRA FCEALAEETA REVVIPQNQN  240
HQPNPLMIQQ SSSSSSHHHQ AQPTVNISSC SSSSHNIINS LHFETNHNGT NNSNTNSNHL  300
HTFPMKIEQQ QSNDHIISYH QHIIPPWLTS PNPNPSNGGG GLFSLAASPA MSATALLQKA  360
AQMGSTKSPP LPPNTDSERP AHHNNNLTTK MASMMTSPSG FISSNNSNNQ VLFQDYNASE  420
FDHHGGEEAF DDTFGGFLRT NVDTTTTSGS DKNKSGGGGG EGLTRDFLGL RPLMSHNEIL  480
SFAGLGNCIN GSASDQLHPK PWQG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	4e-31	170	238	3	71	Zinc finger protein JACKDAW
5b3h_F	4e-31	170	238	3	71	Zinc finger protein JACKDAW
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	123	136	KLKQRSNKEVIRKK

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. {ECO:0000305}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00355	DAP	Transfer from AT3G13810	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_01609.1_g00001.1

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AF361797	0.0	AF361797.1 Arabidopsis thaliana AT3g13810/MCP4_2 mRNA, complete cds.
GenBank	AY091693	0.0	AY091693.1 Arabidopsis thaliana AT3g13810/MCP4_2 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018441287.1	0.0	PREDICTED: protein indeterminate-domain 11-like isoform X3
Refseq	XP_018441288.1	0.0	PREDICTED: protein indeterminate-domain 11-like isoform X3
Refseq	XP_018441289.1	0.0	PREDICTED: protein indeterminate-domain 11-like isoform X3
Refseq	XP_018441381.1	0.0	PREDICTED: protein indeterminate-domain 11-like isoform X3
Refseq	XP_018441382.1	0.0	PREDICTED: protein indeterminate-domain 11-like isoform X3
Refseq	XP_018441383.1	0.0	PREDICTED: protein indeterminate-domain 11-like isoform X3
Swissprot	Q9LRW7	0.0	IDD11_ARATH; Protein indeterminate-domain 11
TrEMBL	A0A0D3ADV3	0.0	A0A0D3ADV3_BRAOL; Uncharacterized protein
STRING	Bo1g134920.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM155	28	306

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G13810.1	0.0	indeterminate(ID)-domain 11

Publications ? help Back to Top
Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]