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

478784

Common Name

ARALYDRAFT_478784

Organism

Arabidopsis lyrata

Taxonomic ID

81972

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 508aa MW: 56158.1 Da PI: 8.2947

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
478784	genome	JGI	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 478784 97 FVCEICNKGFQRDQNLQLHRRGH 119 89*******************88 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.28E-5	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
Pfam	PF12171	8.1E-5	97	119	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.017	97	119	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	99	119	IPR007087	Zinc finger, C2H2
SMART	SM00355	240	139	169	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	1.28E-5	169	194	No hit	No description
SMART	SM00355	220	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: 508 aa Download sequence Send to blast
MNKDMLLHQH HQPQQDENMS NLTSASGDQA SVSSGNITEA SGSNYFPHHQ QLQEQQQQFF 60 VPDSQPQKKR RNQPGNPDPD SEVIALSPKT LMATNRFVCE ICNKGFQRDQ NLQLHRRGHN 120 LPWKLKQRSN KEVIRKKVYV CPEASCVHHD PSRALGDLTG IKKHFCRKHG EKKWKCDKCS 180 KKYAVHSDCK AHSKTCGTKE YRCDCGTLFS RRDSFITHRA FCEALAEETA REVVIPQNQN 240 NQPNPLLIHQ SSSHPHPHHH QTQPNINVSS SSSSSHNHNI INSLHFDTNN GTNNSNSSNN 300 HLHTFPMKKE QQSNDHIMNY HHSIPPWLAP QPHDLTSSNP NPSNGGGGGS LFSLASPAMS 360 ATALLQKAAQ MGSTKTPPLP PTTDYERSTR NNNLTTTMAA MMTSPSGFIS SNNNNQVLFQ 420 DYNASGFDHH GGEEAFDDTF GGFLRTSEAT TAAGSEKSKS GGGEGLTRDF LGLRPLMSHN 480 EILSFAGLGN CINSSASDQL HPKPWQG*

Sequence ? help Back to Top

Protein Sequence Length: 508 aa Download sequence Send to blast

MNKDMLLHQH HQPQQDENMS NLTSASGDQA SVSSGNITEA SGSNYFPHHQ QLQEQQQQFF  60
VPDSQPQKKR RNQPGNPDPD SEVIALSPKT LMATNRFVCE ICNKGFQRDQ NLQLHRRGHN  120
LPWKLKQRSN KEVIRKKVYV CPEASCVHHD PSRALGDLTG IKKHFCRKHG EKKWKCDKCS  180
KKYAVHSDCK AHSKTCGTKE YRCDCGTLFS RRDSFITHRA FCEALAEETA REVVIPQNQN  240
NQPNPLLIHQ SSSHPHPHHH QTQPNINVSS SSSSSHNHNI INSLHFDTNN GTNNSNSSNN  300
HLHTFPMKKE QQSNDHIMNY HHSIPPWLAP QPHDLTSSNP NPSNGGGGGS LFSLASPAMS  360
ATALLQKAAQ MGSTKTPPLP PTTDYERSTR NNNLTTTMAA MMTSPSGFIS SNNNNQVLFQ  420
DYNASGFDHH GGEEAFDDTF GGFLRTSEAT TAAGSEKSKS GGGEGLTRDF LGLRPLMSHN  480
EILSFAGLGN CINSSASDQL HPKPWQG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-31	170	238	3	71	Zinc finger protein JACKDAW
5b3h_F	1e-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	478784

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_010501280.1	0.0	PREDICTED: protein indeterminate-domain 11-like isoform X2
Refseq	XP_010501294.1	0.0	PREDICTED: protein indeterminate-domain 11-like isoform X3
Swissprot	Q9LRW7	0.0	IDD11_ARATH; Protein indeterminate-domain 11
TrEMBL	D7L286	0.0	D7L286_ARALL; Uncharacterized protein
STRING	fgenesh2_kg.3__1485__AT3G13810.1	0.0	(Arabidopsis lyrata)

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

Link Out ? help Back to Top
Phytozome	478784
Entrez Gene	9318917

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]