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

Carubv10008958m

Common Name

CARUB_v10008958mg

Organism

Capsella rubella

Taxonomic ID

81985

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 493aa MW: 54618.7 Da PI: 8.7911

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10008958m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	15.2	6.3e-05	123	145	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Carubv10008958m 123 FICEVCNKGFQRDQNLQLHKRGH 145 89******************988 PP
2	zf-C2H2	14.1	0.00014	200	222	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + +s+ k H +t+ Carubv10008958m 200 WKCEKCSKKYAVQSDWKAHAKTC 222 58******************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	5.99E-7	122	145	No hit	No description
Gene3D	G3DSA:3.30.160.60	4.8E-6	122	145	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.824	123	145	IPR007087	Zinc finger, C2H2
Pfam	PF12171	3.8E-5	123	145	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.026	123	145	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	125	145	IPR007087	Zinc finger, C2H2
SMART	SM00355	45	165	195	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.3E-4	188	221	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	5.99E-7	195	220	No hit	No description
SMART	SM00355	140	200	220	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: 493 aa Download sequence Send to blast
RKREREIINK SFFSHPQSPL SRLSPSSSSS SFRMMMNREM IFHQQQQQVE ENMSNLTSAS 60 GDQASVSSGN RTETSGSNLI HQQEQCFVPQ SSIKRKRNQP GNPDPEAEVM ALSPKTLMAT 120 NRFICEVCNK GFQRDQNLQL HKRGHNLPWK LKQRSNKDVV RKKVYICPEP GCVHNHPSRA 180 LGDLTGIKKH FFRKHGEKKW KCEKCSKKYA VQSDWKAHAK TCGTKEYKCD CGTLFSRRDS 240 FITHRAFCDA LAEESARAIP NPILIQSSAS PSHHGHHQTQ QQNITFSTSS QNVISSNNLH 300 APPMKQEESH HHFQNIPPWL ASSNPNNPNG SSNNGNLFPP LASSAPTGRS NFHHPSAAMS 360 ATALLQKAAQ MGSKKSSTAP EEEEKPSRSS YNNLITTTMA EMMTSPSGPA GFGFQDYYMM 420 NHHGGGGEEA FNGGFVAGDD KNDVVDDGGG ETRDFLGLRS LMSHNEILSF ANNLGNCLNS 480 SASEEQQHSH QD*

Sequence ? help Back to Top

Protein Sequence Length: 493 aa Download sequence Send to blast

RKREREIINK SFFSHPQSPL SRLSPSSSSS SFRMMMNREM IFHQQQQQVE ENMSNLTSAS  60
GDQASVSSGN RTETSGSNLI HQQEQCFVPQ SSIKRKRNQP GNPDPEAEVM ALSPKTLMAT  120
NRFICEVCNK GFQRDQNLQL HKRGHNLPWK LKQRSNKDVV RKKVYICPEP GCVHNHPSRA  180
LGDLTGIKKH FFRKHGEKKW KCEKCSKKYA VQSDWKAHAK TCGTKEYKCD CGTLFSRRDS  240
FITHRAFCDA LAEESARAIP NPILIQSSAS PSHHGHHQTQ QQNITFSTSS QNVISSNNLH  300
APPMKQEESH HHFQNIPPWL ASSNPNNPNG SSNNGNLFPP LASSAPTGRS NFHHPSAAMS  360
ATALLQKAAQ MGSKKSSTAP EEEEKPSRSS YNNLITTTMA EMMTSPSGPA GFGFQDYYMM  420
NHHGGGGEEA FNGGFVAGDD KNDVVDDGGG ETRDFLGLRS LMSHNEILSF ANNLGNCLNS  480
SASEEQQHSH QD*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-36	196	257	3	64	Zinc finger protein JACKDAW
5b3h_F	2e-36	196	257	3	64	Zinc finger protein JACKDAW
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	149	162	KLKQRSNKDVVRKK

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
MP00206	DAP	Transfer from AT1G55110	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10008958m

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	AY090998	0.0	AY090998.1 Arabidopsis thaliana putative zinc finger protein (At1g55110) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023632613.1	0.0	protein indeterminate-domain 7 isoform X1
Swissprot	Q8H1F5	0.0	IDD7_ARATH; Protein indeterminate-domain 7
TrEMBL	R0ISA4	0.0	R0ISA4_9BRAS; Uncharacterized protein (Fragment)
STRING	XP_006307340.1	0.0	(Capsella rubella)

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
AT1G55110.1	0.0	indeterminate(ID)-domain 7

Link Out ? help Back to Top
Phytozome	Carubv10008958m
Entrez Gene	17898688

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]