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

Carubv10013401m

Common Name

CARUB_v10013401mg

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: 544aa MW: 60673.5 Da PI: 8.502

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10013401m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.5	2.3e-05	140	162	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Carubv10013401m 140 FVCEICSKGFQRDQNLQLHRRGH 162 89*******************88 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	6.6E-5	139	162	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	5.79E-6	139	162	No hit	No description
PROSITE profile	PS50157	10.887	140	162	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.036	140	162	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	142	162	IPR007087	Zinc finger, C2H2
SMART	SM00355	220	182	212	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	5.79E-6	212	237	No hit	No description
SMART	SM00355	180	217	237	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0016021	Cellular Component	integral component of membrane
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 544 aa Download sequence Send to blast
LGFKYRERER EEEDNRVSLV HHNLFLSPSL LLGFLFCLFR LVMMNKDMLL HQHHHQPQQD 60 ENMSNLTSAS GDQASVSSGN ITEASGSNYF PHHQQQQQQE QFCLPDSQPQ KKRRNQPGNP 120 DPESEVIALS PKTLMATNRF VCEICSKGFQ RDQNLQLHRR GHNLPWKLKQ RSNKEVIRKK 180 VYVCPEATCV HHDPSRALGD LTGIKKHFCR KHGEKKWKCD KCSKKYAVQS DCKAHSKTCG 240 TKEYRCDCGT LFSRRDSFIT HRAFCEALAE ETAREVVLPQ NQNNQQNPLL IHQSSSYPHQ 300 HQTQPNVNVS SSSSSSHNII NSLHFEHANN GTSHGNSSSN HLHTFSMKKE QQNNDHNISY 360 HHSIPPWLAP HPRDLTSSNP NPSNGGGGGL FSLASPAMSA TALLQKAAQM GSTKTPPLPP 420 TTGFERSTHN KNLTTTMAPM MTSPSAFNNN NSQVMFQDYN ASGFDNQGGE EAFDEAFGGF 480 LRTNEATATR SDKSKSGGGE GLTRDFLGLR PLMSHNEILS FAGLGNCINT SASEQLHPKP 540 WQG*

Sequence ? help Back to Top

Protein Sequence Length: 544 aa Download sequence Send to blast

LGFKYRERER EEEDNRVSLV HHNLFLSPSL LLGFLFCLFR LVMMNKDMLL HQHHHQPQQD  60
ENMSNLTSAS GDQASVSSGN ITEASGSNYF PHHQQQQQQE QFCLPDSQPQ KKRRNQPGNP  120
DPESEVIALS PKTLMATNRF VCEICSKGFQ RDQNLQLHRR GHNLPWKLKQ RSNKEVIRKK  180
VYVCPEATCV HHDPSRALGD LTGIKKHFCR KHGEKKWKCD KCSKKYAVQS DCKAHSKTCG  240
TKEYRCDCGT LFSRRDSFIT HRAFCEALAE ETAREVVLPQ NQNNQQNPLL IHQSSSYPHQ  300
HQTQPNVNVS SSSSSSHNII NSLHFEHANN GTSHGNSSSN HLHTFSMKKE QQNNDHNISY  360
HHSIPPWLAP HPRDLTSSNP NPSNGGGGGL FSLASPAMSA TALLQKAAQM GSTKTPPLPP  420
TTGFERSTHN KNLTTTMAPM MTSPSAFNNN NSQVMFQDYN ASGFDNQGGE EAFDEAFGGF  480
LRTNEATATR SDKSKSGGGE GLTRDFLGLR PLMSHNEILS FAGLGNCINT SASEQLHPKP  540
WQG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-32	213	281	3	71	Zinc finger protein JACKDAW
5b3h_F	2e-32	213	281	3	71	Zinc finger protein JACKDAW
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	166	179	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	Carubv10013401m

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.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006296703.2	0.0	protein indeterminate-domain 11 isoform X1
Refseq	XP_023642312.1	0.0	protein indeterminate-domain 11 isoform X1
Refseq	XP_023642313.1	0.0	protein indeterminate-domain 11 isoform X1
Refseq	XP_023642314.1	0.0	protein indeterminate-domain 11 isoform X2
Swissprot	Q9LRW7	0.0	IDD11_ARATH; Protein indeterminate-domain 11
TrEMBL	R0G2R1	0.0	R0G2R1_9BRAS; Uncharacterized protein (Fragment)
STRING	XP_006296703.1	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
AT3G13810.1	0.0	indeterminate(ID)-domain 11

Link Out ? help Back to Top
Phytozome	Carubv10013401m
Entrez Gene	17891851

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]