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

XP_009135332.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 531aa MW: 59211.7 Da PI: 9.0543

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009135332.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.8	1.9e-05	101	123	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H XP_009135332.1 101 FVCEICNKGFQRDQNLQLHKRGH 123 89******************988 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.28E-5	100	123	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.1E-5	100	123	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.907	101	123	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.017	101	123	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	4.6E-5	101	123	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	103	123	IPR007087	Zinc finger, C2H2
SMART	SM00355	250	143	173	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	1.28E-5	173	198	No hit	No description
SMART	SM00355	180	178	198	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: 531 aa Download sequence Send to blast
MMSKDILLHQ QVQQQQQEEN MSNLTSASGD QTSVSSGNRT EASGSNYFPH HQQQQQQQQQ 60 QQFFVPESQP QKKRRNQPGN PDPESEVIAL SPKTLMARNR FVCEICNKGF QRDQNLQLHK 120 RGHNLPWKLK QRSNKEVIRK KVYVCPEASC VHHDPTRALG DLTGIKKHFC RKHGDKKWKC 180 DKCSKKYAVQ SDCKAHSKTC GTKEYRCDCG TIFSRRDSFT THRAFCEALA KETAREVVIP 240 QEQNHQPNPI LVHQSTFHHQ HHHQAQPNMN FSSSSPSSHN IINTLHFEIN NNGTNNSNTS 300 SNHLHTFSVK KEQQQSNDHI INYHHQNIPP WLAPQDLTFS NPNPNNGGGG LFSLAASPAM 360 SATALLQKAA QMGSKKTPPL PPTTDFERSA HHNTLTTTMA AMMTSPSGYI SSNNNNQVLF 420 QGYNASDFDH HGGEEAFDDT FSAFLRTNAD TTTAGSDKKK SGGGGGVGEG LTRDFLGIRP 480 LMSHNEILSI AGLGNCISGA ASNQLHPKPW QGTQVGSTKD RDASRFAWWH V

Sequence ? help Back to Top

Protein Sequence Length: 531 aa Download sequence Send to blast

MMSKDILLHQ QVQQQQQEEN MSNLTSASGD QTSVSSGNRT EASGSNYFPH HQQQQQQQQQ  60
QQFFVPESQP QKKRRNQPGN PDPESEVIAL SPKTLMARNR FVCEICNKGF QRDQNLQLHK  120
RGHNLPWKLK QRSNKEVIRK KVYVCPEASC VHHDPTRALG DLTGIKKHFC RKHGDKKWKC  180
DKCSKKYAVQ SDCKAHSKTC GTKEYRCDCG TIFSRRDSFT THRAFCEALA KETAREVVIP  240
QEQNHQPNPI LVHQSTFHHQ HHHQAQPNMN FSSSSPSSHN IINTLHFEIN NNGTNNSNTS  300
SNHLHTFSVK KEQQQSNDHI INYHHQNIPP WLAPQDLTFS NPNPNNGGGG LFSLAASPAM  360
SATALLQKAA QMGSKKTPPL PPTTDFERSA HHNTLTTTMA AMMTSPSGYI SSNNNNQVLF  420
QGYNASDFDH HGGEEAFDDT FSAFLRTNAD TTTAGSDKKK SGGGGGVGEG LTRDFLGIRP  480
LMSHNEILSI AGLGNCISGA ASNQLHPKPW QGTQVGSTKD RDASRFAWWH V

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-29	174	235	3	64	Zinc finger protein JACKDAW
5b3h_F	3e-29	174	235	3	64	Zinc finger protein JACKDAW
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	127	140	KLKQRSNKEVIRKK

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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009135332.1

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_009135327.1	0.0	PREDICTED: protein indeterminate-domain 11-like isoform X1
Refseq	XP_009135328.1	0.0	PREDICTED: protein indeterminate-domain 11-like isoform X1
Refseq	XP_009135329.1	0.0	PREDICTED: protein indeterminate-domain 11-like isoform X1
Swissprot	Q9LRW7	0.0	IDD11_ARATH; Protein indeterminate-domain 11
TrEMBL	M4CBE3	0.0	M4CBE3_BRARP; Uncharacterized protein
STRING	Bra001523.1-P	0.0	(Brassica rapa)

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]