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_009135328.1

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: 570aa MW: 63929.6 Da PI: 8.8714

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009135328.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.7	2.1e-05	140	162	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H XP_009135328.1 140 FVCEICNKGFQRDQNLQLHKRGH 162 89******************988 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.61E-5	139	162	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.2E-5	139	162	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
Pfam	PF12171	5.0E-5	140	162	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	10.907	140	162	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.017	140	162	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	142	162	IPR007087	Zinc finger, C2H2
SMART	SM00355	250	182	212	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	1.61E-5	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:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 570 aa Download sequence Send to blast
MYMSNLLFCL RVFISICLYV SIYIDLNFFF LFFLLSVLLM MSKDILLHQQ VQQQQQEENM 60 SNLTSASGDQ TSVSSGNRTE ASGSNYFPHH QQQQQQQQQQ QFFVPESQPQ KKRRNQPGNP 120 DPESEVIALS PKTLMARNRF VCEICNKGFQ RDQNLQLHKR GHNLPWKLKQ RSNKEVIRKK 180 VYVCPEASCV HHDPTRALGD LTGIKKHFCR KHGDKKWKCD KCSKKYAVQS DCKAHSKTCG 240 TKEYRCDCGT IFSRRDSFTT HRAFCEALAK ETAREVVIPQ EQNHQPNPIL VHQSTFHHQH 300 HHQAQPNMNF SSSSPSSHNI INTLHFEINN NGTNNSNTSS NHLHTFSVKK EQQQSNDHII 360 NYHHQNIPPW LAPQDLTFSN PNPNNGGGGL FSLAASPAMS ATALLQKAAQ MGSKKTPPLP 420 PTTDFERSAH HNTLTTTMAA MMTSPSGYIS SNNNNQVLFQ GYNASDFDHH GGEEAFDDTF 480 SAFLRTNADT TTAGSDKKKS GGGGGVGEGL TRDFLGIRPL MSHNEILSIA GLGNCISGAA 540 SNQLHPKPWQ GTQVGSTKDR DASRFAWWHV

Sequence ? help Back to Top

Protein Sequence Length: 570 aa Download sequence Send to blast

MYMSNLLFCL RVFISICLYV SIYIDLNFFF LFFLLSVLLM MSKDILLHQQ VQQQQQEENM  60
SNLTSASGDQ TSVSSGNRTE ASGSNYFPHH QQQQQQQQQQ QFFVPESQPQ KKRRNQPGNP  120
DPESEVIALS PKTLMARNRF VCEICNKGFQ RDQNLQLHKR GHNLPWKLKQ RSNKEVIRKK  180
VYVCPEASCV HHDPTRALGD LTGIKKHFCR KHGDKKWKCD KCSKKYAVQS DCKAHSKTCG  240
TKEYRCDCGT IFSRRDSFTT HRAFCEALAK ETAREVVIPQ EQNHQPNPIL VHQSTFHHQH  300
HHQAQPNMNF SSSSPSSHNI INTLHFEINN NGTNNSNTSS NHLHTFSVKK EQQQSNDHII  360
NYHHQNIPPW LAPQDLTFSN PNPNNGGGGL FSLAASPAMS ATALLQKAAQ MGSKKTPPLP  420
PTTDFERSAH HNTLTTTMAA MMTSPSGYIS SNNNNQVLFQ GYNASDFDHH GGEEAFDDTF  480
SAFLRTNADT TTAGSDKKKS GGGGGVGEGL TRDFLGIRPL MSHNEILSIA GLGNCISGAA  540
SNQLHPKPWQ GTQVGSTKDR DASRFAWWHV

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-29	213	274	3	64	Zinc finger protein JACKDAW
5b3h_F	1e-29	213	274	3	64	Zinc finger protein JACKDAW
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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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009135328.1

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]