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_009117428.1

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: 518aa MW: 57134 Da PI: 8.051

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009117428.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.2	1.5e-05	96	118	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H XP_009117428.1 96 FVCEICNKGFQRDQNLQLHRRGH 118 89*******************88 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	3.54E-6	95	118	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.7E-5	95	118	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.017	96	118	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.949	96	118	IPR007087	Zinc finger, C2H2
Pfam	PF12171	8.3E-5	96	118	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	98	118	IPR007087	Zinc finger, C2H2
SMART	SM00355	240	138	168	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	3.54E-6	168	193	No hit	No description
SMART	SM00355	180	173	193	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: 518 aa Download sequence Send to blast
MMNEDILHHQ QVQQQEENMS NLTSASGDQA SVSSGNRTEV SGSNYFPHHQ QQEEQQQFSV 60 PESQPQKKRR NQPGNPDPES EVIALSPKTL MATNRFVCEI CNKGFQRDQN LQLHRRGHNL 120 PWKLKQRSNK EVIRKKVYVC PEASCVHHDP SRALGDLTGI KKHFCRKHGE KKWKCDKCSK 180 KYAVQSDCKA HSKTCGTKEY RCDCGTLFSR RDSFITHRAF CEALAEETAR EVVIPQNQNH 240 QPNPLMIQQS SSSSHHQARP TLNISSSSSS SHNITNSLYV ETNHNGTNNS NTSSNHLHTF 300 PMKIEQQQSN DQIINYHHHS IPPWLAPQPQ DLTSSNPNPS NGGGGGLFSL AASPAMSATA 360 LLQKAAQMGS TKTPPLPPTT VSERSAHHNN LTTTMAAMMT SPSGFISSNN NNNNQVLFQD 420 YNASEFDHNG GEEAFDDTFG GFLRTNVDTT TTSGSDKNKS GGGGGEEGLT RDFLGLRPLI 480 SHNEILSFAG LGNCISGSAS DQLHPKPWQG TQVGSNKR

Sequence ? help Back to Top

Protein Sequence Length: 518 aa Download sequence Send to blast

MMNEDILHHQ QVQQQEENMS NLTSASGDQA SVSSGNRTEV SGSNYFPHHQ QQEEQQQFSV  60
PESQPQKKRR NQPGNPDPES EVIALSPKTL MATNRFVCEI CNKGFQRDQN LQLHRRGHNL  120
PWKLKQRSNK EVIRKKVYVC PEASCVHHDP SRALGDLTGI KKHFCRKHGE KKWKCDKCSK  180
KYAVQSDCKA HSKTCGTKEY RCDCGTLFSR RDSFITHRAF CEALAEETAR EVVIPQNQNH  240
QPNPLMIQQS SSSSHHQARP TLNISSSSSS SHNITNSLYV ETNHNGTNNS NTSSNHLHTF  300
PMKIEQQQSN DQIINYHHHS IPPWLAPQPQ DLTSSNPNPS NGGGGGLFSL AASPAMSATA  360
LLQKAAQMGS TKTPPLPPTT VSERSAHHNN LTTTMAAMMT SPSGFISSNN NNNNQVLFQD  420
YNASEFDHNG GEEAFDDTFG GFLRTNVDTT TTSGSDKNKS GGGGGEEGLT RDFLGLRPLI  480
SHNEILSFAG LGNCISGSAS DQLHPKPWQG TQVGSNKR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	5e-31	169	237	3	71	Zinc finger protein JACKDAW
5b3h_F	5e-31	169	237	3	71	Zinc finger protein JACKDAW
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	122	135	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	XP_009117428.1

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_009117428.1	0.0	PREDICTED: protein indeterminate-domain 11-like isoform X1
Refseq	XP_009117435.1	0.0	PREDICTED: protein indeterminate-domain 11-like isoform X1
Refseq	XP_018510365.1	0.0	PREDICTED: protein indeterminate-domain 11-like isoform X1
Swissprot	Q9LRW7	0.0	IDD11_ARATH; Protein indeterminate-domain 11
TrEMBL	A0A398AUT1	0.0	A0A398AUT1_BRACM; Uncharacterized protein
STRING	Bra021510.1-P	0.0	(Brassica rapa)

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

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]