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_009149300.1

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: 367aa MW: 40140.4 Da PI: 8.5462

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009149300.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	19.2	3.3e-06	78	100	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C k F r+ nL+ H r H XP_009149300.1 78 FQCEVCEKGFQRQQNLQLHRRGH 100 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	3.6E-6	77	100	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.84E-7	77	100	No hit	No description
PROSITE profile	PS50157	11.157	78	100	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0054	78	100	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	80	100	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	119	149	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	7.6E-4	142	175	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.84E-7	149	174	No hit	No description
SMART	SM00355	140	154	174	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: 367 aa Download sequence Send to blast
MSSSYNNTIS SSSTQSFPLL AIGANNFNRE ETAMTMNQQR PNSVSPPPRR LRNKPGNPSP 60 DAEVIALTPE EIMATNRFQC EVCEKGFQRQ QNLQLHRRGH NLPFNLKQKS DEEIRRKVYV 120 CPEPTCVYHD PSRALGDLTG IKKHYCRKHG EKKFKCEKCD KFYAVESDCK AHSKICGTKE 180 YRCVCGTKFS RSDSYETHRA FCEALAQESA GNPNLSFTEM LAAAGGSDGS SRDGLHGGAS 240 SALSHNHFGD NSNSGFAPPG AGFNLNRSSS PKFEDFFPQS TNPNHGPTTN FPMQYPSNQG 300 LLARNDQNLM NQHGLINNNN VPSAQLRGSS VAANNFGGSG NVNFQGQMNS LAATSGQQGR 360 PGSSIFD

Sequence ? help Back to Top

Protein Sequence Length: 367 aa Download sequence Send to blast

MSSSYNNTIS SSSTQSFPLL AIGANNFNRE ETAMTMNQQR PNSVSPPPRR LRNKPGNPSP  60
DAEVIALTPE EIMATNRFQC EVCEKGFQRQ QNLQLHRRGH NLPFNLKQKS DEEIRRKVYV  120
CPEPTCVYHD PSRALGDLTG IKKHYCRKHG EKKFKCEKCD KFYAVESDCK AHSKICGTKE  180
YRCVCGTKFS RSDSYETHRA FCEALAQESA GNPNLSFTEM LAAAGGSDGS SRDGLHGGAS  240
SALSHNHFGD NSNSGFAPPG AGFNLNRSSS PKFEDFFPQS TNPNHGPTTN FPMQYPSNQG  300
LLARNDQNLM NQHGLINNNN VPSAQLRGSS VAANNFGGSG NVNFQGQMNS LAATSGQQGR  360
PGSSIFD

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-24	150	216	3	69	Zinc finger protein JACKDAW
5b3h_F	3e-24	150	216	3	69	Zinc finger protein JACKDAW
Search in ModeBase

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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009149300.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC189499	0.0	AC189499.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB086M23, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_022543883.1	0.0	protein indeterminate-domain 6, chloroplastic-like
Swissprot	Q8RWX7	1e-166	IDD6_ARATH; Protein indeterminate-domain 6, chloroplastic
TrEMBL	A0A078I5T2	0.0	A0A078I5T2_BRANA; BnaA06g09410D protein
TrEMBL	A0A3P5YQ19	0.0	A0A3P5YQ19_BRACM; Uncharacterized protein
STRING	Bra026203.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3678	17	59

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G14580.2	1e-149	C2H2-like zinc finger protein

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755] Bustillo-Avendaño E, et al. Regulation of Hormonal Control, Cell Reprogramming, and Patterning during De Novo Root Organogenesis. Plant Physiol., 2018. 176(2): p. 1709-1727 [PMID:29233938]