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

RrC585_p5

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 470aa MW: 51292.9 Da PI: 9.3728

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC585_p5	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	14.4	0.00011	83	103	3	23
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C+ C+k F r nL+ H r H RrC585_p5 83 CEVCNKGFQREQNLQLHRRGH 103 *******************88 PP
2	zf-C2H2	14.2	0.00013	158	180	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ RrC585_p5 158 FKCEKCSKRYAVQSDWKAHSKTC 180 89*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.18E-7	80	103	No hit	No description
Gene3D	G3DSA:3.30.160.60	8.8E-6	80	103	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.97	81	103	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.025	81	103	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	83	103	IPR007087	Zinc finger, C2H2
SMART	SM00355	110	123	153	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	9.8E-6	146	179	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.18E-7	153	178	No hit	No description
SMART	SM00355	88	158	178	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: 470 aa Download sequence Send to blast
MSSSYNNSIS SSSTQSFLLA SAATGANNFN REETAMTMIQ QPNSVAPLPP PKKRRNQPGN 60 PNPDAEVIAL SPKTIMATNR FLCEVCNKGF QREQNLQLHR RGHNLPWKLK QKSKQEVIRR 120 KVYLCPEPTC VHHDPSRALG DLTGIKKHYY RKHGEKKFKC EKCSKRYAVQ SDWKAHSKTC 180 GTKEYRCDCG TIFSRRDSYI THRAFCDALI QESARNPTVS FTAMAAAAGG SGSRPGFYGS 240 AASALSHNHF GNNSSTSFTP LAAGYNLNRS STEKFEAFVS QSTNPNPGPT NFLMQCPPNQ 300 GLMAQNDQTL MNQHGLISLG DNINNNNNNN SLFNLGYFQE NTKNSDHTSV PSLFTNADNN 360 DPSALFRGLT SSSSSSVVVN DFGDSDNGNL QGLMNSLAAT TDQQGRPSSN LFDLHFGNNL 420 SMGGSDRLTL DFLGVSGGNV SSVNGRGGRS GAPLDVDMKF SRPNNPFEKS

Sequence ? help Back to Top

Protein Sequence Length: 470 aa Download sequence Send to blast

MSSSYNNSIS SSSTQSFLLA SAATGANNFN REETAMTMIQ QPNSVAPLPP PKKRRNQPGN  60
PNPDAEVIAL SPKTIMATNR FLCEVCNKGF QREQNLQLHR RGHNLPWKLK QKSKQEVIRR  120
KVYLCPEPTC VHHDPSRALG DLTGIKKHYY RKHGEKKFKC EKCSKRYAVQ SDWKAHSKTC  180
GTKEYRCDCG TIFSRRDSYI THRAFCDALI QESARNPTVS FTAMAAAAGG SGSRPGFYGS  240
AASALSHNHF GNNSSTSFTP LAAGYNLNRS STEKFEAFVS QSTNPNPGPT NFLMQCPPNQ  300
GLMAQNDQTL MNQHGLISLG DNINNNNNNN SLFNLGYFQE NTKNSDHTSV PSLFTNADNN  360
DPSALFRGLT SSSSSSVVVN DFGDSDNGNL QGLMNSLAAT TDQQGRPSSN LFDLHFGNNL  420
SMGGSDRLTL DFLGVSGGNV SSVNGRGGRS GAPLDVDMKF SRPNNPFEKS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	8e-34	154	220	3	69	Zinc finger protein JACKDAW
5b3h_F	8e-34	154	220	3	69	Zinc finger protein JACKDAW
Search in ModeBase

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
MP00142	DAP	Transfer from AT1G14580	Download

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	AK353183	0.0	AK353183.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-38-E19.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018451217.1	0.0	PREDICTED: protein indeterminate-domain 6, chloroplastic-like
Refseq	XP_018451219.1	0.0	PREDICTED: protein indeterminate-domain 6, chloroplastic-like
Swissprot	Q8RWX7	0.0	IDD6_ARATH; Protein indeterminate-domain 6, chloroplastic
TrEMBL	A0A397YMC5	0.0	A0A397YMC5_BRACM; Uncharacterized protein
STRING	Bra016694.1-P	0.0	(Brassica rapa)
STRING	Bo8g066120.1	0.0	(Brassica oleracea)

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	0.0	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]