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

Tp1g12930

Organism

Thellungiella parvula

Taxonomic ID

98039

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 470aa MW: 51324.9 Da PI: 9.1143

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp1g12930	genome	thellungiella	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 Tp1g12930 83 CEVCNKGFQREQNLQLHRRGH 103 *******************88 PP
2	zf-C2H2	13.5	0.00022	157	179	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Tp1g12930 157 WKCEKCSKRYAVQSDWKAHSKTC 179 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	3.34E-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	122	152	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.0E-5	145	178	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.34E-7	152	177	No hit	No description
SMART	SM00355	130	157	177	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
MSSSYNNTIS SSSTPSFLLA GAATGENNFN REETAMTMIQ QPNSVAPPPP PKKRRNQPGN 60 PNPDAEVIAL SPKTIMATNR FLCEVCNKGF QREQNLQLHR RGHNLPWKLK QKSNKEVRRK 120 VYLCPEPTCV HHDPSRALGD LTGIKKHYYR KHGEKKWKCE KCSKRYAVQS DWKAHSKTCG 180 TKEYRCDCGT IFSRRDSYIT HRAFCDALIQ ESARNPPVSF TAMAAATGGG GGRHGFYGGA 240 SSALSHNHFG NNSNTGFTPL AAGYNLNRSS SEKFQDFVPQ STNPNPGPTN FLMHCPSNQG 300 VLAHNDHTLM NQHGLMSLGD NINNNNNNNM FNLGYFQDNT KNSDQTNVPS LFADGADNND 360 PSALLRGLTS SSSSSVVVND FGDNDNGNLQ GLMNSLAATT DHQGRSGSSL FDLHFGNNLS 420 MGSSDRLTLD FLGVNGGIVS NVNGRGGRNP APNLDVDMKF SHPNHPFGKS

Sequence ? help Back to Top

Protein Sequence Length: 470 aa Download sequence Send to blast

MSSSYNNTIS SSSTPSFLLA GAATGENNFN REETAMTMIQ QPNSVAPPPP PKKRRNQPGN  60
PNPDAEVIAL SPKTIMATNR FLCEVCNKGF QREQNLQLHR RGHNLPWKLK QKSNKEVRRK  120
VYLCPEPTCV HHDPSRALGD LTGIKKHYYR KHGEKKWKCE KCSKRYAVQS DWKAHSKTCG  180
TKEYRCDCGT IFSRRDSYIT HRAFCDALIQ ESARNPPVSF TAMAAATGGG GGRHGFYGGA  240
SSALSHNHFG NNSNTGFTPL AAGYNLNRSS SEKFQDFVPQ STNPNPGPTN FLMHCPSNQG  300
VLAHNDHTLM NQHGLMSLGD NINNNNNNNM FNLGYFQDNT KNSDQTNVPS LFADGADNND  360
PSALLRGLTS SSSSSVVVND FGDNDNGNLQ GLMNSLAATT DHQGRSGSSL FDLHFGNNLS  420
MGSSDRLTLD FLGVNGGIVS NVNGRGGRNP APNLDVDMKF SHPNHPFGKS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	9e-34	153	219	3	69	Zinc finger protein JACKDAW
5b3h_F	9e-34	153	219	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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Tp1g12930

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_006416997.1	0.0	protein indeterminate-domain 6, chloroplastic isoform X1
Refseq	XP_024008389.1	0.0	protein indeterminate-domain 6, chloroplastic isoform X1
Swissprot	Q8RWX7	0.0	IDD6_ARATH; Protein indeterminate-domain 6, chloroplastic
TrEMBL	E4MXD6	0.0	E4MXD6_EUTHA; mRNA, clone: RTFL01-38-E19
TrEMBL	V4KCA7	0.0	V4KCA7_EUTSA; Uncharacterized protein
STRING	XP_006416997.1	0.0	(Eutrema salsugineum)

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]