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

Araha.26365s0002.1.p

Organism

Arabidopsis halleri

Taxonomic ID

81970

Taxonomic Lineage

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

Family

C3H

Protein Properties

Length: 551aa MW: 60670.6 Da PI: 7.943

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Araha.26365s0002.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	24.8	3.7e-08	229	249	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 +C+ f++ G C+ Gd+C +aHg Araha.26365s0002.1.p 229 PCPEFRK-GSCPKGDSCEYAHG 249 8****.***********9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF48403	1.37E-12	17	126	IPR020683	Ankyrin repeat-containing domain
SMART	SM00248	0.0056	45	75	IPR002110	Ankyrin repeat
PROSITE profile	PS50297	15.114	45	154	IPR020683	Ankyrin repeat-containing domain
Pfam	PF13637	5.4E-6	46	98	No hit	No description
Gene3D	G3DSA:1.25.40.20	6.6E-14	46	147	IPR020683	Ankyrin repeat-containing domain
CDD	cd00204	2.76E-13	47	143	No hit	No description
SMART	SM00248	4.2	80	112	IPR002110	Ankyrin repeat
SMART	SM00356	6.3E-5	224	250	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.976	224	251	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.5E-5	229	249	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	9.2E-6	229	250	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	5.8E-4	256	288	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	6.812	259	283	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	43	259	282	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010200	Biological Process	response to chitin
GO:0005515	Molecular Function	protein binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 551 aa Download sequence Send to blast
MVLLEFAACD DLESFKRDVE EKGLDLDEPG LWYCRRVGSK KMGFEERTPL MVAAMYGSIK 60 VLTFIISTGK SDVNRACGEE RVTALHCAVA GCSVNMIEVI TVLLDASALV NSVDANGNQP 120 LDVFVRVSRF VASPRRKAVE LLLRGGGVSG LIDEAVEEEI KIVSKYPADA SLPDINEGVY 180 GSDEFRMYSF KVKPCSRAYS HDWTECAFVH PGENARRRDP RKYPYTCVPC PEFRKGSCPK 240 GDSCEYAHGV FESWLHPAQY KTRLCKDETG CARKVCFFAH KREEMRPVNA STGSAVAQSP 300 FSSLEMMPGL SPLAYSSGVS TPPVSPMANG VPSSPRNGGS WQNRVNTLTP PALQLNGGSR 360 LKSTLSARDI DMEMELRLRG FGNNVEETFG SFVSSPSRNS QMGQNMNQHY PSSPVRQPPS 420 HHGFESSAAA AVAVMKARSS AFAKRSLSFK PATQAAPQSN LSDWGSPNAK LEWGMKGEEL 480 NKMRRSVSFG IHGNNNNNAA RDYRDEPDVS WVNSLVKDSV VSERSFGMNE RVRIMSWAEQ 540 MYREKEQTVA *

Sequence ? help Back to Top

Protein Sequence Length: 551 aa Download sequence Send to blast

MVLLEFAACD DLESFKRDVE EKGLDLDEPG LWYCRRVGSK KMGFEERTPL MVAAMYGSIK  60
VLTFIISTGK SDVNRACGEE RVTALHCAVA GCSVNMIEVI TVLLDASALV NSVDANGNQP  120
LDVFVRVSRF VASPRRKAVE LLLRGGGVSG LIDEAVEEEI KIVSKYPADA SLPDINEGVY  180
GSDEFRMYSF KVKPCSRAYS HDWTECAFVH PGENARRRDP RKYPYTCVPC PEFRKGSCPK  240
GDSCEYAHGV FESWLHPAQY KTRLCKDETG CARKVCFFAH KREEMRPVNA STGSAVAQSP  300
FSSLEMMPGL SPLAYSSGVS TPPVSPMANG VPSSPRNGGS WQNRVNTLTP PALQLNGGSR  360
LKSTLSARDI DMEMELRLRG FGNNVEETFG SFVSSPSRNS QMGQNMNQHY PSSPVRQPPS  420
HHGFESSAAA AVAVMKARSS AFAKRSLSFK PATQAAPQSN LSDWGSPNAK LEWGMKGEEL  480
NKMRRSVSFG IHGNNNNNAA RDYRDEPDVS WVNSLVKDSV VSERSFGMNE RVRIMSWAEQ  540
MYREKEQTVA *

Functional Description ? help Back to Top
Source	Description
UniProt	Involved in salt stress response. May positively modulate plant tolerance to salt stress. {ECO:0000269\|PubMed:17609218}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Araha.26365s0002.1.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By salt stress. {ECO:0000269\|PubMed:17609218}.

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	AK226861	0.0	AK226861.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL08-18-O11.
GenBank	AL163832	0.0	AL163832.1 Arabidopsis thaliana DNA chromosome 3, BAC clone F27K19.
GenBank	AY056282	0.0	AY056282.1 Arabidopsis thaliana unknown protein (At3g55980) mRNA, complete cds.
GenBank	BT008625	0.0	BT008625.1 Arabidopsis thaliana clone RAFL09-89-N11 (R19914) unknown protein (At3g55980) mRNA, complete cds.
GenBank	CP002686	0.0	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_020880437.1	0.0	zinc finger CCCH domain-containing protein 47
Swissprot	Q93ZS9	0.0	C3H47_ARATH; Zinc finger CCCH domain-containing protein 47
TrEMBL	D7LVA7	0.0	D7LVA7_ARALL; Zinc finger (CCCH-type) family protein (Fragment)
STRING	fgenesh2_kg.5__2030__AT3G55980.1	0.0	(Arabidopsis lyrata)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM877	26	107

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G55980.1	0.0	salt-inducible zinc finger 1

Link Out ? help Back to Top
Phytozome	Araha.26365s0002.1.p

Publications ? help Back to Top
LeBlanc M,Kim G,Patel B,Stromberg V,Westwood J Quantification of tomato and Arabidopsis mobile RNAs trafficking into the parasitic plant Cuscuta pentagona. New Phytol., 2013. 200(4): p. 1225-33 [PMID:23914903] Liang Y,Gao Y,Jones AM Extra Large G-Protein Interactome Reveals Multiple Stress Response Function and Partner-Dependent XLG Subcellular Localization. Front Plant Sci, 2017. 8: p. 1015 [PMID:28659958]