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

Ciclev10026051m

Common Name

CICLE_v10026051mg

Organism

Citrus clementina

Taxonomic ID

85681

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus

Family

C2H2

Protein Properties

Length: 332aa MW: 37150.8 Da PI: 5.9525

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Ciclev10026051m	genome	ICGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	22.4	3.3e-07	127	148	2	23
EETTTTEEESSHHHHHHHHHHT CS zf-C2H2 2 kCpdCgksFsrksnLkrHirtH 23 C +Cgk F+r nL+ H+r H Ciclev10026051m 127 FCDICGKGFKRDANLRMHMRAH 148 6*******************99 PP
2	zf-C2H2	12.1	0.0006	211	234	1	23
EEETTTT.EEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCg.ksFsrksnLkrHirtH 23 y+C +C+ ksFs s+L++H +++ Ciclev10026051m 211 YSCDKCHkKSFSVVSDLRSHYKNC 234 99*******************997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	2.02E-6	123	149	No hit	No description
PROSITE profile	PS50157	12.217	126	153	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0017	126	148	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	128	148	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	2.4E-6	128	151	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	34	173	206	IPR015880	Zinc finger, C2H2-like
SMART	SM00355	66	211	232	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: 332 aa Download sequence Send to blast
MSNPDESRPI RPEYPVQYTD PRIPLTNLSA VRTRMESLQQ FLLESINSNA LISQHQMNMV 60 SSEIASAIHQ VIVNGSALLA CSPQQPTLQQ LPPDPKNPET GSEHDIESDC EIVEIDAVEL 120 LAEHIHFCDI CGKGFKRDAN LRMHMRAHGD EFKTPQALAK PEKGSVSGRK TRFSCPYDGC 180 NRNKKHKKFR ALKSVICVKN HFKRSHCPKM YSCDKCHKKS FSVVSDLRSH YKNCGESRWK 240 CSCGTSFSRK DKLFGHVALF EGHMPEVEVD EKMKHHDQDV VVVGDDDDDD EMVDDIDDDG 300 LSSFEGLLGL DGFGSFDDFC LQDVLGDGGF S*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in roots (e.g. root tips and lateral roots), leaves, flowers (e.g. stigma, sepal, anther, and filament), stems, siliques and cotyledons. {ECO:0000269\|PubMed:23935008}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. Together with STOP2, plays a critical role in tolerance to major stress factors in acid soils such as proton H(+) and aluminum ion Al(3+). Required for the expression of genes in response to acidic stress (e.g. ALMT1 and MATE), and Al-activated citrate exudation. {ECO:0000269\|PubMed:17535918, ECO:0000269\|PubMed:18826429, ECO:0000269\|PubMed:19321711, ECO:0000269\|PubMed:23935008}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By shock H(+) and Al(3+) treatments. {ECO:0000269\|PubMed:17535918}.

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006428216.1	0.0	zinc finger protein STOP1 homolog
Refseq	XP_006464195.1	0.0	zinc finger protein STOP1 homolog
Swissprot	Q9C8N5	3e-75	STOP1_ARATH; Protein SENSITIVE TO PROTON RHIZOTOXICITY 1
TrEMBL	V4SW99	0.0	V4SW99_9ROSI; Uncharacterized protein
STRING	XP_006464195.1	0.0	(Citrus sinensis)
STRING	XP_006428216.1	0.0	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM16077	8	13

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G34370.3	6e-77	C2H2 family protein

Link Out ? help Back to Top
Phytozome	Ciclev10026051m
Entrez Gene	18037811

Publications ? help Back to Top
Kobayashi Y, et al. Molecular and physiological analysis of Al³⁺ and H⁺ rhizotoxicities at moderately acidic conditions. Plant Physiol., 2013. 163(1): p. 180-92 [PMID:23839867] Yokosho K,Yamaji N,Ma JF Global transcriptome analysis of Al-induced genes in an Al-accumulating species, common buckwheat (Fagopyrum esculentum Moench). Plant Cell Physiol., 2014. 55(12): p. 2077-91 [PMID:25273892] Geng X, et al. LEUNIG_HOMOLOG transcriptional co-repressor mediates aluminium sensitivity through PECTIN METHYLESTERASE46-modulated root cell wall pectin methylesterification in Arabidopsis. Plant J., 2017. 90(3): p. 491-504 [PMID:28181322] Balzergue C, et al. Low phosphate activates STOP1-ALMT1 to rapidly inhibit root cell elongation. Nat Commun, 2017. 8: p. 15300 [PMID:28504266] Pelagio-Flores R,Esparza-Reynoso S,Garnica-Vergara A,López-Bucio J,Herrera-Estrella A Trichoderma-Induced Acidification Is an Early Trigger for Changes in Arabidopsis Root Growth and Determines Fungal Phytostimulation. Front Plant Sci, 2017. 8: p. 822 [PMID:28567051] Jiang F, et al. Identification and characterization of suppressor mutants of stop1. BMC Plant Biol., 2017. 17(1): p. 128 [PMID:28738784] Daspute AA, et al. Transcriptional Regulation of Aluminum-Tolerance Genes in Higher Plants: Clarifying the Underlying Molecular Mechanisms. Front Plant Sci, 2017. 8: p. 1358 [PMID:28848571] Sharma A,Wai CM,Ming R,Yu Q Diurnal Cycling Transcription Factors of Pineapple Revealed by Genome-Wide Annotation and Global Transcriptomic Analysis. Genome Biol Evol, 2017. 9(9): p. 2170-2190 [PMID:28922793] Zhang Y, et al. The Cell Cycle Checkpoint Regulator ATR Is Required for Internal Aluminum Toxicity-Mediated Root Growth Inhibition in Arabidopsis. Front Plant Sci, 2018. 9: p. 118 [PMID:29491872]