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

orange1.1g010444m

Common Name

CISIN_1g010444mg

Organism

Citrus sinensis

Taxonomic ID

2711

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: 511aa MW: 55205.7 Da PI: 8.8721

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
orange1.1g010444m	genome	ICGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.2	1.4e-05	6	28	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H orange1.1g010444m 6 FVCEICNKGFQRDQNLQLHRRGH 28 89*******************88 PP
2	zf-C2H2	15.6	4.6e-05	82	104	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H++t+ orange1.1g010444m 82 WKCDKCSKKYAVQSDWKAHQKTC 104 58*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	4.96E-8	5	28	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.7E-5	5	28	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.017	6	28	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.949	6	28	IPR007087	Zinc finger, C2H2
Pfam	PF12171	8.2E-5	6	28	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	8	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	100	47	77	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	5.9E-5	70	103	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	4.96E-8	77	103	No hit	No description
SMART	SM00355	94	82	102	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: 511 aa Download sequence Send to blast
MATNRFVCEI CNKGFQRDQN LQLHRRGHNL PWKLRQRTTT EVRKRVYICP EPSCVHHNPA 60 RALGDLTGIK KHFSRKHGEK KWKCDKCSKK YAVQSDWKAH QKTCGTREYK CDCGTIFSRR 120 DSFITHRAFC DALAEENNKV NQGLMDNLGQ NMQSQMPELM SSMPLNTGGN NTSLGMSEFN 180 NFDPKNPMKS LPQDLVPMPF KSVNMGGGGG GGGGGGGMFS SSSGTLFGGP RSISSSSSSL 240 QLSSNSSSGF NYLQDSKNGC LISGTAHMSA TALLQKAAQM GATASSGINS PMMQKSFTNS 300 MAGPDQQLSS TNKTPAYGSI QKQHNASYDQ QHFPSQAAHE QQSNMMMQKA TQDMSQLFDQ 360 HTGAASTGGM NNDMGIMFTG MYMSSGGGDH QGAAGLGFTK NMENEDSSGS SSLIQAGRNA 420 MERNSTTGPS RFGGSNVTGG GGGGGDMMTL DFMGIGGTRP ANLHEQQQQR MELEAMSHHQ 480 RVPMMTPFHQ QQLPHSHGDS VLEKPTLWDA *

Sequence ? help Back to Top

Protein Sequence Length: 511 aa Download sequence Send to blast

MATNRFVCEI CNKGFQRDQN LQLHRRGHNL PWKLRQRTTT EVRKRVYICP EPSCVHHNPA  60
RALGDLTGIK KHFSRKHGEK KWKCDKCSKK YAVQSDWKAH QKTCGTREYK CDCGTIFSRR  120
DSFITHRAFC DALAEENNKV NQGLMDNLGQ NMQSQMPELM SSMPLNTGGN NTSLGMSEFN  180
NFDPKNPMKS LPQDLVPMPF KSVNMGGGGG GGGGGGGMFS SSSGTLFGGP RSISSSSSSL  240
QLSSNSSSGF NYLQDSKNGC LISGTAHMSA TALLQKAAQM GATASSGINS PMMQKSFTNS  300
MAGPDQQLSS TNKTPAYGSI QKQHNASYDQ QHFPSQAAHE QQSNMMMQKA TQDMSQLFDQ  360
HTGAASTGGM NNDMGIMFTG MYMSSGGGDH QGAAGLGFTK NMENEDSSGS SSLIQAGRNA  420
MERNSTTGPS RFGGSNVTGG GGGGGDMMTL DFMGIGGTRP ANLHEQQQQR MELEAMSHHQ  480
RVPMMTPFHQ QQLPHSHGDS VLEKPTLWDA *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-34	78	136	3	61	Zinc finger protein JACKDAW
5b3h_F	3e-34	78	136	3	61	Zinc finger protein JACKDAW
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Observed in vegetative tissues. Mainly expressed in hypocotyls, petioles, shoot apices, root tips, and trichomes, and, at low levels, in leaves, stems and flowers. {ECO:0000269\|PubMed:25035403}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that acts as a positive regulator of gibberellin (GA) action, homeostasis and signaling. GA converts the GAF1 complex from transcriptional activator to repressor via the degradation of DELLA proteins. {ECO:0000269\|PubMed:25035403}.

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	AM429706	4e-34	AM429706.1 Vitis vinifera contig VV78X144965.37, whole genome shotgun sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006480107.1	0.0	protein indeterminate-domain 2-like
Swissprot	Q9SCQ6	2e-96	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A067HHA2	0.0	A0A067HHA2_CITSI; Uncharacterized protein
STRING	XP_006480107.1	0.0	(Citrus sinensis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM15443	8	18

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03840.2	4e-83	C2H2 family protein

Link Out ? help Back to Top
Phytozome	orange1.1g010444m

Publications ? help Back to Top
Fukazawa J, et al. DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis. Plant Cell, 2014. 26(7): p. 2920-38 [PMID:25035403] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755] Khare D, et al. Root avoidance of toxic metals requires the GeBP-LIKE 4 transcription factor in Arabidopsis thaliana. New Phytol., 2017. 213(3): p. 1257-1273 [PMID:27768815]