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

Gh_A06G0089

Organism

Gossypium hirsutum

Taxonomic ID

3635

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

C2H2

Protein Properties

Length: 389aa MW: 41310.8 Da PI: 9.4835

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_A06G0089	genome	NAU-NBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.6	1.1e-05	56	78	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C++C+k F r nL+ H r H Gh_A06G0089 56 FICEICNKGFQREQNLQLHRRGH 78 89*******************88 PP
2	zf-C2H2	15	7.3e-05	134	156	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k++ ks+ + Hi+++ Gh_A06G0089 134 WRCERCSKTYAVKSDWTAHIKSC 156 58*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	3.09E-6	55	78	No hit	No description
Gene3D	G3DSA:3.30.160.60	6.3E-6	55	78	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
Pfam	PF12171	1.5E-5	56	78	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.0044	56	78	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.97	56	78	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	58	78	IPR007087	Zinc finger, C2H2
SMART	SM00355	200	99	129	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	3.09E-6	129	154	No hit	No description
SMART	SM00355	120	134	154	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: 389 aa Download sequence Send to blast
MAKLENSSSM AVSLIQAFQQ TDGVQSKKKR NLPGMPDPEA EVISLSPKSL LATNRFICEI 60 CNKGFQREQN LQLHRRGHNL PWKLRQRTDG NETRKKRVYV CPETSCVHHN PARALGDLTG 120 IKKHYCRKHC EKKWRCERCS KTYAVKSDWT AHIKSCGTKE YKCNCGTVFS RRDSFYTHRT 180 FCDALAEENA RAQAATSSPP PLTPSTTTMV SPGLSTQSSE MLGIPMGLSP PDPPPPTTSI 240 SASNGDVLVT IFASTPPLEA TSLSLSSPLY LSNNSFSSIF TAPSLQPAMS ATALLQKASQ 300 MGAAATSSPS LLRGLSFAVP SSSSTTPSTG HKPTSTLDLL GLGICGGGGG GRGGTSNGLS 360 ALFTQFGGGF NGEPGATTSY GAPNSSALL

Sequence ? help Back to Top

Protein Sequence Length: 389 aa Download sequence Send to blast

MAKLENSSSM AVSLIQAFQQ TDGVQSKKKR NLPGMPDPEA EVISLSPKSL LATNRFICEI  60
CNKGFQREQN LQLHRRGHNL PWKLRQRTDG NETRKKRVYV CPETSCVHHN PARALGDLTG  120
IKKHYCRKHC EKKWRCERCS KTYAVKSDWT AHIKSCGTKE YKCNCGTVFS RRDSFYTHRT  180
FCDALAEENA RAQAATSSPP PLTPSTTTMV SPGLSTQSSE MLGIPMGLSP PDPPPPTTSI  240
SASNGDVLVT IFASTPPLEA TSLSLSSPLY LSNNSFSSIF TAPSLQPAMS ATALLQKASQ  300
MGAAATSSPS LLRGLSFAVP SSSSTTPSTG HKPTSTLDLL GLGICGGGGG GRGGTSNGLS  360
ALFTQFGGGF NGEPGATTSY GAPNSSALL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-29	131	191	4	64	Zinc finger protein JACKDAW
5b3h_F	2e-29	131	191	4	64	Zinc finger protein JACKDAW
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	82	95	KLRQRTDGNETRKK

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}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	HQ524416	8e-32	HQ524416.1 Gossypium herbaceum clone NBRI_F016 simple sequence repeat marker, genomic sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016727631.1	0.0	PREDICTED: protein indeterminate-domain 2-like
Swissprot	Q9SCQ6	1e-120	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A1U8MLB9	0.0	A0A1U8MLB9_GOSHI; protein indeterminate-domain 2-like
STRING	Gorai.010G011200.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM155	28	306

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G50700.1	2e-99	indeterminate(ID)-domain 2

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]