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_D12G0089

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: 497aa MW: 54175.6 Da PI: 8.1824

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_D12G0089	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	16.3	2.7e-05	80	102	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Gh_D12G0089 80 FVCEICKKGFQRDQNLQLHRRGH 102 89*******************88 PP
2	zf-C2H2	15.6	4.5e-05	156	178	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H++t+ Gh_D12G0089 156 WKCDKCSKKYAVQSDWKAHQKTC 178 58*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.23E-7	79	102	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.3E-4	79	102	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.039	80	102	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.637	80	102	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	82	102	IPR007087	Zinc finger, C2H2
SMART	SM00355	110	121	151	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	5.5E-5	144	177	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.23E-7	151	177	No hit	No description
SMART	SM00355	94	156	176	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: 497 aa Download sequence Send to blast
MSNISGDDDD GSFSSGDKQQ QLQINKFPVS GASNTNGSSS SSSQQPLQGA KRKRNLPGTP 60 DPNAEVIALS PTTLMAKNRF VCEICKKGFQ RDQNLQLHRR GHNLPWKLKQ RATTEVKKRV 120 YVCPEPSCVH HNAARALGDL TGIKKHFSRK HGEKKWKCDK CSKKYAVQSD WKAHQKTCGT 180 KEYKCDCGTI FARRDSFITH RAFCDALAEE NNKVNNNHGA LMNNMGSPSS QNQIAELMSS 240 SMSMSGNVLP DFKSLPQELV PMQFKSMNMG GGGGIFSSSS GTLFGGPRTI SSASSSLQLS 300 TNTSSGFSYL QDNINGCCQV SGSPHMSATA LLQKAAQMGS AGSNSINSTM MQKSFETPYD 360 QFPVSQADQS NMVGISHGSP NEMTQLFNAA TEAMNDMGMF TTTTNMFINQ GGLMMNNHME 420 HEDSASPTVP SIFGVSNGGS NMTTLDFMGI NNEGSRTTAA NLHEEQFEQQ RMPMMNPFQQ 480 QQLSHGDSAI EKPIWDV

Sequence ? help Back to Top

Protein Sequence Length: 497 aa Download sequence Send to blast

MSNISGDDDD GSFSSGDKQQ QLQINKFPVS GASNTNGSSS SSSQQPLQGA KRKRNLPGTP  60
DPNAEVIALS PTTLMAKNRF VCEICKKGFQ RDQNLQLHRR GHNLPWKLKQ RATTEVKKRV  120
YVCPEPSCVH HNAARALGDL TGIKKHFSRK HGEKKWKCDK CSKKYAVQSD WKAHQKTCGT  180
KEYKCDCGTI FARRDSFITH RAFCDALAEE NNKVNNNHGA LMNNMGSPSS QNQIAELMSS  240
SMSMSGNVLP DFKSLPQELV PMQFKSMNMG GGGGIFSSSS GTLFGGPRTI SSASSSLQLS  300
TNTSSGFSYL QDNINGCCQV SGSPHMSATA LLQKAAQMGS AGSNSINSTM MQKSFETPYD  360
QFPVSQADQS NMVGISHGSP NEMTQLFNAA TEAMNDMGMF TTTTNMFINQ GGLMMNNHME  420
HEDSASPTVP SIFGVSNGGS NMTTLDFMGI NNEGSRTTAA NLHEEQFEQQ RMPMMNPFQQ  480
QQLSHGDSAI EKPIWDV

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-32	152	217	3	72	Zinc finger protein JACKDAW
5b3h_F	2e-32	152	217	3	72	Zinc finger protein JACKDAW
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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	AC243131	0.0	AC243131.1 Gossypium hirsutum clone MX002H10-jne, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016725079.1	0.0	PREDICTED: protein indeterminate-domain 2-like
Swissprot	Q9SCQ6	1e-113	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A1U8MHP7	0.0	A0A1U8MHP7_GOSHI; protein indeterminate-domain 2-like
STRING	Gorai.008G009800.1	0.0	(Gossypium raimondii)

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
AT5G44160.1	2e-97	C2H2-like zinc finger protein

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]