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

Gorai.008G009800.1

Common Name

B456_008G009800, LOC105762661

Organism

Gossypium raimondii

Taxonomic ID

29730

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: 498aa MW: 54187.6 Da PI: 8.1853

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.008G009800.1	genome	JGI	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 Gorai.008G009800.1 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+ Gorai.008G009800.1 156 WKCDKCSKKYAVQSDWKAHQKTC 178 58*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	9.9E-5	79	102	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.34E-7	79	102	No hit	No description
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	1.34E-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: 498 aa Download sequence Send to blast
MSNISGDDDD GSFSSGDKQQ QLQINKFPVS GASNTNGSSS SSSQQPLQGA KRKRNLPGTP 60 DPNAEVIALS PTTLMATNRF VCEICKKGFQ RDQNLQLHRR GHNLPWKLKQ RATTEVKKRV 120 YVCPEPSCVH HNAARALGDL TGIKKHFSRK HGEKKWKCDK CSKKYAVQSD WKAHQKTCGT 180 KEYKCDCGTI FARRDSFITH RAFCDALAEE NNKVNNNHGA LMNNMGSPNS QNQIAELMSS 240 SMSMSGNVLP DFKSLPQELV PMQFKSMNMG GGGGIFSSSS GTLFGGPRTI SSASSSLQLS 300 TNTSSGFSYL QDNINGCCQV SGSPHMSATA LLQKAAQMGS AGSNSINSTM MQKSFETPYD 360 QFPVSQADQS NMVGISHGSP NEMTQLFNAA TEAMNHMGMF TTTTNMFINQ GGLMMNNHME 420 HEDSASPTVP SIFGVSNGGS NMTTLDFMGI NNEGSRTTAA NLHEEQFEQQ RMSMMNPFQQ 480 QQLSHGDSAI EKPIWDV*

Sequence ? help Back to Top

Protein Sequence Length: 498 aa Download sequence Send to blast

MSNISGDDDD GSFSSGDKQQ QLQINKFPVS GASNTNGSSS SSSQQPLQGA KRKRNLPGTP  60
DPNAEVIALS PTTLMATNRF VCEICKKGFQ RDQNLQLHRR GHNLPWKLKQ RATTEVKKRV  120
YVCPEPSCVH HNAARALGDL TGIKKHFSRK HGEKKWKCDK CSKKYAVQSD WKAHQKTCGT  180
KEYKCDCGTI FARRDSFITH RAFCDALAEE NNKVNNNHGA LMNNMGSPNS QNQIAELMSS  240
SMSMSGNVLP DFKSLPQELV PMQFKSMNMG GGGGIFSSSS GTLFGGPRTI SSASSSLQLS  300
TNTSSGFSYL QDNINGCCQV SGSPHMSATA LLQKAAQMGS AGSNSINSTM MQKSFETPYD  360
QFPVSQADQS NMVGISHGSP NEMTQLFNAA TEAMNHMGMF TTTTNMFINQ GGLMMNNHME  420
HEDSASPTVP SIFGVSNGGS NMTTLDFMGI NNEGSRTTAA NLHEEQFEQQ RMSMMNPFQQ  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}.

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	AC243108	0.0	AC243108.1 Gossypium raimondii clone GR__Ba0022M02-hvj, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012435929.1	0.0	PREDICTED: protein indeterminate-domain 2-like
Swissprot	Q9SCQ6	1e-114	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A0D2PLV4	0.0	A0A0D2PLV4_GOSRA; Uncharacterized protein
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	4e-98	C2H2-like zinc finger protein

Link Out ? help Back to Top
Phytozome	Gorai.008G009800.1
Entrez Gene	105762661

Publications ? help Back to Top
Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886] 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]