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_A12G0073

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: 498aa MW: 54381 Da PI: 8.4325

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_A12G0073	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_A12G0073 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_A12G0073 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 GSFSSGEKQQ 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 SMSMSNGNEL PDFKSLPQEL VPMQFKSMNM GGGGGIFASS SGTLFRGPRT ISSSSSSLQL 300 STNTSSGFSY LQDNINGCCQ VSGSPHMSAT ALLQKAAQMG SAGSNSINST MMQKSFETPY 360 DQFPVSQADQ SNMVGISHGS PNEMTQLFNA ATGAMNDMGM FTTTTNMFIK RGGLMMNNHM 420 EHEDSASPTV PLIVGVSNGG SNMTTLDFMG INNEGSRTTA ANLHEEQFEQ QRMPMMNPFQ 480 QQQLSHGDSA IEKPIWDV

Sequence ? help Back to Top

Protein Sequence Length: 498 aa Download sequence Send to blast

MSNISGDDDD GSFSSGEKQQ 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
SMSMSNGNEL PDFKSLPQEL VPMQFKSMNM GGGGGIFASS SGTLFRGPRT ISSSSSSLQL  300
STNTSSGFSY LQDNINGCCQ VSGSPHMSAT ALLQKAAQMG SAGSNSINST MMQKSFETPY  360
DQFPVSQADQ SNMVGISHGS PNEMTQLFNA ATGAMNDMGM FTTTTNMFIK RGGLMMNNHM  420
EHEDSASPTV PLIVGVSNGG SNMTTLDFMG INNEGSRTTA ANLHEEQFEQ QRMPMMNPFQ  480
QQQLSHGDSA IEKPIWDV

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-33	152	217	3	72	Zinc finger protein JACKDAW
5b3h_F	1e-33	152	217	3	72	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}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC243155	0.0	AC243155.1 Gossypium hirsutum clone MX115K12-joo, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016717031.1	0.0	PREDICTED: protein indeterminate-domain 2-like
Swissprot	Q9SCQ6	1e-115	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A1U8LR27	0.0	A0A1U8LR27_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
AT3G50700.1	1e-100	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]