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

Cc01_g20530

Common Name

GSCOC_T00015921001

Organism

Coffea canephora

Taxonomic ID

49390

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Rubiaceae; Ixoroideae; Coffeeae; Coffea

Family

C2H2

Protein Properties

Length: 493aa MW: 53957.2 Da PI: 9.2743

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cc01_g20530	genome	CGSC	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	86	108	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Cc01_g20530 86 FVCEICNKGFQRDQNLQLHRRGH 108 89*******************88 PP
2	zf-C2H2	15.6	4.4e-05	162	184	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H++t+ Cc01_g20530 162 WKCDKCSKKYAVQSDWKAHQKTC 184 58*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	6.4E-8	85	108	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.6E-5	85	108	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
Pfam	PF12171	7.8E-5	86	108	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.017	86	108	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.949	86	108	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	88	108	IPR007087	Zinc finger, C2H2
SMART	SM00355	77	127	157	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.7E-5	150	183	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	6.4E-8	157	183	No hit	No description
SMART	SM00355	94	162	182	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: 493 aa Download sequence Send to blast
MSNLSGDEGS FSSGEEHQAD KQPQQLQSQS HGSNFAATNT NGSSSQQQQQ QQQPGAKKKR 60 NLPGTPDPTA EVVALSPTTL MATNRFVCEI CNKGFQRDQN LQLHRRGHNL PWKLKQRTTT 120 EVRKRVYICP EPTCVHHNPA RALGDLTGIK KHYSRKHGEK KWKCDKCSKK YAVQSDWKAH 180 QKTCGTREYK CDCGTIFSRR DSFITHRAFC DALAEENNKV NQGLMNSMGP NMQGQMPDFM 240 SSMPMNPNAN TSMGLSEFNN FDPKNPLKSL PQDLVPMPFK PTNMVGGMFS SSSGTLFGSP 300 KGISSSCSGL QLSSNTPSSF NYLQEGKNGS QLSGSPHMSA TALLQKAAQM GATASNTINS 360 PMMQKSFVGS MAGPDQIAGP KSSAYSSMQQ HNINNSNNAS YENFATHQPD QSGRSPAAGP 420 TRMRGGNGND VTTVDFLGIG VSRPPNVHEQ QQRLDQLEAM SQHRMQVMDP FHQQLSHGHG 480 EPAHVEKPLW DV*

Sequence ? help Back to Top

Protein Sequence Length: 493 aa Download sequence Send to blast

MSNLSGDEGS FSSGEEHQAD KQPQQLQSQS HGSNFAATNT NGSSSQQQQQ QQQPGAKKKR  60
NLPGTPDPTA EVVALSPTTL MATNRFVCEI CNKGFQRDQN LQLHRRGHNL PWKLKQRTTT  120
EVRKRVYICP EPTCVHHNPA RALGDLTGIK KHYSRKHGEK KWKCDKCSKK YAVQSDWKAH  180
QKTCGTREYK CDCGTIFSRR DSFITHRAFC DALAEENNKV NQGLMNSMGP NMQGQMPDFM  240
SSMPMNPNAN TSMGLSEFNN FDPKNPLKSL PQDLVPMPFK PTNMVGGMFS SSSGTLFGSP  300
KGISSSCSGL QLSSNTPSSF NYLQEGKNGS QLSGSPHMSA TALLQKAAQM GATASNTINS  360
PMMQKSFVGS MAGPDQIAGP KSSAYSSMQQ HNINNSNNAS YENFATHQPD QSGRSPAAGP  420
TRMRGGNGND VTTVDFLGIG VSRPPNVHEQ QQRLDQLEAM SQHRMQVMDP FHQQLSHGHG  480
EPAHVEKPLW DV*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-33	158	221	3	66	Zinc finger protein JACKDAW
5b3h_F	2e-33	158	221	3	66	Zinc finger protein JACKDAW
Search in ModeBase

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_027174023.1	0.0	zinc finger protein GAI-ASSOCIATED FACTOR 1-like
Swissprot	Q9SCQ6	1e-114	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A068U7D2	0.0	A0A068U7D2_COFCA; Uncharacterized protein
STRING	XP_009620710.1	0.0	(Nicotiana tomentosiformis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA103	24	350

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G44160.1	1e-102	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]