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

maker-scaffold00235-augustus-gene-0.30-mRNA-1

Organism

Castanea mollissima

Taxonomic ID

60419

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Fagaceae; Castanea

Family

C2H2

Protein Properties

Length: 482aa MW: 53398.1 Da PI: 9.3006

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
maker-scaffold00235-augustus-gene-0.30-mRNA-1	genome	THGP	View Nucleic Acid

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.3	1.3e-05	6	28	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H maker-scaffold00235-augustus-gene-0.30-mRNA-1 6 FVCEICNKGFQRDQNLQLHRRGH 28 89*******************88 PP
2	zf-C2H2	15.7	4.3e-05	82	104	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H++t+ maker-scaffold00235-augustus-gene-0.30-mRNA-1 82 WKCDKCSKKYAVQSDWKAHQKTC 104 58*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	3.76E-8	5	28	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.6E-5	5	28	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.949	6	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.017	6	28	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	7.6E-5	6	28	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	8	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	100	47	77	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	5.5E-5	70	103	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.76E-8	77	103	No hit	No description
SMART	SM00355	94	82	102	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: 482 aa Download sequence Send to blast
MATNRFVCEI CNKGFQRDQN LQLHRRGHNL PWKLRQRTST EVKKRVYICP EPSCVHHNPA 60 RALGDLTGIK KHFSRKHGEK KWKCDKCSKK YAVQSDWKAH QKTCGTREYK CDCGTIFSRR 120 DSFITHRAFC DALAEENNKV NQGLMNNNIG SNLDTQMPEL MASMPMNTTT NTSIGTSEFN 180 NFDPKNPLKS LPQELVPIPF KSMNMGGLLS TSSGTLFGGP KTSSSSSLHL SSNSSSGLNY 240 LQDNKNGCQI SGSAHMSATA LLQKAAQMGA TASNNTINSA MMPNRLVSAS MAVNHDKISS 300 IRPPYSSSAF QQHNINTSYD HFQPQPGQSN MVGINGGAFI NQEPLQKVPQ ISLLFDSTTT 360 TSTGGGSTIN DMAMFSQMIM NQGFMMKNIE QADSTSSSLI HGKATVELSQ TEPSSFRGSD 420 RTTVDFMGIG GSRPVNMHEQ QQQRQQRLEL EAISQQRFPI MNPFQQQFTH GDSGIEKPFW 480 DV

Sequence ? help Back to Top

Protein Sequence Length: 482 aa Download sequence Send to blast

MATNRFVCEI CNKGFQRDQN LQLHRRGHNL PWKLRQRTST EVKKRVYICP EPSCVHHNPA  60
RALGDLTGIK KHFSRKHGEK KWKCDKCSKK YAVQSDWKAH QKTCGTREYK CDCGTIFSRR  120
DSFITHRAFC DALAEENNKV NQGLMNNNIG SNLDTQMPEL MASMPMNTTT NTSIGTSEFN  180
NFDPKNPLKS LPQELVPIPF KSMNMGGLLS TSSGTLFGGP KTSSSSSLHL SSNSSSGLNY  240
LQDNKNGCQI SGSAHMSATA LLQKAAQMGA TASNNTINSA MMPNRLVSAS MAVNHDKISS  300
IRPPYSSSAF QQHNINTSYD HFQPQPGQSN MVGINGGAFI NQEPLQKVPQ ISLLFDSTTT  360
TSTGGGSTIN DMAMFSQMIM NQGFMMKNIE QADSTSSSLI HGKATVELSQ TEPSSFRGSD  420
RTTVDFMGIG GSRPVNMHEQ QQQRQQRLEL EAISQQRFPI MNPFQQQFTH GDSGIEKPFW  480
DV

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	4e-35	78	148	3	72	Zinc finger protein JACKDAW
5b3h_F	4e-35	78	148	3	72	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_023891921.1	0.0	protein indeterminate-domain 2-like
Swissprot	Q9SCQ6	7e-99	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A061DSA6	0.0	A0A061DSA6_THECC; Indeterminate(ID)-domain 2
STRING	EOX94991	0.0	(Theobroma cacao)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF2192	30	85

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G50700.1	7e-87	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]